Citrus Sinensis ID: 046770

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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-----
Protein Sequence
MPKFPLDNSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
Secondary Structure (PSIPRED)
ccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccEEEEEEccccccHHHHHHHHHccHHHHHccccEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccccHHcHHHHHHHHcccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHcccccccccccccccHHHHccccccHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEccccEEcccHHHHHHHHHHHcccccccccccEEEEEEEccccccHHHHHHHHHccHHHHHcccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHcHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHcHHccccccccccHHHHHEcHHcccHHHHHHHHHHEEcccccEEcccEEcc
Coil and Loop (DISEMBL)
mpkfpldnsfrfrnqKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLlepaaadhhqpstskfpkfirtwgtnlglpsikldYKVVSKVEEVNARLQDIAMQIQpldlrekyggrskrfrqrrpttslVHEAKVYGRSKEREEIVELLLKedgtshnnnhFSVVSIIGMGGLGKTTLAQLVYndsrvqchfDLKAwtyvsqdfdIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNenyndwidlsrpfqdgapgskiiiTTRNADAALIMGTVqayplkglsnddcmclftqhsletrdfsmhqplKEIGAKIVIKCNGLPLAAKALGCllhgkydpsdwesVLNSRIwdlsqgrcdIVHTLALSYHYLSRPLKKCFAycslfpkdyefqeEETIL
Flexible Loop (DISEMBL)
mpkfpldnsfrfrnqketMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDaeekqtreeSVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLepaaadhhqpstskfpkfIRTWGTNLGLPSIKLDYKVVSKVEEVNARLqdiamqiqpldlrekyggrskrfrqrrpttslvheakvygrskereEIVELLlkedgtshnnNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAwtyvsqdfdIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
Low Complexity Region (SEG)
MPKFPLDNSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDlnllqwklkkqlFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
Disordered region (IsUnstruct)
********************KIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIED*********SVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEP***********KFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDL***********************************IVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYE********
Disordered Region (DISOPRED)
*******NSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALR*******************FPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLD********************LVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV************LQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETR**SMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
Disordered Region (DISEMBL)
MPKFPLDNSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIED********ESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPA********TSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGR*********TTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYE********
Disordered Region (DISPRO)
*PKFPLDNSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLL****************KFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLR****************TSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPKFPLDNSFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYxxxxxxxxxxxxxxxxxxxxxxxxxxxxKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL
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	475	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.924	0.416	0.387	6e-84
Q7XA40	992	Putative disease resistan	N/A	no	0.808	0.387	0.421	3e-78
Q7XBQ9	970	Disease resistance protei	N/A	no	0.873	0.427	0.390	3e-76
Q7XA42	979	Putative disease resistan	N/A	no	0.884	0.429	0.377	7e-75
Q7XA39	988	Putative disease resistan	N/A	no	0.877	0.422	0.371	1e-72
Q9LRR5	1424	Putative disease resistan	no	no	0.911	0.304	0.324	4e-61
Q9SX38	857	Putative disease resistan	no	no	0.873	0.484	0.301	2e-40
Q38834	852	Disease resistance RPP13-	no	no	0.888	0.495	0.278	2e-40
Q9C646	899	Probable disease resistan	no	no	0.894	0.472	0.294	2e-39
P0C8S1	906	Probable disease resistan	no	no	0.867	0.454	0.305	6e-39

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

 Score =  311 bits (798), Expect = 6e-84,   Method: Compositional matrix adjust.
 Identities = 177/457 (38%), Positives = 276/457 (60%), Gaps = 18/457 (3%)

Query: 22  IVSVSIEMLLEKLASEAV-VLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVK 80
            ++  ++ L + L SE     F RRE   + L +    L  I AV+ DAEEKQ     V+
Sbjct: 8   FLAAFLQALFQTLVSEPFRSFFKRRELNENLLERLSTALLTITAVLIDAEEKQITNPVVE 67

Query: 81  MWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLP 140
            W+ EL+++ Y  ED L +  TEALR  +  E ++++  +    +      + G  L   
Sbjct: 68  KWVNELRDVVYHAEDALDDIATEALRLNIGAESSSSNRLRQLRGRM-----SLGDFLDGN 122

Query: 141 SIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGR 200
           S  L+    +++E+V  RL+ +A Q   L L+E      K   QR PTTSLV E++V+GR
Sbjct: 123 SEHLE----TRLEKVTIRLERLASQRNILGLKELTAMIPK---QRLPTTSLVDESEVFGR 175

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
             +++EI+  L+ E+G    +N  +VV+I+G+GG+GKTTL+QL+YND  V+ +F  K W 
Sbjct: 176 DDDKDEIMRFLIPENG---KDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWA 232

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK--RFLLVLDDVWNENYN 318
           +VS++FD+ ++TK +  SV     +  DL++LQ KLK++L G    FLLVLDD+WNEN+ 
Sbjct: 233 HVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFA 292

Query: 319 DWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRD 378
           DW  L +PF   A GS+I++TTR+   A IM  V  + L+ LS+ DC  LF +     ++
Sbjct: 293 DWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQE 352

Query: 379 FSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIV 438
             +++ + ++  +IV KC GLPLA K LG +L  +    +WE VL+SRIWDL   + +++
Sbjct: 353 PCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPADKSNLL 412

Query: 439 HTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
             L +SY+YL   LK+CFAYCS+FPK + F++++ +L
Sbjct: 413 PVLRVSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVL 449

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

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

 Score =  292 bits (748), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 174/413 (42%), Positives = 241/413 (58%), Gaps = 29/413 (7%)

Query: 62  IKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQP 121
           I+AV+EDA+EKQ + +++K WL +L   AY+V+D+L + +TEA R K     A    + P
Sbjct: 41  IQAVLEDAQEKQLKYKAIKNWLQKLNVAAYEVDDILDDCKTEAARFK----QAVLGRYHP 96

Query: 122 STSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKR 181
            T  F                   YKV  +++E+  +L  IA + +   L E+     +R
Sbjct: 97  RTITFC------------------YKVGKRMKEMMEKLDAIAEERRNFHLDERI---IER 135

Query: 182 FRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA 241
              RR T  ++ E KVYGR KE +EIV++L+     S       V+ I+GMGGLGKTTLA
Sbjct: 136 QAARRQTGFVLTEPKVYGREKEEDEIVKILINNVSYSE---EVPVLPILGMGGLGKTTLA 192

Query: 242 QLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF 301
           Q+V+ND R+  HF+LK W  VS DFD  R+ K+I+ S+    +   DL  LQ KL++ L 
Sbjct: 193 QMVFNDQRITEHFNLKIWVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLN 252

Query: 302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLS 361
           GKR+ LVLDDVWNE+   W +L    + GA G+ I+ITTR      IMGT+Q Y L  LS
Sbjct: 253 GKRYFLVLDDVWNEDQEKWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLS 312

Query: 362 NDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWES 421
            +DC  LF Q +           L EIG +IV KC G+PLAAK LG LL  K + S+WE 
Sbjct: 313 QEDCWLLFKQRAF-CHQTETSPKLMEIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEH 371

Query: 422 VLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
           V +S IW+L Q    ++  L LSYH+L   L++CFAYC++FPKD + ++E  I
Sbjct: 372 VRDSEIWNLPQDENSVLPALRLSYHHLPLDLRQCFAYCAVFPKDTKIEKEYLI 424

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 =  286 bits (731), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 177/453 (39%), Positives = 257/453 (56%), Gaps = 38/453 (8%)

Query: 27  IEMLLEKLAS----EAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMW 82
           I++LL+ L S    E V+LF       D   +       I+AV+EDA+EKQ   + ++ W
Sbjct: 6   IQVLLDNLTSFLKGELVLLFG----FQDEFQRLSSMFSTIQAVLEDAQEKQLNNKPLENW 61

Query: 83  LYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSI 142
           L +L    Y+V+D+L E++T+A R       +    + P                    I
Sbjct: 62  LQKLNAATYEVDDILDEYKTKATR----FSQSEYGRYHPKV------------------I 99

Query: 143 KLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSK 202
              +KV  ++++V  +L+ IA + +   L EK     +R   RR T S++ E +VYGR K
Sbjct: 100 PFRHKVGKRMDQVMKKLKAIAEERKNFHLHEKI---VERQAVRRETGSVLTEPQVYGRDK 156

Query: 203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV 262
           E++EIV++L+     +    H SV+ I+GMGGLGKTTLAQ+V+ND RV  HF  K W  V
Sbjct: 157 EKDEIVKILINNVSDAQ---HLSVLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIWICV 213

Query: 263 SQDFDIIRVTKSILRSV-AMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           S+DFD  R+ K+I+ S+    ++   DL  LQ KL++ L GKR+LLVLDDVWNE+   W 
Sbjct: 214 SEDFDEKRLIKAIVESIEGRPLLGEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQKWA 273

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
           +L    + GA G+ ++ TTR      IMGT+Q Y L  LS +DC  LF Q +   ++  +
Sbjct: 274 NLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQE-EI 332

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
           +  L  IG +IV K  G+PLAAK LG +L  K +   WE V +S IW+L Q    I+  L
Sbjct: 333 NPNLVAIGKEIVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDESSILPAL 392

Query: 442 ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
            LSYH L   LK+CFAYC++FPKD + ++E+ I
Sbjct: 393 RLSYHQLPLDLKQCFAYCAVFPKDAKMEKEKLI 425

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

 Score =  281 bits (720), Expect = 7e-75,   Method: Compositional matrix adjust.
 Identities = 171/453 (37%), Positives = 256/453 (56%), Gaps = 33/453 (7%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
            + V ++ L   L  E V+LF       D   +       I+AV+EDA+EKQ  ++ ++ 
Sbjct: 5   FIQVVLDNLTSFLKGELVLLFG----FQDEFQRLSSMFSTIQAVLEDAQEKQLNDKPLEN 60

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL +L    Y+V+D+L E++T+A R    L+     +H       PK I           
Sbjct: 61  WLQKLNAATYEVDDILDEYKTKATR---FLQSEYGRYH-------PKVI----------- 99

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRS 201
               +KV  ++++V  +L  IA + +   L+EK   R    R+   T S++ E +VYGR 
Sbjct: 100 -PFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKIIERQAATRE---TGSVLTEPQVYGRD 155

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
           KE++EIV++L+    T+ +    SV+ I+GMGGLGKTTL+Q+V+ND RV   F  K W  
Sbjct: 156 KEKDEIVKILI---NTASDAQKLSVLPILGMGGLGKTTLSQMVFNDQRVTERFYPKIWIC 212

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           +S DF+  R+ K+I+ S+    +   DL  LQ KL++ L GKR+ LVLDDVWNE+ + W 
Sbjct: 213 ISDDFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHKWA 272

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
           +L    + GA G+ ++ TTR      IMGT+Q Y L  LS +DC  LF Q +   ++  +
Sbjct: 273 NLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAFGHQE-EI 331

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
           +  L  IG +IV KC G+PLAAK LG +L  K +  +WE V +S IW+L Q    I+  L
Sbjct: 332 NPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDESSILPAL 391

Query: 442 ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
            LSYH+L   L++CF YC++FPKD +  +E  I
Sbjct: 392 RLSYHHLPLDLRQCFVYCAVFPKDTKMAKENLI 424

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 =  274 bits (700), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 168/452 (37%), Positives = 247/452 (54%), Gaps = 35/452 (7%)

Query: 27  IEMLLEKLAS----EAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMW 82
           +++LLE L S    + V++F   +       +       I+AV++DA+EKQ ++++++ W
Sbjct: 6   LQVLLENLTSFIGDKLVLIFGFEKECE----KLSSVFSTIQAVLQDAQEKQLKDKAIENW 61

Query: 83  LYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSI 142
           L +L + AY+V+D+LGE + EA+R     E +    + P                    I
Sbjct: 62  LQKLNSAAYEVDDILGECKNEAIR----FEQSRLGFYHPGI------------------I 99

Query: 143 KLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSK 202
              +K+  +++E+  +L  I+ + +     EK   R      R  T  ++ E KVYGR K
Sbjct: 100 NFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRE-TGFVLTEPKVYGRDK 158

Query: 203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV 262
           E +EIV++L+     +       V  IIGMGGLGKTTLAQ+++ND RV  HF+ K W  V
Sbjct: 159 EEDEIVKILINNVNVAE---ELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFNPKIWVCV 215

Query: 263 SQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWID 322
           S DFD  R+ K+I+ ++        DL   Q KL++ L GKR+LLVLDDVWN++   W  
Sbjct: 216 SDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAK 275

Query: 323 LSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMH 382
           L      GA G+ I+ TTR      IMGT+Q Y L  LS  D + LF Q +   +    +
Sbjct: 276 LRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAFGQQK-EAN 334

Query: 383 QPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLA 442
             L  IG +IV KC G+PLAAK LG LL  K + S+WE V ++ IW L Q    I+  L 
Sbjct: 335 PNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDESSILPALR 394

Query: 443 LSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
           LSYH+L   L++CFAYC++FPKD +  +E  I
Sbjct: 395 LSYHHLPLDLRQCFAYCAVFPKDTKMIKENLI 426

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

 Score =  236 bits (601), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 148/456 (32%), Positives = 244/456 (53%), Gaps = 23/456 (5%)

Query: 23  VSVSIEMLLEKL-ASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           +S    +++E++  S+ +V   + +     L + K  L     V+ DA+++      VK 
Sbjct: 6   LSSCANVMVERINTSQELVELCKGKSSSALLKRLKVALVTANPVLADADQRAEHVREVKH 65

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL  +++  +  ED+L E +TEALRR+++ E                 +     NL    
Sbjct: 66  WLTGIKDAFFQAEDILDELQTEALRRRVVAEAGG--------------LGGLFQNLMAGR 111

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQ-RRPTTSLVHEAKVYGR 200
             +  K+  K+E+V   L+     I+ + L+E    R  ++RQ  R     + + ++ GR
Sbjct: 112 EAIQKKIEPKMEKVVRLLEHHVKHIEVIGLKEYSETREPQWRQASRSRPDDLPQGRLVGR 171

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
            +++  +V LLL +D  S      +V+S++GM G+GKTTL ++V+ND RV  HF++K W 
Sbjct: 172 VEDKLALVNLLLSDDEISIGKP--AVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWI 229

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDW 320
               +F++  VTK++L+ +    V+  DL  LQ +LKK L GKRFLLVLDD W+E+ ++W
Sbjct: 230 SAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEW 289

Query: 321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF- 379
                 F D   GSKI++TTR+   + +    + Y +K ++N++C  L ++ +       
Sbjct: 290 ESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVG 349

Query: 380 SMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVH 439
           S++Q L+ IG +I  +C GLPLAA+A+   L  K +P DW +V      + S     I+ 
Sbjct: 350 SINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSK----NFSSYTNSILP 405

Query: 440 TLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
            L LSY  L   LK+CFA CS+FPK + F  EE +L
Sbjct: 406 VLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVL 441

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  167 bits (423), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 141/467 (30%), Positives = 228/467 (48%), Gaps = 52/467 (11%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           IVSV+++    KL    +        I D + Q +  L+++   ++DA+EKQ   E V+ 
Sbjct: 5   IVSVTVQ----KLGQLLLEEPLFLFGIGDQVKQLQDELKRLNCFLKDADEKQHESERVRN 60

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           W+  ++  +YD ED+L  F  +A  RK                   + +R     L   +
Sbjct: 61  WVAGIREASYDAEDILEAFFLKAESRK--------------QKGMKRVLRRLACILN-EA 105

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYG----GRSKRFRQRRPTTSLVHEAKV 197
           + L + V S++ E+ +RL  IA  +    ++E  G      S   R++R +   V E  +
Sbjct: 106 VSL-HSVGSEIREITSRLSKIAASMLDFGIKESMGREGLSLSDSLREQRQSFPYVVEHNL 164

Query: 198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLK 257
            G  +  E++V  L+             V SI GMGGLGKTTLA+ +++  +V+ HFD  
Sbjct: 165 VGLEQSLEKLVNDLVS------GGEKLRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRF 218

Query: 258 AWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL--FGKR--FLLVLDDVW 313
           AW YVSQD     V + I  +++    +   L+L   +L ++L  F KR   L+VLDD+W
Sbjct: 219 AWVYVSQDCRRRHVWQDIFLNLSYKDENQRILSLRDEQLGEELHRFLKRNKCLIVLDDIW 278

Query: 314 NENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIM---GTVQAYPLKGLSNDDCMCLFT 370
            ++  D +    P +    GS+II+TTRN + AL     G +    L  L+ ++   L  
Sbjct: 279 GKDAWDCLKHVFPHE---TGSEIILTTRNKEVALYADPRGVLHEPQL--LTCEESWELLE 333

Query: 371 QHSLETRDF---SMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRI 427
           + SL  R+     + + ++EIG +IV++C GLPLA   LG LL  K   ++W+ V  +  
Sbjct: 334 KISLSGRENIEPMLVKKMEEIGKQIVVRCGGLPLAITVLGGLLATKSTWNEWQRVCENIK 393

Query: 428 WDLSQGRCD-------IVHTLALSYHYLSRPLKKCFAYCSLFPKDYE 467
             +S G          +   L LSY YL   +K+CF Y + +P+DYE
Sbjct: 394 SYVSNGGSSNGSKNMLVADVLCLSYEYLPPHVKQCFLYFAHYPEDYE 440

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 =  167 bits (423), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 129/464 (27%), Positives = 233/464 (50%), Gaps = 42/464 (9%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           +V+V +E  L  L  +   +   R+++ D     +  L+ +++ ++DAE ++   E+++ 
Sbjct: 5   VVTVFLEKTLNILEEKGRTVSDYRKQLEDL----QSELKYMQSFLKDAERQKRTNETLRT 60

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
            + +L+ L Y+ ED+L + +         L      + Q S++        W + L    
Sbjct: 61  LVADLRELVYEAEDILVDCQ---------LADGDDGNEQRSSN-------AWLSRLHPAR 104

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRS 201
           + L YK   +++E+N R+  I  Q++P           +     R ++ +    +V G  
Sbjct: 105 VPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGLE 164

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
            ++ +I E L +      N++   +++ +GMGGLGKTT+AQ V+ND  ++  F+ + W  
Sbjct: 165 GDKRKIKEWLFRS-----NDSQLLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVS 219

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           VSQ F   ++ +SILR++    V  +D+  L  K+++ L GKR+L+V+DDVW++N + W 
Sbjct: 220 VSQTFTEEQIMRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWD 278

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKG-----LSNDDCMCLFTQHSLET 376
            + +    G  GS +I+TTR+   A     VQA   K      LS D+   LF   +   
Sbjct: 279 KIYQGLPRGQGGS-VIVTTRSESVA---KRVQARDDKTHRPELLSPDNSWLLFCNVAFAA 334

Query: 377 RDFSMHQP-LKEIGAKIVIKCNGLPLAAKALGCLLHGK-YDPSDWESVLNSRIWDLSQGR 434
            D +  +P L+++G +IV KC GLPL  KA+G LL  K +   +W  +      D  +G 
Sbjct: 335 NDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIA-EHFQDELRGN 393

Query: 435 C----DIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
                +++ +L LSY  L   LK C    SL+P+D    +++ +
Sbjct: 394 TSETDNVMSSLQLSYDELPSHLKSCILTLSLYPEDCVIPKQQLV 437

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C646|RX24L_ARATH Probable disease resistance protein RXW24L OS=Arabidopsis thaliana GN=RXW24L PE=2 SV=1

 Score =  164 bits (414), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 137/465 (29%), Positives = 230/465 (49%), Gaps = 40/465 (8%)

Query: 21  KIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVK 80
           ++VS  +E L ++L+ E    + + + + D + + K  L  +K+ ++DA+ K+   E V+
Sbjct: 2   ELVSFGVEKLWDRLSQE----YDQFKGVEDQVTELKSNLNLLKSFLKDADAKKHISEMVR 57

Query: 81  MWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLP 140
             + E++++ YD ED++   ET  L+ K+ ++            +  +F  T      L 
Sbjct: 58  HCVEEIKDIVYDTEDII---ETFILKEKVEMKRGIM-------KRIKRFASTIMDRRELA 107

Query: 141 SIKLDYKVVSK-VEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYG 199
           S   D   +SK + +V   +Q   +Q    D         +R R+ R T S   E    G
Sbjct: 108 S---DIGGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTFSRDSENDFVG 164

Query: 200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAW 259
                +++V  L+++D        + +VS+ GMGGLGKTTLA+ V+N   V+  FD  AW
Sbjct: 165 MEANVKKLVGYLVEKDD-------YQIVSLTGMGGLGKTTLARQVFNHDVVKDRFDGFAW 217

Query: 260 TYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF----GKRFLLVLDDVWNE 315
             VSQ+F  I V ++IL+++          N+ +  L   LF      + L+VLDD+W E
Sbjct: 218 VSVSQEFTRISVWQTILQNLTSKERKDEIQNMKEADLHDDLFRLLESSKTLIVLDDIWKE 277

Query: 316 NYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQ-AYPLKGLSNDDCMCLFTQHSL 374
              DW DL +P      G K+++T+R    A+   T   ++  K LS  D   LF   ++
Sbjct: 278 --EDW-DLIKPIFPPKKGWKVLLTSRTESIAMRGDTTYISFKPKCLSIPDSWTLFQSIAM 334

Query: 375 ---ETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESV---LNSRIW 428
              +T +F + + ++ +G K++  C GL LA K LG LL  KY   DW+ +   + S I 
Sbjct: 335 PRKDTSEFKVDEEMENMGKKMIKHCGGLSLAVKVLGGLLAAKYTLHDWKRLSENIGSHIV 394

Query: 429 DLSQG-RCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEE 472
           + + G    I H L++S+  L   LK CF Y + FP+D+E   E+
Sbjct: 395 ERTSGNNSSIDHVLSVSFEELPNYLKHCFLYLAHFPEDHEIDVEK 439

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score =  162 bits (410), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 142/465 (30%), Positives = 232/465 (49%), Gaps = 53/465 (11%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           +VS  +E L E L+ E+    AR   I + +   K+ L +++++++DA+ K+   E V+ 
Sbjct: 5   VVSFGVEKLWELLSRES----ARLNGIDEQVDGLKRQLGRLQSLLKDADAKKNETERVRN 60

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           +L +++++ YD +D++  F    LR K                   K +RT      L  
Sbjct: 61  FLEDVKDIVYDADDIIESFLLNELRGK--------------EKGIKKQVRT------LAC 100

Query: 142 IKLDY-KVVSKVEEVNARLQDIAMQIQPLDLRE--KYGGRS----KRFRQRRPTTSLVHE 194
             +D  K  S +E +  R+ ++ + +Q L ++     GGRS    +R R+ R T S   E
Sbjct: 101 FLVDRRKFASDIEGITKRISEVIVGMQSLGIQHIADGGGRSLSLQERQREIRQTFSRNSE 160

Query: 195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF 254
           + + G  +  EE+V+ L++       N+   VVS+ GMGG+GKTTLA+ V++   V+ HF
Sbjct: 161 SDLVGLDQSVEELVDHLVE-------NDSVQVVSVSGMGGIGKTTLARQVFHHDIVRRHF 213

Query: 255 DLKAWTYVSQDF---DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDD 311
           D  +W  VSQ F   D+ +     LR    GI+  ++   LQ +L + L   R+LLVLDD
Sbjct: 214 DGFSWVCVSQQFTRKDVWQRILQDLRPYDEGIIQMDEYT-LQGELFELLESGRYLLVLDD 272

Query: 312 VWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMG-TVQAYPLKGLSNDDCMCLFT 370
           VW E   D I    P + G    K+++T+RN    L    T  A+  + L+ +    LF 
Sbjct: 273 VWKEEDWDRIKAVFPHKRGW---KMLLTSRNEGLGLHADPTCFAFRPRILTPEQSWKLFE 329

Query: 371 QHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDL 430
           +     RD +  +  + +G ++V  C GLPLA K LG LL  K+   +W+ V ++ +  +
Sbjct: 330 RIVSSRRDKTEFKVDEAMGKEMVTYCGGLPLAVKVLGGLLAKKHTVLEWKRVHSNIVTHI 389

Query: 431 --SQGRCD-----IVHTLALSYHYLSRPLKKCFAYCSLFPKDYEF 468
               G  D     +   L+LSY  L   LK CF Y + FP+DY+ 
Sbjct: 390 VGKSGLSDDNSNSVYRVLSLSYEDLPMQLKHCFFYLAHFPEDYKI 434

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	475
359487182	2283	PREDICTED: putative disease resistance p	0.936	0.194	0.526	1e-129
147862409	1466	hypothetical protein VITISV_042289 [Viti	0.936	0.303	0.526	1e-129
255556671	1318	Disease resistance protein RPS2, putativ	0.96	0.345	0.498	1e-120
359495026	2204	PREDICTED: uncharacterized protein LOC10	0.938	0.202	0.502	1e-120
359495024	1390	PREDICTED: putative disease resistance p	0.938	0.320	0.497	1e-119
147860511	1406	hypothetical protein VITISV_014536 [Viti	0.941	0.317	0.496	1e-119
359487188	1292	PREDICTED: putative disease resistance R	0.936	0.344	0.507	1e-118
296090360	1191	unnamed protein product [Vitis vinifera]	0.938	0.374	0.483	1e-117
359487170	1293	PREDICTED: putative disease resistance R	0.945	0.347	0.480	1e-116
359487176	1308	PREDICTED: putative disease resistance R	0.936	0.340	0.492	1e-116

>gi|359487182|ref|XP_003633528.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  468 bits (1204), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 239/454 (52%), Positives = 319/454 (70%), Gaps = 9/454 (1%)

Query: 22   IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
            I+S   E L  KLAS  ++ FAR+E++H  L +W+K L KI AV++DAEEKQ  +  VK+
Sbjct: 1019 ILSALFETLFFKLASSDLLKFARQEQVHAELKKWEKILLKIHAVLDDAEEKQMTDRLVKI 1078

Query: 82   WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
            WL EL++LAYDVED+L EF TEALRRKL+ E       +PSTS     I +  T+    +
Sbjct: 1079 WLDELRDLAYDVEDILDEFGTEALRRKLMAET------EPSTSMVCSLIPSCCTSFNPST 1132

Query: 142  IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRS 201
            ++ + K+ SK+EE+ ARLQ+I+ Q   L LRE  GG S   + R PTTSLV E++VYGR 
Sbjct: 1133 VRFNVKMGSKIEEITARLQEISGQKNDLHLRENAGGSSYTMKSRLPTTSLVDESRVYGRE 1192

Query: 202  KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
             ++E I+ LLLK++ +   ++   V+ I+GMGG+GKTTLAQL +ND +V+ HFDL+AW  
Sbjct: 1193 TDKEAILNLLLKDEPS---DDEVCVIPIVGMGGIGKTTLAQLAFNDCKVKDHFDLRAWVC 1249

Query: 262  VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
            VS DFD++RVTK+IL+SV++   D NDLNLLQ  LK++L G +FLLVLDDVWNEN  +W 
Sbjct: 1250 VSDDFDVVRVTKTILQSVSLDTHDVNDLNLLQVMLKEKLSGNKFLLVLDDVWNENCEEWD 1309

Query: 322  DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
             L  P + GAPGSK+IITTRN   A + GT  AYPL+ LS+ DC+ LFTQ +L TR F  
Sbjct: 1310 ILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYPLQELSHGDCLSLFTQQALGTRSFEA 1369

Query: 382  HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
            H  LKE+G +IV +C GLPLAAKALG +L  + +   W ++L S+IWDL Q +  ++  L
Sbjct: 1370 HPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNYDAWVNILKSKIWDLPQEKSSVLPAL 1429

Query: 442  ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
             LSYH+L   LK+CFAYCS+FPKDYEF ++E IL
Sbjct: 1430 KLSYHHLPSNLKRCFAYCSIFPKDYEFDKDELIL 1463

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862409|emb|CAN81911.1| hypothetical protein VITISV_042289 [Vitis vinifera]

 Score =  468 bits (1203), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 239/454 (52%), Positives = 319/454 (70%), Gaps = 9/454 (1%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           I+S   E L  KLAS  ++ FAR+E++H  L +W+K L KI AV++DAEEKQ  +  VK+
Sbjct: 8   ILSALFETLFFKLASSDLLKFARQEQVHAELKKWEKILLKIHAVLDDAEEKQMTDRLVKI 67

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL EL++LAYDVED+L EF TEALRRKL+ E       +PSTS     I +  T+    +
Sbjct: 68  WLDELRDLAYDVEDILDEFGTEALRRKLMAE------TEPSTSMVCSLIPSCCTSFNPST 121

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRS 201
           ++ + K+ SK+EE+ ARLQ+I+ Q   L LRE  GG S   + R PTTSLV E++VYGR 
Sbjct: 122 VRFNVKMGSKIEEITARLQEISGQKNDLHLRENAGGSSYTMKSRLPTTSLVDESRVYGRE 181

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
            ++E I+ LLLK++ +   ++   V+ I+GMGG+GKTTLAQL +ND +V+ HFDL+AW  
Sbjct: 182 TDKEAILNLLLKDEPS---DDEVCVIPIVGMGGIGKTTLAQLAFNDCKVEDHFDLRAWVC 238

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           VS DFD++RVTK+IL+SV++   D NDLNLLQ  LK++L G +FLLVLDDVWNEN  +W 
Sbjct: 239 VSDDFDVVRVTKTILQSVSLDTHDVNDLNLLQVMLKEKLSGNKFLLVLDDVWNENCEEWD 298

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
            L  P + GAPGSK+IITTRN   A + GT  AYPL+ LS+ DC+ LFTQ +L TR F  
Sbjct: 299 ILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYPLQELSHGDCLSLFTQQALGTRSFEA 358

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
           H  LKE+G +IV +C GLPLAAKALG +L  + +   W ++L S+IWDL Q +  ++  L
Sbjct: 359 HPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNYDAWVNILKSKIWDLPQEKSSVLPAL 418

Query: 442 ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
            LSYH+L   LK+CFAYCS+FPKDYEF ++E IL
Sbjct: 419 KLSYHHLPSNLKRCFAYCSIFPKDYEFDKDELIL 452

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556671|ref|XP_002519369.1| Disease resistance protein RPS2, putative [Ricinus communis] gi|223541436|gb|EEF42986.1| Disease resistance protein RPS2, putative [Ricinus communis]

 Score =  438 bits (1127), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 233/467 (49%), Positives = 314/467 (67%), Gaps = 11/467 (2%)

Query: 9   SFRFRNQKETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIED 68
           +F   N       ++S  +++L +KLAS  ++ FAR+E+++  + +W+K L KI AV++D
Sbjct: 16  AFLVPNMSIIGEAVLSAFLQVLFDKLASPELLKFARQEQVYADIKKWEKILLKIHAVLDD 75

Query: 69  AEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPK 128
           AEEKQ   + VK+WL EL++LAYDVED+L EF TEA+ R L+ E  A      +TSK  K
Sbjct: 76  AEEKQLTNQFVKIWLAELRDLAYDVEDILDEFATEAVHRGLIFESEA------NTSKLLK 129

Query: 129 FIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPT 188
            I T    +   S+    +++SK++ +  RLQ I+ Q   L+LRE   G S + R+R PT
Sbjct: 130 LIHTCNGLISSNSV-FRVRMISKMKGITTRLQAISNQKNYLNLRENLEGSSTKVRKRLPT 188

Query: 189 TSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS 248
           TSLV+E +V+GR +++E ++ELLL +     N++   V++IIGMGG+GKTTLAQLV+ND+
Sbjct: 189 TSLVNETQVFGRERDKEAVLELLLTDYA---NDSKVCVIAIIGMGGVGKTTLAQLVFNDT 245

Query: 249 RVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLV 308
           +V+  FDLK W  VS +FD++ +TKSIL S+    V  N LNLLQ +L+  L  KRFLLV
Sbjct: 246 KVKDSFDLKVWACVSDEFDVLNITKSILESITNRSVGSN-LNLLQGRLQDILTEKRFLLV 304

Query: 309 LDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCL 368
           LDDVWNENY  W  L  PF +GAPGSKI++TTR    A +MG+V  Y LK L  D C+ L
Sbjct: 305 LDDVWNENYQYWDALCSPFSNGAPGSKILVTTRCESVASVMGSVAIYHLKELPYDSCLLL 364

Query: 369 FTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIW 428
           FTQ SL T +F  H  LKEIG  IV KC GLPLAAK LG LLH K    +WE + +S+IW
Sbjct: 365 FTQLSLGTNNFDAHPSLKEIGEGIVEKCKGLPLAAKTLGSLLHTKVSQDEWEDIFSSKIW 424

Query: 429 DLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
           DLS+ +  I+  L LSYH+L   LK+CFAYCS+FPKDYEF +EE IL
Sbjct: 425 DLSEEQSGILPALRLSYHHLPSHLKQCFAYCSIFPKDYEFSKEELIL 471

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495026|ref|XP_003634900.1| PREDICTED: uncharacterized protein LOC100854556 [Vitis vinifera]

 Score =  438 bits (1126), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 228/454 (50%), Positives = 313/454 (68%), Gaps = 8/454 (1%)

Query: 23  VSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMW 82
           +S SI+ L++ LA   +  FAR E++H  L +W+  L KI AV+ DAEEKQ     V++W
Sbjct: 9   LSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQMTNRFVQIW 68

Query: 83  LYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSI 142
           L EL++LAYDVED+L +F TEALRRKL+      D  QPSTS     I +  +     ++
Sbjct: 69  LAELRDLAYDVEDILDDFATEALRRKLI-----TDDPQPSTSTVRSIISSLSSRFNPNAL 123

Query: 143 KLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRP-TTSLVHEAKVYGRS 201
             +  + SK+EE+ ARL +I+ Q   LDLRE    RS R R+R P TTSLV E++VYGR 
Sbjct: 124 VYNLNMGSKLEEITARLHEISTQKGDLDLRENVEERSNRKRKRVPETTSLVVESRVYGRE 183

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
            ++E I+E+LL+++  S ++N   V+ I+GMGG+GKTTLAQL Y+D RV+ HFDL+AW  
Sbjct: 184 TDKEAILEVLLRDE--SIHDNEVCVIPIVGMGGVGKTTLAQLAYHDDRVKNHFDLRAWVC 241

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           VS DFD++R+TK++L+S+A    + NDLNLLQ KLK++L GK+FLLVLDDVWNENY+ W 
Sbjct: 242 VSDDFDVLRITKTLLQSIASYAREINDLNLLQVKLKEKLSGKKFLLVLDDVWNENYDKWD 301

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
            L  P + G PGSK+IITTRN   A +  TV  YPL+ LSNDDC  +F QH+L  R+F  
Sbjct: 302 RLCTPLRAGGPGSKVIITTRNMGVASLTRTVSPYPLQELSNDDCRAVFAQHALGARNFEA 361

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
           H  +K IG ++V +C GLPL AKALG +L  + +   W+ +L S+IWDL + +  ++  L
Sbjct: 362 HPHVKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWDLPEEKSGVLPAL 421

Query: 442 ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
            LSYH+L   LK+CFAYC++FPK YEF+++E IL
Sbjct: 422 KLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELIL 455

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495024|ref|XP_002267933.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  436 bits (1121), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 226/454 (49%), Positives = 310/454 (68%), Gaps = 8/454 (1%)

Query: 23  VSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMW 82
           +S SI+ L++ LA   +  FAR E++H  L +W+  L KI AV+ DAEEKQ     V++W
Sbjct: 9   LSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQMTNRFVQIW 68

Query: 83  LYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSI 142
           L EL++LAYDVED+L +F TEALRR L+      D  QPSTS     I +  +     ++
Sbjct: 69  LAELRDLAYDVEDILDDFATEALRRNLI-----KDDPQPSTSTVRSLISSLSSRFNPNAL 123

Query: 143 KLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRP-TTSLVHEAKVYGRS 201
             +  + SK+EE+ ARL +I+ Q   LDLRE   GRS R R+R P T SLV E++VYGR 
Sbjct: 124 VYNLNMGSKIEEITARLHEISTQKGDLDLRENVEGRSHRKRKRVPETASLVVESRVYGRE 183

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
            ++E I+E+LL+++    ++N   V+ I+GMGG+GKTTLAQL YND RV+ HFDL+AW  
Sbjct: 184 TDKEAILEVLLRDELI--HDNEVCVIPIVGMGGVGKTTLAQLAYNDDRVKNHFDLRAWVC 241

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           VS DFD++R+TK++L+S+A    + NDLNLLQ K+K++L GK+FLLVLDDVWNENY+ W 
Sbjct: 242 VSDDFDVLRITKTLLQSIASYTREINDLNLLQVKMKEKLSGKKFLLVLDDVWNENYDKWD 301

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
            L  P + G PGSK+IITTRN   A +  TV  Y L+ LSNDDC  +F QH+L  R+F  
Sbjct: 302 SLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPYLLQELSNDDCRAVFAQHALGARNFEA 361

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTL 441
           H  LK IG ++V +C GLPL AKALG +L  + +   W+ +L S+IWDL + +  ++  L
Sbjct: 362 HPHLKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWDLPEEKSGVLPAL 421

Query: 442 ALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
            LSYH+L   LK+CFAYC++FPK YEF+++E IL
Sbjct: 422 KLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELIL 455

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860511|emb|CAN79726.1| hypothetical protein VITISV_014536 [Vitis vinifera]

 Score =  436 bits (1121), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 226/455 (49%), Positives = 310/455 (68%), Gaps = 8/455 (1%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
            +S SI+ L++ LA   +  FAR E++H  L +W+  L KI AV+ DAEEKQ     V++
Sbjct: 8   FLSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQMTNRFVQI 67

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL EL++LAYDVED+L +F TEALRR L+      D  QPSTS     I +  +     +
Sbjct: 68  WLAELRDLAYDVEDILDDFATEALRRNLI-----KDDPQPSTSTVRSLISSLSSRFNPNA 122

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRP-TTSLVHEAKVYGR 200
           +  +  + SK+EE+ ARL +I+ Q   LDLRE   GRS R R+R P T SLV E++VYGR
Sbjct: 123 LVYNLNMGSKIEEITARLHEISTQKGDLDLRENVEGRSHRKRKRVPETASLVVESRVYGR 182

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
             ++E I+E+LL+++    ++N   V+ I+GMGG+GKTTLAQL YND RV+ HFDL+AW 
Sbjct: 183 ETDKEAILEVLLRDELI--HDNEVCVIPIVGMGGVGKTTLAQLAYNDDRVKNHFDLRAWV 240

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDW 320
            VS DFD++R+TK++L+S+A    + NDLNLLQ K+K++L GK+FLLVLDDVWNENY+ W
Sbjct: 241 CVSDDFDVLRITKTLLQSIASYTREINDLNLLQVKMKEKLSGKKFLLVLDDVWNENYDKW 300

Query: 321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFS 380
             L  P + G PGSK+IITTRN   A +  TV  Y L+ LSNDDC  +F QH+L  R+F 
Sbjct: 301 DSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPYLLQELSNDDCRAVFAQHALGARNFE 360

Query: 381 MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHT 440
            H  LK IG ++V +C GLPL AKALG +L  + +   W+ +L S+IWDL + +  ++  
Sbjct: 361 AHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWDLPEEKSGVLPA 420

Query: 441 LALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
           L LSYH+L   LK+CFAYC++FPK YEF+++E IL
Sbjct: 421 LKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELIL 455

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487188|ref|XP_003633529.1| PREDICTED: putative disease resistance RPP13-like protein 1-like, partial [Vitis vinifera]

 Score =  431 bits (1109), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 231/455 (50%), Positives = 309/455 (67%), Gaps = 10/455 (2%)

Query: 23  VSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMW 82
           +S   + LL++L S  ++ +AR+ ++H  L +W+KTL+KI AV+EDAEEKQ   + VK+W
Sbjct: 12  LSSFFKTLLDELISSDLLDYARQVQVHAELNKWEKTLKKIHAVLEDAEEKQMENQVVKIW 71

Query: 83  LYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSI 142
           L +L++LAYDVED+L E  TEAL RKL+ E       QPSTSKF   I +  T+    +I
Sbjct: 72  LDDLRDLAYDVEDILDELATEALGRKLMAET------QPSTSKFRSLIPSCCTSFTPSAI 125

Query: 143 KLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGG-RSKRFRQRRPTTSLVHEAKVYGRS 201
           K + K+ SK+E++  RLQDI+ Q   L L EK  G RS +  +  PTTSLV E++V GR 
Sbjct: 126 KFNVKMRSKIEKITERLQDISSQQNNLLLTEKVTGKRSAKATEILPTTSLVDESRVCGRE 185

Query: 202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY 261
            ++  I++LLL +   S  ++   V+ IIGMGG+GKTTLAQL YND +V+ HFDL+ W  
Sbjct: 186 TDKAAILDLLLHDHEPS--DDAVRVIPIIGMGGVGKTTLAQLAYNDDKVESHFDLRVWAC 243

Query: 262 VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI 321
           VS DFD++RVTK+I++SVA  + D NDLNLLQ KLK++L G +FLLVLDDVWN+N + W 
Sbjct: 244 VSDDFDVLRVTKTIVQSVASDMSDFNDLNLLQVKLKEKLSGTKFLLVLDDVWNQNCDKWD 303

Query: 322 DLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSM 381
            L  P + GA GS++I+TTRN      +G   AYPLK LSND+C+ L  Q +L TR+F  
Sbjct: 304 TLYAPMRTGAQGSRVIVTTRNQGVVSAIGASSAYPLKELSNDECLSLLAQQALGTRNFHN 363

Query: 382 HQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDL-SQGRCDIVHT 440
           H  L+ +G +IV KC GLPLAAKALG +L  K +   WE +L S+IWDL  Q    I+  
Sbjct: 364 HPHLRVVGEEIVKKCKGLPLAAKALGGMLRTKLNRDAWEDILKSKIWDLPDQENNTILPA 423

Query: 441 LALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
           L LSYH+L   LK CFAYCS+FPKDYEF  +E +L
Sbjct: 424 LKLSYHHLPSHLKCCFAYCSIFPKDYEFDVDELVL 458

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296090360|emb|CBI40179.3| unnamed protein product [Vitis vinifera]

 Score =  429 bits (1102), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 220/455 (48%), Positives = 313/455 (68%), Gaps = 9/455 (1%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           + S  I+ L+  +AS  +  +A  E++   L +WKK L KI AV+ DAEEKQ     VKM
Sbjct: 442 VFSGFIQKLVNMVASPELWKYACEEQVDSELNKWKKILMKIYAVLHDAEEKQMTNPLVKM 501

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL+++++LAYDVED+L +F T+ALRR L++        QP T      +    T+L L +
Sbjct: 502 WLHDVRDLAYDVEDILDDFATQALRRNLIVA-----QPQPPTGTVRSVLSYVSTSLTLSA 556

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRR-PTTSLVHEAKVYGR 200
              +  + SK+EE+ ARLQDI+ Q + LDLR+   G S R R RR P+TSLV E+++YGR
Sbjct: 557 AWSNLSMGSKIEEITARLQDISAQKRQLDLRDISAGWSGRKRLRRLPSTSLVIESRIYGR 616

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
             ++  I+ +LLK+D +   ++   V+ I+GMGG+GKTTLAQL +ND++V+ HFDL+AW 
Sbjct: 617 ETDKAAILAMLLKDDPS---DDEVCVIPIVGMGGIGKTTLAQLAFNDNKVKDHFDLRAWV 673

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDW 320
            VS DFD++RVTK+IL+S++      N+LNLLQ +L+++L+ K+FLL+LDDVWNEN+++W
Sbjct: 674 CVSDDFDVLRVTKTILQSLSPHTRYANNLNLLQIELREKLYRKKFLLILDDVWNENFDEW 733

Query: 321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFS 380
             L  P + GA GSK+I+TTRN     + GT  AYPL+ LS DDC+ LFT+H+L  R+F 
Sbjct: 734 DILCMPMRAGASGSKLIVTTRNKGVVSVTGTCSAYPLQELSYDDCLSLFTRHALGARNFD 793

Query: 381 MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHT 440
            +  LKE+G +IV +C GLPLAAKALG +L  + +   WE +L S+IWDL + +  I+  
Sbjct: 794 AYPHLKEVGEEIVRRCKGLPLAAKALGGMLRNQLNRRAWEDILTSKIWDLPEEKSHILPA 853

Query: 441 LALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
           L LSYH+L   LK+CFAYCS+FPKDYEF ++E IL
Sbjct: 854 LKLSYHHLPSHLKRCFAYCSIFPKDYEFDKDELIL 888

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487170|ref|XP_002264316.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  426 bits (1094), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 218/454 (48%), Positives = 300/454 (66%), Gaps = 5/454 (1%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
           ++S  I+ L++ + S  +  FA  E +H  L +WKK L KI  V+ DAEEK   +  VKM
Sbjct: 9   VLSGLIQKLIDMVTSPELWNFASEEHVHSELNKWKKILTKIYVVLHDAEEKHMTDPLVKM 68

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL EL +LAYDVED+L  F TEALRR L+ E   +   QPSTSK    I +  T+    S
Sbjct: 69  WLDELGDLAYDVEDILDSFATEALRRNLMAETLPSGT-QPSTSKLRSLIPSCCTSFTPNS 127

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGG-RSKRFRQRRPTTSLVHEAKVYGR 200
           IK + ++ SK +++ A LQ+I+ Q   L L E   G RS + R+  PTTSLV E++VYGR
Sbjct: 128 IKFNAEMWSKFKKITAGLQEISAQKNDLHLTENIAGKRSTKTREILPTTSLVDESRVYGR 187

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
             ++  I  LLL++D  +   +   V+ ++GM G+GKTTLAQL +ND  V+ HFDL+ W 
Sbjct: 188 ETDKAAIANLLLRDDSCT---DEVCVIPVVGMAGIGKTTLAQLAFNDDEVKAHFDLRVWV 244

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDW 320
           YVS D+D++++TK+IL+SV+    D NDLNLLQ  L++ L GK+FLL+LDDVWNEN++ W
Sbjct: 245 YVSDDYDVLKITKTILQSVSPNTQDVNDLNLLQMALRENLSGKKFLLILDDVWNENHDSW 304

Query: 321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFS 380
             L  P + G PGSK+I+TTRN     I  T+ AY L+ LS +DC+ +FTQ +L   +F 
Sbjct: 305 EFLCMPMRSGTPGSKLIVTTRNEGVVSITRTLPAYRLQELSYEDCLSVFTQQALGKSNFD 364

Query: 381 MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHT 440
           +H  LKE+G +IV KC GLPL AKALG +L  +     WE++L S+IWDL + +C I+  
Sbjct: 365 VHSHLKEVGEEIVRKCKGLPLTAKALGGMLRNQVSHDVWENILTSKIWDLPKDKCRIIPA 424

Query: 441 LALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
           L LSYH+L   LK+CFAYCS+FPK YEF ++E I
Sbjct: 425 LKLSYHHLPSHLKQCFAYCSIFPKGYEFDKDELI 458

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487176|ref|XP_003633526.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  423 bits (1088), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 224/455 (49%), Positives = 309/455 (67%), Gaps = 10/455 (2%)

Query: 22  IVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
            +S SI+ L++ LA   +  FAR E++H  L +W+  L KI AV+ DAEEKQ     V++
Sbjct: 8   FLSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQMTNRFVQI 67

Query: 82  WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
           WL EL++LAYDVED+L +F TEALRRKL+      D  QPSTS     I +  +     +
Sbjct: 68  WLAELRDLAYDVEDILDDFATEALRRKLI-----TDDPQPSTSTVRSLISSLSSRFNPNA 122

Query: 142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRP-TTSLVHEAKVYGR 200
           +  +  + SK+EE+ ARL +I+ Q   LDLRE   GRS R R+R P TT LV E++VYGR
Sbjct: 123 LVYNLNMGSKIEEITARLHEISTQKGDLDLRENVEGRSNRKRKRVPETTCLVVESRVYGR 182

Query: 201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
             ++E I+E+LL+++    ++N   V+ I+GMGG+GKTTLAQL Y+D RV+ HFDL+AW 
Sbjct: 183 ETDKEAILEVLLRDELV--HDNEVCVIPIVGMGGVGKTTLAQLAYHDDRVKNHFDLRAWV 240

Query: 261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDW 320
            VS DFD++R+ K++L+S+A    + NDLNLLQ KLK++L GK+FLLVLDDVWNENY+ W
Sbjct: 241 CVSDDFDVLRIAKTLLQSIASYAREINDLNLLQVKLKEKLSGKKFLLVLDDVWNENYDKW 300

Query: 321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFS 380
             L  P + G PGSK+IITTR   A+L    V  YPL+ LSNDDC  +F  H+L  R+F 
Sbjct: 301 DRLCTPLRAGGPGSKVIITTRMGVASLTR-KVSPYPLQELSNDDCRAVFA-HALGARNFE 358

Query: 381 MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHT 440
            H  +K IG ++V +C GLPL AKALG +L  + +   W+ +L S+IWDL + +  ++  
Sbjct: 359 AHPHVKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWDLPEEKSGVLPA 418

Query: 441 LALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
           L LSYH+L   LK+CFAYC++FPK YEF+++E IL
Sbjct: 419 LKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELIL 453

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	475
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.913	0.411	0.373	2.7e-74
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.911	0.304	0.313	2.7e-54
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.593	0.156	0.370	5.4e-47
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.673	0.377	0.326	4.6e-40
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.644	0.337	0.310	3.6e-36
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.858	0.488	0.301	4.4e-36
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.837	0.467	0.279	3.4e-35
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.667	0.349	0.307	1e-32
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.665	0.351	0.301	1.4e-31
TAIR|locus:504956182	1049	AT1G58848 [Arabidopsis thalian	0.642	0.290	0.312	3.9e-31

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

 Score = 750 (269.1 bits), Expect = 2.7e-74, P = 2.7e-74
 Identities = 169/452 (37%), Positives = 266/452 (58%)

Query:    27 IEMLLEKLASEAVVLFARRERIHDYLVQWKKT-LEKIKAVIEDAEEKQTREESVKMWLYE 85
             ++ L + L SE    F +R  +++ L++   T L  I AV+ DAEEKQ     V+ W+ E
Sbjct:    13 LQALFQTLVSEPFRSFFKRRELNENLLERLSTALLTITAVLIDAEEKQITNPVVEKWVNE 72

Query:    86 LQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPSIKLD 145
             L+++ Y  ED L +  TEALR  +  E ++++  +    +      + G  L   S  L+
Sbjct:    73 LRDVVYHAEDALDDIATEALRLNIGAESSSSNRLRQLRGRM-----SLGDFLDGNSEHLE 127

Query:   146 YKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSKERE 205
                 +++E+V  RL+ +A Q   L L+E      K   QR PTTSLV E++V+GR  +++
Sbjct:   128 ----TRLEKVTIRLERLASQRNILGLKELTAMIPK---QRLPTTSLVDESEVFGRDDDKD 180

Query:   206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD 265
             EI+  L+ E+G    +N  +VV+I+G+GG+GKTTL+QL+YND  V+ +F  K W +VS++
Sbjct:   181 EIMRFLIPENG---KDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEE 237

Query:   266 FDIIRVTKSILRSVAMGIVDHNDXXXXXXXXXXXXFGKR--FLLVLDDVWNENYNDWIDL 323
             FD+ ++TK +  SV     +  D             G    FLLVLDD+WNEN+ DW  L
Sbjct:   238 FDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLL 297

Query:   324 SRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQ 383
              +PF   A GS+I++TTR+   A IM  V  + L+ LS+ DC  LF +     ++  +++
Sbjct:   298 RQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMKTVFGNQEPCLNR 357

Query:   384 PLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLAL 443
              + ++  +IV KC GLPLA K LG +L  +    +WE VL+SRIWDL   + +++  L +
Sbjct:   358 EIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDLPADKSNLLPVLRV 417

Query:   444 SYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
             SY+YL   LK+CFAYCS+FPK + F++++ +L
Sbjct:   418 SYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVL 449

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

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

 Score = 573 (206.8 bits), Expect = 2.7e-54, P = 2.7e-54
 Identities = 143/456 (31%), Positives = 240/456 (52%)

Query:    23 VSVSIEMLLEKL-ASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKM 81
             +S    +++E++  S+ +V   + +     L + K  L     V+ DA+++      VK 
Sbjct:     6 LSSCANVMVERINTSQELVELCKGKSSSALLKRLKVALVTANPVLADADQRAEHVREVKH 65

Query:    82 WLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIRTWGTNLGLPS 141
             WL  +++  +  ED+L E +TEALRR+++ E             F   +       G  +
Sbjct:    66 WLTGIKDAFFQAEDILDELQTEALRRRVVAEAGGLG------GLFQNLMA------GREA 113

Query:   142 IKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQR-RPTTSLVHEAKVYGR 200
             I+   K+  K+E+V   L+     I+ + L+E    R  ++RQ  R     + + ++ GR
Sbjct:   114 IQK--KIEPKMEKVVRLLEHHVKHIEVIGLKEYSETREPQWRQASRSRPDDLPQGRLVGR 171

Query:   201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
              +++  +V LLL +D  S      +V+S++GM G+GKTTL ++V+ND RV  HF++K W 
Sbjct:   172 VEDKLALVNLLLSDDEISIGKP--AVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWI 229

Query:   261 YVSQDFDIIRVTKSILRSVAMGIVDHNDXXXXXXXXXXXXFGKRFLLVLDDVWNENYNDW 320
                 +F++  VTK++L+ +    V+  D             GKRFLLVLDD W+E+ ++W
Sbjct:   230 SAGINFNVFTVTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEW 289

Query:   321 IDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF- 379
                   F D   GSKI++TTR+   + +    + Y +K ++N++C  L ++ +       
Sbjct:   290 ESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVG 349

Query:   380 SMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVH 439
             S++Q L+ IG +I  +C GLPLAA+A+   L  K +P DW +V  S+  + S     I+ 
Sbjct:   350 SINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAV--SK--NFSSYTNSILP 405

Query:   440 TLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL 475
              L LSY  L   LK+CFA CS+FPK + F  EE +L
Sbjct:   406 VLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVL 441

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 = 475 (172.3 bits), Expect = 5.4e-47, Sum P(2) = 5.4e-47
 Identities = 110/297 (37%), Positives = 161/297 (54%)

Query:   188 TTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND 247
             T+S + E  VYGR+ E E I +L++     S+ +N  +V+ I+G GG+GKTTLAQLV  D
Sbjct:   288 TSSYLPEPIVYGRAAEMETIKQLIM-----SNRSNGITVLPIVGNGGIGKTTLAQLVCKD 342

Query:   248 SRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDH-NDXXXXXXXXXXXXFGKRFL 306
               ++  F++K W YVS  FD++++T+ IL  V+    +  ++              K+FL
Sbjct:   343 LVIKSQFNVKIWVYVSDKFDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFL 402

Query:   307 LVLDDVWNENYNDWIDLSRPF---------QDGAPGSKIIITTRNADAALIMGTVQAYPL 357
             +VLDDVW    +DW  L  P          Q+ A G+ II+TTR    A  +GTVQ+  L
Sbjct:   403 IVLDDVWEIRTDDWKKLLAPLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKL 462

Query:   358 KGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPS 417
             + L +DD   LF  H+           L+ +G +I  +  G PLAAK +G LL       
Sbjct:   463 EALKDDDIWSLFKVHAFGNDKHDSSPGLQVLGKQIASELKGNPLAAKTVGSLLGTNLTID 522

Query:   418 DWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
              W+S++ S  W   Q    I+  L LSY +LS PL++C +YCSLFPK Y F + + I
Sbjct:   523 HWDSIIKSEEWKSLQQAYGIMQALKLSYDHLSNPLQQCVSYCSLFPKGYSFSKAQLI 579

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

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

 Score = 374 (136.7 bits), Expect = 4.6e-40, Sum P(2) = 4.6e-40
 Identities = 112/343 (32%), Positives = 172/343 (50%)

Query:   146 YKVVSKVEEVNARLQDIAMQIQPLDL---REKYGGR--SKRFRQRRPTTSLVHEAKVYGR 200
             Y +V  +  +  R+ DI  + +   +    E  G    + R RQ R    +  E  V G 
Sbjct:   106 YNIVEDIRTLKRRILDITRKRETFGIGSFNEPRGENITNVRVRQLRRAPPVDQEELVVGL 165

Query:   201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT 260
                 E+ V++LL +  + +  +   ++SI GMGGLGKT LA+ +YN   V+  FD +AWT
Sbjct:   166 ----EDDVKILLVKLLSDNEKDKSYIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWT 221

Query:   261 YVSQDF---DI-IRVTKS--ILRSVAMGIVD-HNDXXXXXXXXXXXXFGKRFLLVLDDVW 313
             YVSQ++   DI IR+ +S  I+ +  M  +    +             GK +++V+DDVW
Sbjct:   222 YVSQEYKTRDILIRIIRSLGIVSAEEMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVW 281

Query:   314 NENYNDWIDLSRPFQDGAPGSKIIITTR-NADAALIMGTVQAYPLKGLSNDDCMCLFTQH 372
             + +   W  L R       GSK+IITTR  A A  + GTV A+ L+ L+ ++   LF + 
Sbjct:   282 DPDA--WESLKRALPCDHRGSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERK 339

Query:   373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWD-LS 431
             +    +  + + L+  G ++V KC GLPLA   L  LL  K   ++W  V  S +W  L 
Sbjct:   340 AFSNIE-KVDEDLQRTGKEMVKKCGGLPLAIVVLSGLLSRKRT-NEWHEVCAS-LWRRLK 396

Query:   432 QGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
                  I     LS+  +   LK CF Y S+FP+DYE + E+ I
Sbjct:   397 DNSIHISTVFDLSFKEMRHELKLCFLYFSVFPEDYEIKVEKLI 439

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2037639 AT1G58390 "AT1G58390" [Arabidopsis thaliana (taxid:3702)]

 Score = 344 (126.2 bits), Expect = 3.6e-36, Sum P(2) = 3.6e-36
 Identities = 105/338 (31%), Positives = 166/338 (49%)

Query:   155 VNARLQDIAMQIQPLDLREKY--GG----RSKRFRQRRPTTSLVHEAKVYGRSKEREEIV 208
             +  R+ D+   +Q   +++    GG    +  R R+ R T S  +E+   G     +++V
Sbjct:   115 IRTRISDVIRDMQSFGVQQAIVDGGYMQPQGDRQREMRQTFSKDYESDFVGLEVNVKKLV 174

Query:   209 ELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI 268
               L+ E+          VVSI GMGGLGKTTLA+ V+N   V+  FD  AW  VSQ+F  
Sbjct:   175 GYLVDEENVQ-------VVSITGMGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTR 227

Query:   269 IRVTKSILRSVAMG-----IVDHNDXXXXXXXXXXXXFGKRFLLVLDDVWNENYNDWIDL 323
               V + IL+++        I+   +              K  L+V DD+W +   DW DL
Sbjct:   228 KNVWQMILQNLTSREKKDEILQMEEAELHDKLFQLLETSKS-LIVFDDIWKDE--DW-DL 283

Query:   324 SRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKG--LSNDDCMCLFTQHSLETRDFS- 380
              +P      G K+++T++N   A + G ++    K   L+ +D   LF + +   +D S 
Sbjct:   284 IKPIFPPNKGWKVLLTSQNESVA-VRGDIKYLNFKPECLAIEDSWTLFQRIAFPKKDASE 342

Query:   381 --MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWE--SV-LNSRIWD-LSQGR 434
               + + ++++G +++  C GLPLA K LG LL  KY   DWE  SV + S I    S   
Sbjct:   343 SKVDEEMEDMGKQMLKHCGGLPLAIKVLGGLLAAKYTMHDWERLSVNIGSDIVGRTSSNN 402

Query:   435 CDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEE 472
               I H L++S+  L   LK CF Y + FP+D++   E+
Sbjct:   403 SSIYHVLSMSFEELPSYLKHCFLYLAHFPEDHKINVEK 440

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 398 (145.2 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 135/448 (30%), Positives = 210/448 (46%)

Query:    47 RIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLG-EFETEAL 105
             +I +YL++         AV ED EE +T    +  +L +++  A + ED +  E+    L
Sbjct:    12 KIGNYLIE---EASMFMAVKEDLEELKTELTCIHGYLKDVE--AREREDEVSKEWSKLVL 66

Query:   106 RRKLLLEPAAADHHQPSTSKFPKF-IRTWGTNLGLPSIKLD-YKVVSKVEEVNARLQDIA 163
                  +E     +H     +  +  +R     +G    K+D Y +V  +  +  R+ DI 
Sbjct:    67 DFAYDVEDVLDTYHLKLEERSQRRGLRRLTNKIGR---KMDAYSIVDDIRILKRRILDIT 123

Query:   164 MQIQPLD---LREKYGG---RSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGT 217
              + +      L+E  GG    S R RQ R   S+  E  V G   + + ++E LL  +  
Sbjct:   124 RKRETYGIGGLKEPQGGGNTSSLRVRQLRRARSVDQEEVVVGLEDDAKILLEKLLDYE-- 181

Query:   218 SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR 277
                 N F ++SI GMGGLGKT LA+ +YN   V+  F+ +AWTYVSQ++    +   I+R
Sbjct:   182 --EKNRF-IISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKTGDILMRIIR 238

Query:   278 SVAMGIVDHNDXXXXXXXXXXXXF------GKRFLLVLDDVWNENYNDWIDLSRPFQDGA 331
             S+ M   +  +            +      GK++L+V+DD+W      W  L R      
Sbjct:   239 SLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWEREA--WDSLKRALPCNH 296

Query:   332 PGSKIIITTR-NADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGA 390
              GS++IITTR  A A  + G   A+ L+ L+ ++   LF Q +         + L + G 
Sbjct:   297 EGSRVIITTRIKAVAEGVDGRFYAHKLRFLTFEESWELFEQRAFRNIQ-RKDEDLLKTGK 355

Query:   391 KIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLA----LSYH 446
             ++V KC GLPL    L  LL  K  PS+W  V NS +W   + + D +H       LS+ 
Sbjct:   356 EMVQKCRGLPLCIVVLAGLLSRK-TPSEWNDVCNS-LW--RRLKDDSIHVAPIVFDLSFK 411

Query:   447 YLSRPLKKCFAYCSLFPKDYEFQEEETI 474
              L    K CF Y S+FP+DYE   E+ I
Sbjct:   412 ELRHESKLCFLYLSIFPEDYEIDLEKLI 439

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

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

GO:0005886 "plasma membrane" evidence=IDA

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

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

 Score = 390 (142.3 bits), Expect = 3.4e-35, P = 3.4e-35
 Identities = 121/433 (27%), Positives = 209/433 (48%)

Query:    55 WKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPA 114
             ++K LE +++ ++  +      E  K     L+ L  D+ +L+  +E E     +L++  
Sbjct:    27 YRKQLEDLQSELKYMQSFLKDAERQKRTNETLRTLVADLRELV--YEAE----DILVDCQ 80

Query:   115 AADHHQPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLD--LR 172
              AD    +  +       W + L    + L YK   +++E+N R+  I  Q++P    + 
Sbjct:    81 LADGDDGNEQRSSN---AWLSRLHPARVPLQYKKSKRLQEINERITKIKSQVEPYFEFIT 137

Query:   173 EKYGGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGM 232
                 GR       R ++ +    +V G   ++ +I E L +      N++   +++ +GM
Sbjct:   138 PSNVGRDNG--TDRWSSPVYDHTQVVGLEGDKRKIKEWLFRS-----NDSQLLIMAFVGM 190

Query:   233 GGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDXXXX 292
             GGLGKTT+AQ V+ND  ++  F+ + W  VSQ F   ++ +SILR++    V  +D    
Sbjct:   191 GGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFTEEQIMRSILRNLGDASVG-DDIGTL 249

Query:   293 XXXXXXXXFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTV 352
                      GKR+L+V+DDVW++N + W  + +    G  GS +I+TTR+   A     V
Sbjct:   250 LRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGLPRGQGGS-VIVTTRSESVAK---RV 305

Query:   353 QAYPLKG-----LSNDDCMCLFTQHSLETRDFSMHQP-LKEIGAKIVIKCNGLPLAAKAL 406
             QA   K      LS D+   LF   +    D +  +P L+++G +IV KC GLPL  KA+
Sbjct:   306 QARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERPELEDVGKEIVTKCKGLPLTIKAV 365

Query:   407 GCLLHGK-YDPSDWESVLNSRIWDLSQGRC----DIVHTLALSYHYLSRPLKKCFAYCSL 461
             G LL  K +   +W  +      D  +G      +++ +L LSY  L   LK C    SL
Sbjct:   366 GGLLLCKDHVYHEWRRIAE-HFQDELRGNTSETDNVMSSLQLSYDELPSHLKSCILTLSL 424

Query:   462 FPKDYEFQEEETI 474
             +P+D    +++ +
Sbjct:   425 YPEDCVIPKQQLV 437

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 331 (121.6 bits), Expect = 1.0e-32, Sum P(2) = 1.0e-32
 Identities = 104/338 (30%), Positives = 165/338 (48%)

Query:   146 YKVVSKVEEVNARLQDIAMQIQPLDLREKY-GGRSKRFRQRRPTTSLVHEAKVYGRSKER 204
             +KV S +E +  R+ ++  ++Q   +++   GGRS   ++R+     + +   Y  S E 
Sbjct:   106 HKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIRQT--YPDSSES 163

Query:   205 EEI-VELLLKE-DGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV 262
             + + VE  +KE  G    N+   VVSI GMGG+GKTTLA+ V++   V+ HFD  AW  V
Sbjct:   164 DLVGVEQSVKELVGHLVENDVHQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWVCV 223

Query:   263 SQDFDIIRVTKSILRSVAM--GIVDHNDXXXXXXXXXXXXFGKRFLLVLDDVWNENYNDW 320
             SQ F    V + IL+ +    G +   D               R+L+VLDDVW +   DW
Sbjct:   224 SQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVWKKE--DW 281

Query:   321 IDLSRPFQDGAPGSKIIITTRNADAALIMG-TVQAYPLKGLSNDDCMCLFTQHSLETRDF 379
              D+ +       G K+++T+RN    +    T   +    L+ ++   L  +     RD 
Sbjct:   282 -DVIKAVFPRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPRRDE 340

Query:   380 S---MHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESV---LNSRI----WD 429
             +   + + ++ +G ++V  C GLPLA KALG LL  K+   +W+ V   + S+I    W 
Sbjct:   341 TEVRLDEEMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVFDNIGSQIVGGSWL 400

Query:   430 LSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYE 467
                    +   L+LSY  L   LK CF   + FP+D E
Sbjct:   401 DDNSLNSVYRILSLSYEDLPTHLKHCFLNLAHFPEDSE 438

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

GO:0043531 "ADP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=ISS

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

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

GO:0005886 "plasma membrane" evidence=IDA

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

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

TAIR|locus:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 357 (130.7 bits), Expect = 1.4e-31, P = 1.4e-31
 Identities = 104/345 (30%), Positives = 171/345 (49%)

Query:   147 KVVSKVEEVNARLQDIAMQIQPLDLREKY--GGRS-----KRFRQRRPTTSLVHEAKVYG 199
             ++ S +  ++ R+  +   +Q   +++    G RS     +R R+ R T S   E    G
Sbjct:   105 ELASDIGGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTFSRDSENDFVG 164

Query:   200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAW 259
                  +++V  L+++D        + +VS+ GMGGLGKTTLA+ V+N   V+  FD  AW
Sbjct:   165 MEANVKKLVGYLVEKDD-------YQIVSLTGMGGLGKTTLARQVFNHDVVKDRFDGFAW 217

Query:   260 TYVSQDFDIIRVTKSILRSVAM----GIVDHNDXXXXXXXXXXXXFGKRFLLVLDDVWNE 315
               VSQ+F  I V ++IL+++        + +                 + L+VLDD+W E
Sbjct:   218 VSVSQEFTRISVWQTILQNLTSKERKDEIQNMKEADLHDDLFRLLESSKTLIVLDDIWKE 277

Query:   316 NYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQ-AYPLKGLSNDDCMCLFTQHSL 374
                DW DL +P      G K+++T+R    A+   T   ++  K LS  D   LF   ++
Sbjct:   278 E--DW-DLIKPIFPPKKGWKVLLTSRTESIAMRGDTTYISFKPKCLSIPDSWTLFQSIAM 334

Query:   375 ---ETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESV---LNSRIW 428
                +T +F + + ++ +G K++  C GL LA K LG LL  KY   DW+ +   + S I 
Sbjct:   335 PRKDTSEFKVDEEMENMGKKMIKHCGGLSLAVKVLGGLLAAKYTLHDWKRLSENIGSHIV 394

Query:   429 DLSQGR-CDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEE 472
             + + G    I H L++S+  L   LK CF Y + FP+D+E   E+
Sbjct:   395 ERTSGNNSSIDHVLSVSFEELPNYLKHCFLYLAHFPEDHEIDVEK 439

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 325 (119.5 bits), Expect = 3.9e-31, Sum P(2) = 3.9e-31
 Identities = 105/336 (31%), Positives = 161/336 (47%)

Query:   150 SKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVE 209
             +++ +V   +Q   +Q   +D   K     K+ R+ RP  S   ++   G     +++V 
Sbjct:   117 NRISKVIRDMQSFGVQQAIVDGGYKQPQGDKQ-REMRPRFSKDDDSDFVGLEANVKKLVG 175

Query:   210 LLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII 269
              L+ E           VVSI GMGGLGKTTLA+ V+N   V+  FD  +W  VSQDF  +
Sbjct:   176 YLVDEANVQ-------VVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRM 228

Query:   270 RVTKSILRSVA-----MGIVDHNDXXXXXXXXXXXXFGKRFLLVLDDVWNENYNDWIDLS 324
              V + ILR +        I++                 K  L+VLDD+W +   DW +L 
Sbjct:   229 NVWQKILRDLKPKEEEKKIMEMTQDTLQGELIRLLETSKS-LIVLDDIWEKE--DW-ELI 284

Query:   325 RPFQDGAPGSKIIITTRNADAALIMGTVQA-YPLKGLSNDDCMCLFTQHSLETRD---FS 380
             +P      G K+++T+RN   A+   T    +  + L+ +D   LF + +L  +D   F 
Sbjct:   285 KPIFPPTKGWKVLLTSRNESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFK 344

Query:   381 MHQPLKEIGAKIVIK-CNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIV- 438
             + +  +E+G K++IK C GLPLA + LG +L  KY   DW  +  +    L  GR +   
Sbjct:   345 IDEEKEELG-KLMIKHCGGLPLAIRVLGGMLAEKYTSHDWRRLSENIGSHLVGGRTNFND 403

Query:   439 -------HTLALSYHYLSRPLKKCFAYCSLFPKDYE 467
                    + L+LS+  L   LK CF Y + FP DYE
Sbjct:   404 DNNNTCNYVLSLSFEELPSYLKHCFLYLAHFPDDYE 439

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	475
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-64
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.002

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

 Score =  209 bits (534), Expect = 2e-64
 Identities = 108/280 (38%), Positives = 154/280 (55%), Gaps = 14/280 (5%)

Query: 200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAW 259
           R    E ++E LL+         +  VV I+GMGG+GKTTLA+ +YND  V  HFD  AW
Sbjct: 1   REDMIEALIEKLLEMSD------NLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAW 54

Query: 260 TYVSQDFDIIRVTKSILRSVAM--GIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY 317
             VS+ +   R+ K IL+ + +        + + L  K+K+ L  KRFLLVLDDVW +  
Sbjct: 55  VVVSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEK-- 112

Query: 318 NDWIDLSRPFQDGAPGSKIIITTRNADAALIMG-TVQAYPLKGLSNDDCMCLFTQHSLET 376
           NDW  +  PF DG  GS++I+TTR+   A  MG T + + ++ L  ++   LF+    E 
Sbjct: 113 NDWDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEK 172

Query: 377 RDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCD 436
                   L+E+  +IV KC GLPLA K LG LL  K    +WE VL     +L+     
Sbjct: 173 EL-PPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL 231

Query: 437 --IVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI 474
             ++  L+LSY  L   LK+CF Y +LFP+DY  ++E+ I
Sbjct: 232 NEVLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLI 271

Length = 285

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 55/238 (23%), Positives = 106/238 (44%), Gaps = 34/238 (14%)

Query: 226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVD 285
           +V I G  G+GKTT+A+ +++  R+   F  ++  ++ + F    ++KS+    +    D
Sbjct: 209 MVGIWGSSGIGKTTIARALFS--RLSRQF--QSSVFIDRAF----ISKSMEIYSSANPDD 260

Query: 286 HNDLNLLQWKLKKQLFGK------------------RFLLVLDDVWNENYNDWIDLSRPF 327
           +N    LQ     ++  K                  + L+ +DD+ +++  D   L+   
Sbjct: 261 YNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLD--ALAGQT 318

Query: 328 QDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKE 387
           Q    GS+II+ T++       G    Y +   SN+  + +F + +   +  S      E
Sbjct: 319 QWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAF--KKNSPPDGFME 376

Query: 388 IGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSY 445
           + +++ ++   LPL    LG  L G+ D  DW  +L  R+ +   G+  I  TL +SY
Sbjct: 377 LASEVALRAGNLPLGLNVLGSYLRGR-DKEDWMDML-PRLRNGLDGK--IEKTLRVSY 430

syringae 6; Provisional. Length = 1153

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

 Score = 38.7 bits (90), Expect = 0.002
 Identities = 28/149 (18%), Positives = 49/149 (32%), Gaps = 39/149 (26%)

Query: 196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD 255
           ++ GR +E E +++ L         +     V + G  G GKT+L +       +     
Sbjct: 1   RLVGREEELERLLDAL-----RRARSGGPPSVLLTGPSGTGKTSLLR------ELLEGLL 49

Query: 256 LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWK-------------------- 295
           + A      + +        LR +   ++      LL  +                    
Sbjct: 50  VAAGKCDQAERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVE 109

Query: 296 -LKKQLFGKRFL-LVLDDVWNENYNDWID 322
            L++ L   R L LVLDD+       W D
Sbjct: 110 LLERLLARARPLVLVLDDL------QWAD 132

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	475
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.47
PRK04841	903	transcriptional regulator MalT; Provisional	99.47
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.41
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.38
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.36
PF05729	166	NACHT: NACHT domain	99.14
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.11
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.08
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.04
PRK13342	413	recombination factor protein RarA; Reviewed	99.04
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.04
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.97
PRK06893	229	DNA replication initiation factor; Validated	98.88
COG3899	849	Predicted ATPase [General function prediction only	98.88
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.86
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.81
PTZ00202	550	tuzin; Provisional	98.81
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.8
PRK12402	337	replication factor C small subunit 2; Reviewed	98.8
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.76
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.76
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.75
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.74
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.74
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.74
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.73
PLN03025	319	replication factor C subunit; Provisional	98.73
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.72
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.72
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.7
PF13173	128	AAA_14: AAA domain	98.7
KOG2028	554	consensus ATPase related to the helicase subunit o	98.69
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.67
COG3903	414	Predicted ATPase [General function prediction only	98.64
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.64
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.62
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.61
PRK13341	725	recombination factor protein RarA/unknown domain f	98.61
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.59
PRK08727	233	hypothetical protein; Validated	98.59
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.59
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.58
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.58
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.58
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.58
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.56
PRK04195	482	replication factor C large subunit; Provisional	98.55
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.54
PRK09087	226	hypothetical protein; Validated	98.54
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.52
cd01128	249	rho_factor Transcription termination factor rho is	98.5
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.46
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.45
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.45
PRK08084	235	DNA replication initiation factor; Provisional	98.45
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.43
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.42
PRK09376	416	rho transcription termination factor Rho; Provisio	98.41
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.41
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.4
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.38
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK05642	234	DNA replication initiation factor; Validated	98.34
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.33
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.3
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.28
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.27
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.27
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.26
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.26
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.24
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.24
TIGR00767	415	rho transcription termination factor Rho. Members	98.22
CHL00095	821	clpC Clp protease ATP binding subunit	98.21
PF14516	331	AAA_35: AAA-like domain	98.21
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.21
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.21
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.21
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.2
CHL00181	287	cbbX CbbX; Provisional	98.2
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.19
PRK06620	214	hypothetical protein; Validated	98.19
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.19
PHA02544	316	44 clamp loader, small subunit; Provisional	98.17
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.12
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.11
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.11
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.1
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.1
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.09
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.07
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.06
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.04
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.03
PRK10865	857	protein disaggregation chaperone; Provisional	98.03
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.02
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.0
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.99
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.94
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.94
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.93
PF00004	132	AAA: ATPase family associated with various cellula	97.92
PRK12422	445	chromosomal replication initiation protein; Provis	97.91
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.91
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.89
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.86
PRK08116	268	hypothetical protein; Validated	97.83
smart00382	148	AAA ATPases associated with a variety of cellular	97.82
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.81
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.81
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.79
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.76
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.74
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.74
CHL00176	638	ftsH cell division protein; Validated	97.73
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.73
PRK10536	262	hypothetical protein; Provisional	97.72
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.69
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.69
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.67
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.67
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.63
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.62
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.61
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.6
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.56
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.54
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.53
PRK04132	846	replication factor C small subunit; Provisional	97.51
PRK12377	248	putative replication protein; Provisional	97.49
PRK08118	167	topology modulation protein; Reviewed	97.49
PRK10865	857	protein disaggregation chaperone; Provisional	97.48
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.46
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.46
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.44
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.43
PRK08181	269	transposase; Validated	97.41
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.41
PRK13531	498	regulatory ATPase RavA; Provisional	97.4
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.39
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.39
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.37
PRK06921	266	hypothetical protein; Provisional	97.36
PRK08939	306	primosomal protein DnaI; Reviewed	97.34
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.32
PRK06526	254	transposase; Provisional	97.32
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.3
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.28
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.26
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.25
PRK09183	259	transposase/IS protein; Provisional	97.25
PRK12608	380	transcription termination factor Rho; Provisional	97.24
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.22
PRK07952	244	DNA replication protein DnaC; Validated	97.21
PRK04296	190	thymidine kinase; Provisional	97.2
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.19
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.18
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.16
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.16
PRK07261	171	topology modulation protein; Provisional	97.15
PRK06835	329	DNA replication protein DnaC; Validated	97.14
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.13
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.12
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.12
CHL00095	821	clpC Clp protease ATP binding subunit	97.1
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.1
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.1
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.06
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.04
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.03
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.03
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.03
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.02
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.0
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.99
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.97
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.96
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.95
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.94
PRK05541	176	adenylylsulfate kinase; Provisional	96.92
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.92
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.91
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.89
PTZ00494	664	tuzin-like protein; Provisional	96.89
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.84
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.84
PRK13695	174	putative NTPase; Provisional	96.83
PRK06696	223	uridine kinase; Validated	96.81
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.8
CHL00195	489	ycf46 Ycf46; Provisional	96.75
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.75
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.74
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.7
PRK09354	349	recA recombinase A; Provisional	96.7
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.69
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.68
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.68
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.65
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.64
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.63
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.63
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.63
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.62
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.6
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.59
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.57
PRK08233	182	hypothetical protein; Provisional	96.56
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.55
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.55
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.53
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.53
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.51
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.51
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.51
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.5
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.49
PRK06067	234	flagellar accessory protein FlaH; Validated	96.48
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.48
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.47
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.47
PRK15455	644	PrkA family serine protein kinase; Provisional	96.46
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.44
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.41
PRK05439	311	pantothenate kinase; Provisional	96.41
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.41
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.4
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.39
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.38
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.37
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.37
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.36
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.36
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.36
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.34
PRK07667	193	uridine kinase; Provisional	96.34
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.31
cd03246	173	ABCC_Protease_Secretion This family represents the	96.29
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.26
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.25
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.25
PHA02244	383	ATPase-like protein	96.24
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.23
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.23
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.23
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.23
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.23
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.22
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.22
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.21
PRK06547	172	hypothetical protein; Provisional	96.21
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.19
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.16
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.14
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.13
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.13
PTZ00301	210	uridine kinase; Provisional	96.11
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.11
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.1
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.1
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.1
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.1
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.1
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.09
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.07
PRK05480	209	uridine/cytidine kinase; Provisional	96.07
PRK14974	336	cell division protein FtsY; Provisional	96.06
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.05
TIGR00959	428	ffh signal recognition particle protein. This mode	96.05
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.02
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.02
PRK10867	433	signal recognition particle protein; Provisional	95.99
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.98
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	95.98
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.97
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.96
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.96
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.95
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.94
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.93
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	95.93
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.92
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.91
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.88
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.87
PTZ00035	337	Rad51 protein; Provisional	95.87
PHA00729	226	NTP-binding motif containing protein	95.87
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.86
PRK06762	166	hypothetical protein; Provisional	95.86
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.84
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.83
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.83
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.82
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	95.78
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	95.75
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	95.74
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.74
PRK00409	782	recombination and DNA strand exchange inhibitor pr	95.73
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.72
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.72
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.68
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.67
PRK03839	180	putative kinase; Provisional	95.65
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.63
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	95.6
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	95.57
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.56
PF07726	131	AAA_3: ATPase family associated with various cellu	95.55
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.55
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	95.55
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.54
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.53
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.52
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.51
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.51
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.51
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.5
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.5
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.48
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.48
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.48
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.47
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	95.46
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.46
PRK15453	290	phosphoribulokinase; Provisional	95.45
PTZ00088	229	adenylate kinase 1; Provisional	95.43
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.43
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.42
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.42
PRK04040	188	adenylate kinase; Provisional	95.41
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.41
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.41
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.39
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.38
PRK04328	249	hypothetical protein; Provisional	95.37
PRK15424	538	propionate catabolism operon regulatory protein Pr	95.37
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.36
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.36
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	95.36
PRK08149	428	ATP synthase SpaL; Validated	95.34
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.33
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.33
PRK00131	175	aroK shikimate kinase; Reviewed	95.32
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.32
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.31
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.29
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.29
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.29
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.28
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.28
PRK00625	173	shikimate kinase; Provisional	95.27
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	95.26
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	95.25
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.22
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.21
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.2
PF13479	213	AAA_24: AAA domain	95.19
PRK00889	175	adenylylsulfate kinase; Provisional	95.18
COG4240	300	Predicted kinase [General function prediction only	95.18
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.17
PTZ00185	574	ATPase alpha subunit; Provisional	95.17
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.16
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.16
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.15
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.14
COG4133	209	CcmA ABC-type transport system involved in cytochr	95.14
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	95.13
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.13
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	95.13
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.13
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	95.12
PRK06217	183	hypothetical protein; Validated	95.12
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.09
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.07
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	95.06
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.05
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.04
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.03
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	95.02
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.02
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.01
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	95.01
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.0
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	94.99
PRK07594	433	type III secretion system ATPase SsaN; Validated	94.95
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.95
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	94.93
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	94.9
PRK12678	672	transcription termination factor Rho; Provisional	94.9
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	94.9
PRK00300	205	gmk guanylate kinase; Provisional	94.89
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	94.89
PRK06936	439	type III secretion system ATPase; Provisional	94.86
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.86
PRK03846	198	adenylylsulfate kinase; Provisional	94.84
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	94.84
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.83
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	94.82
PRK14737	186	gmk guanylate kinase; Provisional	94.78
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	94.78
PRK13947	171	shikimate kinase; Provisional	94.77
PRK14530	215	adenylate kinase; Provisional	94.75
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	94.75
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	94.72
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	94.72
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	94.71
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.7
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	94.7
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.7
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.68
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.66
PRK13949	169	shikimate kinase; Provisional	94.66
PRK14738	206	gmk guanylate kinase; Provisional	94.66
PF13245	76	AAA_19: Part of AAA domain	94.66
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.64
PRK11823	446	DNA repair protein RadA; Provisional	94.63
PRK09099	441	type III secretion system ATPase; Provisional	94.62
COG0714	329	MoxR-like ATPases [General function prediction onl	94.62
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.61
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.6
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.6
PRK05917	290	DNA polymerase III subunit delta'; Validated	94.59
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	94.59
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.57
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	94.57
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	94.57
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	94.55
PRK15115	444	response regulator GlrR; Provisional	94.53
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.5
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	94.5
PRK05922	434	type III secretion system ATPase; Validated	94.49
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	94.45
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.45
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.44
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.43
PRK14527	191	adenylate kinase; Provisional	94.4
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.4
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	94.39
COG4586	325	ABC-type uncharacterized transport system, ATPase	94.39
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.39
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	94.38
PRK13975	196	thymidylate kinase; Provisional	94.37
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	94.37
PRK13765	637	ATP-dependent protease Lon; Provisional	94.34
PLN02796	347	D-glycerate 3-kinase	94.33
CHL00206	2281	ycf2 Ycf2; Provisional	94.32
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	94.31
PRK05057	172	aroK shikimate kinase I; Reviewed	94.3
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	94.28
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	94.28
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.27
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.25
PRK06761	282	hypothetical protein; Provisional	94.24
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.23
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.19
PLN02200	234	adenylate kinase family protein	94.19
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.18
PRK13948	182	shikimate kinase; Provisional	94.18
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	94.18
PRK09825	176	idnK D-gluconate kinase; Provisional	94.17
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	94.16
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.15
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.15
PRK10875	615	recD exonuclease V subunit alpha; Provisional	94.15
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	94.14
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	94.12
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	94.1
PRK04182	180	cytidylate kinase; Provisional	94.07
PLN02348	395	phosphoribulokinase	94.05
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	94.05
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	94.05
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	94.03
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	94.02
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	94.02
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.01
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.0
PRK13946	184	shikimate kinase; Provisional	93.99
PRK14532	188	adenylate kinase; Provisional	93.98
PRK08356	195	hypothetical protein; Provisional	93.96
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	93.93
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	93.93
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	93.93
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	93.92
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	93.92
PF13555	62	AAA_29: P-loop containing region of AAA domain	93.91
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	93.88
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	93.85
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	93.84
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.83
PRK07276	290	DNA polymerase III subunit delta'; Validated	93.83
COG4181	228	Predicted ABC-type transport system involved in ly	93.82

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2e-57  Score=484.99  Aligned_cols=407  Identities=30%  Similarity=0.466  Sum_probs=330.9

Q ss_pred             HHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHhhcccccccCC
Q 046770           40 VLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHH  119 (475)
Q Consensus        40 ~~~~~~~~v~~~~~~l~~~l~~~~~~l~~a~~~~~~~~~v~~Wl~~lrd~ayd~eD~lD~~~~~~~~~~~~~~~~~~~~~  119 (475)
                      .++....+.++.+..|+++|..+++++.|+++++.....+..|.+.+++++|++||.++.|..+....+...      ..
T Consensus        18 ~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~------~l   91 (889)
T KOG4658|consen   18 RESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKAND------LL   91 (889)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH------Hh
Confidence            344455677789999999999999999999999888888999999999999999999999999876654332      10


Q ss_pred             CCCCCcccccccccccCCCCCcchhhHHHHHHHHHHHHHHHHHHHhhCCCcccccCCCCc--ccccCCCCCCCCcccccc
Q 046770          120 QPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGRS--KRFRQRRPTTSLVHEAKV  197 (475)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~l~~i~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~  197 (475)
                      . ......+....         ..+.++....+..+..++..+....+.++.........  ........+.+...+.. 
T Consensus        92 ~-~~~~~~~~~c~---------~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-  160 (889)
T KOG4658|consen   92 S-TRSVERQRLCL---------CGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-  160 (889)
T ss_pred             h-hhHHHHHHHhh---------hhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-
Confidence            0 00001111111         03456677777777777777777666666444221111  11111223334444445 


Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc-cccCcCeEEEEEecCCCCHHHHHHHHH
Q 046770          198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR-VQCHFDLKAWTYVSQDFDIIRVTKSIL  276 (475)
Q Consensus       198 vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~v~~~~~~~~~l~~il  276 (475)
                      ||.+..++++.+.|.. +       +..+++|+||||+||||||++++|+.. ++.+|+.++||+||+.++...+..+|+
T Consensus       161 VG~e~~~~kl~~~L~~-d-------~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il  232 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLME-D-------DVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTIL  232 (889)
T ss_pred             ccHHHHHHHHHHHhcc-C-------CCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHH
Confidence            9999999999999988 3       337999999999999999999999988 999999999999999999999999999


Q ss_pred             HHhhcCCCCC--CChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHh-cCCCc
Q 046770          277 RSVAMGIVDH--NDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALI-MGTVQ  353 (475)
Q Consensus       277 ~~l~~~~~~~--~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~-~~~~~  353 (475)
                      ..++......  ...+.+...|.+.|++|||||||||||+.  .+|+.+..+++...+||+|++|||+..|+.. ++...
T Consensus       233 ~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~  310 (889)
T KOG4658|consen  233 ERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDY  310 (889)
T ss_pred             HHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCc
Confidence            9988754332  23468899999999999999999999987  4799999999998899999999999999998 77788


Q ss_pred             eeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHhccccccC--
Q 046770          354 AYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLS--  431 (475)
Q Consensus       354 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~~~~~~~~--  431 (475)
                      .+++..|+.++||+||.+.++.... ...+.+.++|++++++|+|+|||+.++|+.|+.+.+..+|..+.+...+...  
T Consensus       311 ~~~v~~L~~~eaW~LF~~~v~~~~~-~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~  389 (889)
T KOG4658|consen  311 PIEVECLTPEEAWDLFQKKVGPNTL-GSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAAD  389 (889)
T ss_pred             cccccccCccccHHHHHHhhccccc-cccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCC
Confidence            9999999999999999999987643 3334489999999999999999999999999999999999999987765522  


Q ss_pred             --CCccchHHHHHHhhhcCChhHHHHhhhhcccCCCcccCCcccc
Q 046770          432 --QGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI  474 (475)
Q Consensus       432 --~~~~~i~~~l~~sy~~L~~~~k~cf~~~sifp~~~~i~~~~Li  474 (475)
                        +..+.++++|.+||++||+++|.||+|||+||+||+|+++.||
T Consensus       390 ~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li  434 (889)
T KOG4658|consen  390 FSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLI  434 (889)
T ss_pred             CCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHH
Confidence              2346799999999999999999999999999999999999987

>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=2.2e-44  Score=347.24  Aligned_cols=267  Identities=36%  Similarity=0.566  Sum_probs=215.5

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh
Q 046770          200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV  279 (475)
Q Consensus       200 R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l  279 (475)
                      |+.++++|.++|....      .+.++|+|+|+||+||||||..++++..++.+|+.++|++++...+...++..|+.++
T Consensus         1 re~~~~~l~~~L~~~~------~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l   74 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS------NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQL   74 (287)
T ss_dssp             -HHHHHHHHHHHHTTT------TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhCCC------CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccc
Confidence            7899999999998722      4679999999999999999999999766899999999999999999999999999999


Q ss_pred             hcCCC---CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhcCC-Ccee
Q 046770          280 AMGIV---DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGT-VQAY  355 (475)
Q Consensus       280 ~~~~~---~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~~-~~~~  355 (475)
                      .....   ...+.......+.+.|.++++||||||||+.  ..|+.+...++....||+||||||+..++..+.. ...+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~  152 (287)
T PF00931_consen   75 GEPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVI  152 (287)
T ss_dssp             TCC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEE
T ss_pred             cccccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccc
Confidence            88743   4567788999999999999999999999875  4888888888777779999999999988765544 6789


Q ss_pred             eCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHhccccccCC---
Q 046770          356 PLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQ---  432 (475)
Q Consensus       356 ~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~---  432 (475)
                      +|++|+.+++++||.+.++... ....+.+.+.+++|+++|+|+||||+++|++|+.+.+..+|..++++.......   
T Consensus       153 ~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~  231 (287)
T PF00931_consen  153 ELEPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRD  231 (287)
T ss_dssp             ECSS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSG
T ss_pred             cccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999999987654 123344567889999999999999999999997766778999988765544422   


Q ss_pred             CccchHHHHHHhhhcCChhHHHHhhhhcccCCCcccCCccccC
Q 046770          433 GRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETIL  475 (475)
Q Consensus       433 ~~~~i~~~l~~sy~~L~~~~k~cf~~~sifp~~~~i~~~~Li~  475 (475)
                      ....+..++.+||+.||+++|+||+|||+||+++.|+++.||+
T Consensus       232 ~~~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~  274 (287)
T PF00931_consen  232 YDRSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIR  274 (287)
T ss_dssp             SCHHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHH
T ss_pred             ccccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHH
Confidence            3467999999999999999999999999999999999988763

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

>PLN03210 Resistant to P

Probab=100.00  E-value=2.9e-33  Score=314.14  Aligned_cols=257  Identities=21%  Similarity=0.308  Sum_probs=204.7

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe---cCC----
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV---SQD----  265 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v---~~~----  265 (475)
                      ....+|||+..++++..+|.- ..     .++++|+|+||||+||||||+.+|+  ++..+|+..+|+..   +..    
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l-~~-----~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~  253 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHL-ES-----EEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIY  253 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcc-cc-----CceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhc
Confidence            345799999999999998854 21     5679999999999999999999999  56778988887642   111    


Q ss_pred             -------CC-HHHHHHHHHHHhhcCCCC-CCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEE
Q 046770          266 -------FD-IIRVTKSILRSVAMGIVD-HNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKI  336 (475)
Q Consensus       266 -------~~-~~~~l~~il~~l~~~~~~-~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  336 (475)
                             ++ ...+...++.++...... ...    ...+++.+.++|+||||||||+.  ..|+.+.......+.||+|
T Consensus       254 ~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrI  327 (1153)
T PLN03210        254 SSANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRI  327 (1153)
T ss_pred             ccccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEE
Confidence                   11 123444555554433211 111    14577888999999999999764  5788877665556789999


Q ss_pred             EEecCChHHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCCh
Q 046770          337 IITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDP  416 (475)
Q Consensus       337 lvTtR~~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~  416 (475)
                      |||||+..++..++...+|+++.|+.++||+||.++||....  .++.+.+++++|+++|+|+|||++++|+.|+.+ +.
T Consensus       328 IiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~--~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k-~~  404 (1153)
T PLN03210        328 IVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS--PPDGFMELASEVALRAGNLPLGLNVLGSYLRGR-DK  404 (1153)
T ss_pred             EEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCC-CH
Confidence            999999999887777789999999999999999999997542  345688999999999999999999999999987 78


Q ss_pred             hHHHHHHhccccccCCCccchHHHHHHhhhcCCh-hHHHHhhhhcccCCCcccC
Q 046770          417 SDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSR-PLKKCFAYCSLFPKDYEFQ  469 (475)
Q Consensus       417 ~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~-~~k~cf~~~sifp~~~~i~  469 (475)
                      .+|..+++++....   +..+..+|++||+.|++ ..|.||+++|+|+.++.++
T Consensus       405 ~~W~~~l~~L~~~~---~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~  455 (1153)
T PLN03210        405 EDWMDMLPRLRNGL---DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN  455 (1153)
T ss_pred             HHHHHHHHHHHhCc---cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH
Confidence            99999998765432   34699999999999987 5999999999999987664

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.47  E-value=9.5e-12  Score=125.43  Aligned_cols=254  Identities=14%  Similarity=0.038  Sum_probs=152.5

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHH
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      .+..++||++++++|...|...-.+    .....+.|+|++|+|||++++.++++.......-..+++++....+...++
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~----~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~  103 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG----SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIF  103 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHH
Confidence            3457999999999999998552111    233557899999999999999999854333222346777777777888999


Q ss_pred             HHHHHHhhcCC-C-CCCChHHHHHHHHHHhC--CceEEEEEECCCCCC----hhhHhHhhCcCCCCC-CCcEEEEecCCh
Q 046770          273 KSILRSVAMGI-V-DHNDLNLLQWKLKKQLF--GKRFLLVLDDVWNEN----YNDWIDLSRPFQDGA-PGSKIIITTRNA  343 (475)
Q Consensus       273 ~~il~~l~~~~-~-~~~~~~~l~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~~~-~gs~ilvTtR~~  343 (475)
                      ..++.++.... + ...+...+...+.+.+.  +++.+||||+++...    .+.+..+...+.... .+..+|.++...
T Consensus       104 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~  183 (394)
T PRK00411        104 SEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDL  183 (394)
T ss_pred             HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCc
Confidence            99999987622 1 23345666777777764  457899999996532    223333333322211 123356666554


Q ss_pred             HHHHhcC-------CCceeeCCCCCHHHHHHHHhhcccCC--CCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc---
Q 046770          344 DAALIMG-------TVQAYPLKGLSNDDCMCLFTQHSLET--RDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH---  411 (475)
Q Consensus       344 ~v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~--~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~---  411 (475)
                      .+.....       ....+.+.+++.++..+++..++...  .....+..++.+++......|..+.|+.++-....   
T Consensus       184 ~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~  263 (394)
T PRK00411        184 TFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAE  263 (394)
T ss_pred             chhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            3332211       22567899999999999999876322  11122223333333333334557777776643221   


Q ss_pred             -CC---CChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhc
Q 046770          412 -GK---YDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCS  460 (475)
Q Consensus       412 -~~---~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s  460 (475)
                       .+   -+.+....+++..          -.....-.+..||.+.|..+..++
T Consensus       264 ~~~~~~I~~~~v~~a~~~~----------~~~~~~~~~~~L~~~~k~~L~ai~  306 (394)
T PRK00411        264 REGSRKVTEEDVRKAYEKS----------EIVHLSEVLRTLPLHEKLLLRAIV  306 (394)
T ss_pred             HcCCCCcCHHHHHHHHHHH----------HHHHHHHHHhcCCHHHHHHHHHHH
Confidence             11   2445555555432          012234457788888776555433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.47  E-value=4.3e-12  Score=141.67  Aligned_cols=239  Identities=15%  Similarity=0.150  Sum_probs=150.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEec-CCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS-QDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~-~~~~~~~~l~  273 (475)
                      +.++-|..    |.+.|.. .      ...+++.|+|++|.||||++.++...      +..++|+++. .+.++..++.
T Consensus        14 ~~~~~R~r----l~~~l~~-~------~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~   76 (903)
T PRK04841         14 HNTVVRER----LLAKLSG-A------NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFAS   76 (903)
T ss_pred             cccCcchH----HHHHHhc-c------cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHH
Confidence            45666665    4444433 1      34689999999999999999998862      2268999996 4456677778


Q ss_pred             HHHHHhhcCCCC-------------CCChHHHHHHHHHHh-C-CceEEEEEECCCCCChhhHhHhhCcCC-CCCCCcEEE
Q 046770          274 SILRSVAMGIVD-------------HNDLNLLQWKLKKQL-F-GKRFLLVLDDVWNENYNDWIDLSRPFQ-DGAPGSKII  337 (475)
Q Consensus       274 ~il~~l~~~~~~-------------~~~~~~l~~~l~~~l-~-~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~il  337 (475)
                      .++..+......             ..+...+...+-..+ . +.+++|||||++..+......++..+. ....+.++|
T Consensus        77 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv  156 (903)
T PRK04841         77 YLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLV  156 (903)
T ss_pred             HHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEE
Confidence            888877532111             012222333333333 2 679999999997765334343443333 334567888


Q ss_pred             EecCChH-H--HHhcCCCceeeCC----CCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          338 ITTRNAD-A--ALIMGTVQAYPLK----GLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       338 vTtR~~~-v--~~~~~~~~~~~l~----~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      ||||... .  ...........+.    +|+.+|+.+||........       ..+....|.+.|+|.|+++..++..+
T Consensus       157 ~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~-------~~~~~~~l~~~t~Gwp~~l~l~~~~~  229 (903)
T PRK04841        157 VLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI-------EAAESSRLCDDVEGWATALQLIALSA  229 (903)
T ss_pred             EEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC-------CHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            9999732 1  1111112334455    9999999999987653321       23556779999999999999999877


Q ss_pred             cCCCChhHHHHHHhccccccCC-CccchHHHHHH-hhhcCChhHHHHhhhhcccC
Q 046770          411 HGKYDPSDWESVLNSRIWDLSQ-GRCDIVHTLAL-SYHYLSRPLKKCFAYCSLFP  463 (475)
Q Consensus       411 ~~~~~~~~w~~~l~~~~~~~~~-~~~~i~~~l~~-sy~~L~~~~k~cf~~~sifp  463 (475)
                      ........  ...    +.+.. +...+...|.- .|+.||++.+..+...|+++
T Consensus       230 ~~~~~~~~--~~~----~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~  278 (903)
T PRK04841        230 RQNNSSLH--DSA----RRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR  278 (903)
T ss_pred             hhCCCchh--hhh----HhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc
Confidence            65421100  011    11111 12235554433 48999999999999999997

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

Probab=99.41  E-value=4.6e-11  Score=113.94  Aligned_cols=182  Identities=18%  Similarity=0.118  Sum_probs=116.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH----
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ----  299 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~----  299 (475)
                      ..++.|+|++|+|||||++.+++..... .+ ...|+ +....+..+++..++..++..... .+...+...+...    
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~~~  118 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLIEQ  118 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHHHH
Confidence            3578999999999999999999864321 11 12233 334457778888888888665322 2223333333332    


Q ss_pred             -hCCceEEEEEECCCCCChhhHhHhhCcCC---CCCCCcEEEEecCChHHHHhcC----------CCceeeCCCCCHHHH
Q 046770          300 -LFGKRFLLVLDDVWNENYNDWIDLSRPFQ---DGAPGSKIIITTRNADAALIMG----------TVQAYPLKGLSNDDC  365 (475)
Q Consensus       300 -l~~kr~LlVlDdv~~~~~~~~~~l~~~l~---~~~~gs~ilvTtR~~~v~~~~~----------~~~~~~l~~L~~~~~  365 (475)
                       ..+++++||+||++..+...++.+.....   .......|++|.... ....+.          ....+.+.+|+.++.
T Consensus       119 ~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~  197 (269)
T TIGR03015       119 FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREET  197 (269)
T ss_pred             HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHH
Confidence             26788999999998876666666542221   122233556666543 221111          134578999999999


Q ss_pred             HHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          366 MCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       366 ~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      .+++...+...+......-..+..+.|++.|+|.|..|..++..+
T Consensus       198 ~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       198 REYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999987764332111122345788899999999999999988876

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.

>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=99.38  E-value=1.8e-12  Score=120.58  Aligned_cols=195  Identities=19%  Similarity=0.200  Sum_probs=100.0

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH-
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI-  275 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i-  275 (475)
                      |+||++|+++|.+++..        +..+.+.|+|+.|+|||+|++.+.+..+ ...+ ..+|+......... .+..+ 
T Consensus         1 F~gR~~el~~l~~~l~~--------~~~~~~~l~G~rg~GKTsLl~~~~~~~~-~~~~-~~~y~~~~~~~~~~-~~~~~~   69 (234)
T PF01637_consen    1 FFGREKELEKLKELLES--------GPSQHILLYGPRGSGKTSLLKEFINELK-EKGY-KVVYIDFLEESNES-SLRSFI   69 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----------SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBSHHH-HHHHHH
T ss_pred             CCCHHHHHHHHHHHHHh--------hcCcEEEEEcCCcCCHHHHHHHHHHHhh-hcCC-cEEEEecccchhhh-HHHHHH
Confidence            78999999999999876        3346899999999999999999998431 1111 33444443333221 12222 


Q ss_pred             ---------HHHhhcCCCC----------CCChHHHHHHHHHHh--CCceEEEEEECCCCCC------hhhHhHhhCcCC
Q 046770          276 ---------LRSVAMGIVD----------HNDLNLLQWKLKKQL--FGKRFLLVLDDVWNEN------YNDWIDLSRPFQ  328 (475)
Q Consensus       276 ---------l~~l~~~~~~----------~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~------~~~~~~l~~~l~  328 (475)
                               ...+....+.          ..........+-+.+  .+++++|||||+....      ..-...+...+.
T Consensus        70 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~  149 (234)
T PF01637_consen   70 EETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLD  149 (234)
T ss_dssp             HHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHh
Confidence                     1112111110          111112222222222  2445999999995433      111122222222


Q ss_pred             C--CCCCcEEEEecCChHHHHh--------cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC
Q 046770          329 D--GAPGSKIIITTRNADAALI--------MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG  398 (475)
Q Consensus       329 ~--~~~gs~ilvTtR~~~v~~~--------~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G  398 (475)
                      .  ......+|+++........        .+....+.|++|+.+++++++....-.. . .. +...+..++|+..+||
T Consensus       150 ~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~-~~-~~~~~~~~~i~~~~gG  226 (234)
T PF01637_consen  150 SLLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL-I-KL-PFSDEDIEEIYSLTGG  226 (234)
T ss_dssp             H----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT
T ss_pred             hccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh-h-cc-cCCHHHHHHHHHHhCC
Confidence            1  2233445555555444432        1233459999999999999999865332 1 11 2234556889999999


Q ss_pred             chHHHHH
Q 046770          399 LPLAAKA  405 (475)
Q Consensus       399 ~PLai~~  405 (475)
                      +|..|..
T Consensus       227 ~P~~l~~  233 (234)
T PF01637_consen  227 NPRYLQE  233 (234)
T ss_dssp             -HHHHHH
T ss_pred             CHHHHhc
Confidence            9998875

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

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.36  E-value=2.5e-10  Score=113.88  Aligned_cols=252  Identities=14%  Similarity=0.068  Sum_probs=147.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc-cCc---CeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ-CHF---DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F---~~~~wv~v~~~~~~~~  270 (475)
                      ..++||+.++++|..+|...-.+    .....+.|+|++|+|||++++.++++.... ...   -..+|+++....+...
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~----~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~   90 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRG----SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQ   90 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHH
Confidence            47999999999999998652111    233568999999999999999999753211 111   1456788877778889


Q ss_pred             HHHHHHHHhhc---CCC-CCCChHHHHHHHHHHh--CCceEEEEEECCCCCC---hhhHhHhhCcC--CC-CCCCcEEEE
Q 046770          271 VTKSILRSVAM---GIV-DHNDLNLLQWKLKKQL--FGKRFLLVLDDVWNEN---YNDWIDLSRPF--QD-GAPGSKIII  338 (475)
Q Consensus       271 ~l~~il~~l~~---~~~-~~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~---~~~~~~l~~~l--~~-~~~gs~ilv  338 (475)
                      ++..++.++..   ..+ ...+...+...+.+.+  .+++++||||+++...   ......+....  .. ......+|+
T Consensus        91 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~  170 (365)
T TIGR02928        91 VLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIG  170 (365)
T ss_pred             HHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEE
Confidence            99999999852   211 1223445555555555  3568899999996541   11122332221  11 112334555


Q ss_pred             ecCChHHHHhcC-------CCceeeCCCCCHHHHHHHHhhcccCC-CCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          339 TTRNADAALIMG-------TVQAYPLKGLSNDDCMCLFTQHSLET-RDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       339 TtR~~~v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~-~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      +|+.......+.       ....+.+.+++.++..+++..++... ......++..+....++..+.|.|-.+..+....
T Consensus       171 i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a  250 (365)
T TIGR02928       171 ISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVA  250 (365)
T ss_pred             EECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            554433221111       12468899999999999999876321 1112233344455667777889886544332221


Q ss_pred             -----cC---CCChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhc
Q 046770          411 -----HG---KYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCS  460 (475)
Q Consensus       411 -----~~---~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s  460 (475)
                           ..   .-+.+....+.+..          -.....-++..||.+.+..+..+.
T Consensus       251 ~~~a~~~~~~~it~~~v~~a~~~~----------~~~~~~~~i~~l~~~~~~~l~ai~  298 (365)
T TIGR02928       251 GEIAEREGAERVTEDHVEKAQEKI----------EKDRLLELIRGLPTHSKLVLLAIA  298 (365)
T ss_pred             HHHHHHcCCCCCCHHHHHHHHHHH----------HHHHHHHHHHcCCHHHHHHHHHHH
Confidence                 11   12344444444321          012334456788887776555443

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=99.14  E-value=2.9e-10  Score=99.80  Aligned_cols=143  Identities=22%  Similarity=0.216  Sum_probs=87.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHH---HHHHHHHHHhhcCCCCCCChHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDII---RVTKSILRSVAMGIVDHNDLNLLQWKLK  297 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~---~~l~~il~~l~~~~~~~~~~~~l~~~l~  297 (475)
                      +++.|+|.+|+||||+++.++........    +...+|.+........   .+...+..+.....   .....   .+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~~~---~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---APIEE---LLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhhHH---HHH
Confidence            47899999999999999999875433322    4456677666544332   23222322222111   11111   122


Q ss_pred             HH-hCCceEEEEEECCCCCChh-------hHhHhhCcCCC--CCCCcEEEEecCChHH---HHhcCCCceeeCCCCCHHH
Q 046770          298 KQ-LFGKRFLLVLDDVWNENYN-------DWIDLSRPFQD--GAPGSKIIITTRNADA---ALIMGTVQAYPLKGLSNDD  364 (475)
Q Consensus       298 ~~-l~~kr~LlVlDdv~~~~~~-------~~~~l~~~l~~--~~~gs~ilvTtR~~~v---~~~~~~~~~~~l~~L~~~~  364 (475)
                      .. ...++++||||++++....       .+..++..+..  ...++++|||+|....   .........+.+.+|++++
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~  154 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEED  154 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHH
Confidence            22 2578999999999654321       13333333322  2468999999998665   3334455689999999999


Q ss_pred             HHHHHhhcc
Q 046770          365 CMCLFTQHS  373 (475)
Q Consensus       365 ~~~lf~~~~  373 (475)
                      ..+++.+..
T Consensus       155 ~~~~~~~~f  163 (166)
T PF05729_consen  155 IKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHh
Confidence            999998654

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.11  E-value=5.6e-10  Score=108.46  Aligned_cols=235  Identities=16%  Similarity=0.087  Sum_probs=123.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+|+|++..++.|..++.. .....  .....+.++|++|+|||+||+.+++...  ..+   ..+..+..... ..+..
T Consensus         4 ~~~iG~~~~~~~l~~~l~~-~~~~~--~~~~~~ll~Gp~G~GKT~la~~ia~~~~--~~~---~~~~~~~~~~~-~~l~~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEA-AKMRQ--EALDHLLLYGPPGLGKTTLAHIIANEMG--VNL---KITSGPALEKP-GDLAA   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHH-HHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHhC--CCE---EEeccchhcCc-hhHHH
Confidence            3699999999999988864 11111  3345688999999999999999988432  222   11111111111 11222


Q ss_pred             HHHHhhcCCC----CCCC-hHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhc
Q 046770          275 ILRSVAMGIV----DHND-LNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIM  349 (475)
Q Consensus       275 il~~l~~~~~----~~~~-~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~  349 (475)
                      .+..+.....    +... .......+...+.+.+..+|+++.....  .+   ...+   .+.+-|..||+...+....
T Consensus        75 ~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~--~~---~~~~---~~~~li~~t~~~~~l~~~l  146 (305)
T TIGR00635        75 ILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSAR--SV---RLDL---PPFTLVGATTRAGMLTSPL  146 (305)
T ss_pred             HHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCcccc--ce---eecC---CCeEEEEecCCccccCHHH
Confidence            2222221100    0000 0112223344444444444554432221  11   1111   1245566677754332211


Q ss_pred             --CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcC------C--CChhHH
Q 046770          350 --GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHG------K--YDPSDW  419 (475)
Q Consensus       350 --~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~------~--~~~~~w  419 (475)
                        .....+.+++++.++..+++.+.+..... .   -..+....|++.|+|.|-.+..++..+..      .  .+.+..
T Consensus       147 ~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~-~---~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v  222 (305)
T TIGR00635       147 RDRFGIILRLEFYTVEELAEIVSRSAGLLNV-E---IEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIA  222 (305)
T ss_pred             HhhcceEEEeCCCCHHHHHHHHHHHHHHhCC-C---cCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHH
Confidence              12356789999999999999987753321 1   22456678999999999776655543310      0  111111


Q ss_pred             HHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhh-hhcccCCC
Q 046770          420 ESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFA-YCSLFPKD  465 (475)
Q Consensus       420 ~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~-~~sifp~~  465 (475)
                      ..               ....+...|..|+.+.+..|. .++.++.+
T Consensus       223 ~~---------------~l~~l~~~~~~l~~~~~~~L~al~~~~~~~  254 (305)
T TIGR00635       223 LK---------------ALEMLMIDELGLDEIDRKLLSVLIEQFQGG  254 (305)
T ss_pred             HH---------------HHHHhCCCCCCCCHHHHHHHHHHHHHhCCC
Confidence            11               222245567778887776655 55666543

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.08  E-value=8.7e-09  Score=107.10  Aligned_cols=243  Identities=14%  Similarity=0.130  Sum_probs=154.4

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVT  272 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l  272 (475)
                      ....+-|.    +|++.|.. .      .+.+.+.|..|.|.|||||+-+...  +.. .-..+.|.++.+. .++..++
T Consensus        18 ~~~~v~R~----rL~~~L~~-~------~~~RL~li~APAGfGKttl~aq~~~--~~~-~~~~v~Wlslde~dndp~rF~   83 (894)
T COG2909          18 PDNYVVRP----RLLDRLRR-A------NDYRLILISAPAGFGKTTLLAQWRE--LAA-DGAAVAWLSLDESDNDPARFL   83 (894)
T ss_pred             cccccccH----HHHHHHhc-C------CCceEEEEeCCCCCcHHHHHHHHHH--hcC-cccceeEeecCCccCCHHHHH
Confidence            34455554    46666654 2      4679999999999999999999975  111 2246899998764 5788899


Q ss_pred             HHHHHHhhcCCCC-------------CCChHHHHHHHHHHhC--CceEEEEEECCCCCChhhHhHhhCc-CCCCCCCcEE
Q 046770          273 KSILRSVAMGIVD-------------HNDLNLLQWKLKKQLF--GKRFLLVLDDVWNENYNDWIDLSRP-FQDGAPGSKI  336 (475)
Q Consensus       273 ~~il~~l~~~~~~-------------~~~~~~l~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~l~~~-l~~~~~gs~i  336 (475)
                      ..++..++.-.++             ..+...+...+..-+.  .++..+||||.+-........-+.. +.....+-.+
T Consensus        84 ~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~l  163 (894)
T COG2909          84 SYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTL  163 (894)
T ss_pred             HHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEE
Confidence            9999888754332             2233334444444332  4689999999865432233322222 2344567899


Q ss_pred             EEecCChHHHHhcC---CCceeeC----CCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          337 IITTRNADAALIMG---TVQAYPL----KGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       337 lvTtR~~~v~~~~~---~~~~~~l----~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      |||||+..-.....   ....+++    =.|+.+|+-++|.......-       .....+.|++..+|-+-|+..++-.
T Consensus       164 vv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L-------d~~~~~~L~~~teGW~~al~L~aLa  236 (894)
T COG2909         164 VVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL-------DAADLKALYDRTEGWAAALQLIALA  236 (894)
T ss_pred             EEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC-------ChHHHHHHHhhcccHHHHHHHHHHH
Confidence            99999853221111   1122222    24889999999997753221       2345677999999999999999999


Q ss_pred             hcCCCChhHHHHHHhccccccCCCccchH-HHHHHhhhcCChhHHHHhhhhcccCC
Q 046770          410 LHGKYDPSDWESVLNSRIWDLSQGRCDIV-HTLALSYHYLSRPLKKCFAYCSLFPK  464 (475)
Q Consensus       410 L~~~~~~~~w~~~l~~~~~~~~~~~~~i~-~~l~~sy~~L~~~~k~cf~~~sifp~  464 (475)
                      ++.+.+.+.-...+.       +....+. -...--++.||+++|..++-||+++.
T Consensus       237 ~~~~~~~~q~~~~Ls-------G~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~  285 (894)
T COG2909         237 LRNNTSAEQSLRGLS-------GAASHLSDYLVEEVLDRLPPELRDFLLQTSVLSR  285 (894)
T ss_pred             ccCCCcHHHHhhhcc-------chHHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH
Confidence            985533333222221       1111122 23344578999999999999999864

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

Probab=99.04  E-value=2.2e-09  Score=102.72  Aligned_cols=174  Identities=25%  Similarity=0.307  Sum_probs=107.2

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..+++|....+.++++   .        +.+....+||++|+||||||+.+...  ....|     ..++-..+-.+-++
T Consensus        29 Q~HLlg~~~~lrr~v~---~--------~~l~SmIl~GPPG~GKTTlA~liA~~--~~~~f-----~~~sAv~~gvkdlr   90 (436)
T COG2256          29 QEHLLGEGKPLRRAVE---A--------GHLHSMILWGPPGTGKTTLARLIAGT--TNAAF-----EALSAVTSGVKDLR   90 (436)
T ss_pred             hHhhhCCCchHHHHHh---c--------CCCceeEEECCCCCCHHHHHHHHHHh--hCCce-----EEeccccccHHHHH
Confidence            3456666555555544   2        56777889999999999999999983  33334     22333332222223


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE--ecCChHHH---Hh
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII--TTRNADAA---LI  348 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv--TtR~~~v~---~~  348 (475)
                      .+++..                -+....|++.+|++|.|+.-+....+.++..+   ..|.-|+|  ||.++...   ..
T Consensus        91 ~i~e~a----------------~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~AL  151 (436)
T COG2256          91 EIIEEA----------------RKNRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPAL  151 (436)
T ss_pred             HHHHHH----------------HHHHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHH
Confidence            333221                12233589999999999887665555555444   35666665  66665332   23


Q ss_pred             cCCCceeeCCCCCHHHHHHHHhhcccCCCCC-C--CCchHHHHHHHHHHhcCCchHHHH
Q 046770          349 MGTVQAYPLKGLSNDDCMCLFTQHSLETRDF-S--MHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       349 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~-~--~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      .+...++.+++|+.++...++.+.+...... .  .....+++...|+..++|---++-
T Consensus       152 lSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aL  210 (436)
T COG2256         152 LSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRAL  210 (436)
T ss_pred             hhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHH
Confidence            3456889999999999999999843222111 1  111224566778888888765443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.04  E-value=9.8e-09  Score=103.73  Aligned_cols=180  Identities=21%  Similarity=0.231  Sum_probs=108.0

Q ss_pred             cccccchhHHH---HHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHH
Q 046770          196 KVYGRSKEREE---IVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       196 ~~vGR~~e~~~---l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      +++|++..+..   |..++..        .....+.|+|++|+||||||+.+++..  ...     |+.++....-..-+
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~--------~~~~~ilL~GppGtGKTtLA~~ia~~~--~~~-----~~~l~a~~~~~~~i   77 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEA--------GRLSSMILWGPPGTGKTTLARIIAGAT--DAP-----FEALSAVTSGVKDL   77 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHc--------CCCceEEEECCCCCCHHHHHHHHHHHh--CCC-----EEEEecccccHHHH
Confidence            57887776555   6776655        345578899999999999999998842  222     22222221111112


Q ss_pred             HHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE--ecCChHHH---H
Q 046770          273 KSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII--TTRNADAA---L  347 (475)
Q Consensus       273 ~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv--TtR~~~v~---~  347 (475)
                      +.++.....                ....+++.+|+||+++.......+.++..+..   +..+++  ||.+....   .
T Consensus        78 r~ii~~~~~----------------~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         78 REVIEEARQ----------------RRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHHHHHHHH----------------hhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHH
Confidence            222222110                11246788999999987766566666655543   444444  34443211   2


Q ss_pred             hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          348 IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       348 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      ..+....+.+.+++.++...++.+.+....... .....+....|++.|+|.+..+..+...+
T Consensus       139 L~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~~~s~Gd~R~aln~Le~~  200 (413)
T PRK13342        139 LLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALARLANGDARRALNLLELA  200 (413)
T ss_pred             HhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            223347799999999999999987653211100 12234667789999999998776554443

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.04  E-value=4.1e-10  Score=110.35  Aligned_cols=242  Identities=17%  Similarity=0.114  Sum_probs=123.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+|+|+++.++.+..++.. .....  .....+.|+|++|+|||+||+.+++...  ..+   .++..+ .......+..
T Consensus        25 ~~~vG~~~~~~~l~~~l~~-~~~~~--~~~~~~ll~GppG~GKT~la~~ia~~l~--~~~---~~~~~~-~~~~~~~l~~   95 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEA-AKKRG--EALDHVLLYGPPGLGKTTLANIIANEMG--VNI---RITSGP-ALEKPGDLAA   95 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHH-HHhcC--CCCCcEEEECCCCccHHHHHHHHHHHhC--CCe---EEEecc-cccChHHHHH
Confidence            4699999999999887754 11111  3456788999999999999999998532  211   111111 1111122223


Q ss_pred             HHHHhhcCCC----CCCCh-HHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhc
Q 046770          275 ILRSVAMGIV----DHNDL-NLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIM  349 (475)
Q Consensus       275 il~~l~~~~~----~~~~~-~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~  349 (475)
                      ++..+.....    +.... ....+.+...+.+.+..+++|+..+..     .+...+   ...+-|..|++...+....
T Consensus        96 ~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~-----~~~~~l---~~~~li~at~~~~~l~~~L  167 (328)
T PRK00080         96 ILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAAR-----SIRLDL---PPFTLIGATTRAGLLTSPL  167 (328)
T ss_pred             HHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccc-----ceeecC---CCceEEeecCCcccCCHHH
Confidence            3322211100    00000 011122223333333334443332110     000011   1234566666654332211


Q ss_pred             -C-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHhccc
Q 046770          350 -G-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRI  427 (475)
Q Consensus       350 -~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~~~~  427 (475)
                       . ....+++++++.++..+++.+.+..... .   ...+....|++.|+|.|-.+..+...+.      .|......  
T Consensus       168 ~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~-~---~~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~~~--  235 (328)
T PRK00080        168 RDRFGIVQRLEFYTVEELEKIVKRSARILGV-E---IDEEGALEIARRSRGTPRIANRLLRRVR------DFAQVKGD--  235 (328)
T ss_pred             HHhcCeeeecCCCCHHHHHHHHHHHHHHcCC-C---cCHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHcCC--
Confidence             1 1256899999999999999987754322 1   2245678899999999976665555332      12111100  


Q ss_pred             cccCCC-ccchHHHHHHhhhcCChhHHHHhh-hhcccCCC
Q 046770          428 WDLSQG-RCDIVHTLALSYHYLSRPLKKCFA-YCSLFPKD  465 (475)
Q Consensus       428 ~~~~~~-~~~i~~~l~~sy~~L~~~~k~cf~-~~sifp~~  465 (475)
                      ...... -......+...|..|++..+..+. .+..|+.+
T Consensus       236 ~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~  275 (328)
T PRK00080        236 GVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGG  275 (328)
T ss_pred             CCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC
Confidence            000000 012334455667778777777664 66666655

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.97  E-value=5.2e-08  Score=102.24  Aligned_cols=214  Identities=12%  Similarity=0.013  Sum_probs=123.0

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc---ccCcC--eEEEEEecCCCCH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV---QCHFD--LKAWTYVSQDFDI  268 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---~~~F~--~~~wv~v~~~~~~  268 (475)
                      +..+.||++|+++|...|...-.+ .  ....++.|+|++|.|||++++.|.+....   .....  ..++|++....+.
T Consensus       754 PD~LPhREeEIeeLasfL~paIkg-s--gpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp  830 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQ-S--GSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHP  830 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhc-C--CCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCH
Confidence            357899999999999988652221 1  22357789999999999999999874321   11111  3567888777788


Q ss_pred             HHHHHHHHHHhhcCCCC-CCChHHHHHHHHHHh-C--CceEEEEEECCCCCChhhHhHhhCcCC-CCCCCcEEEE--ecC
Q 046770          269 IRVTKSILRSVAMGIVD-HNDLNLLQWKLKKQL-F--GKRFLLVLDDVWNENYNDWIDLSRPFQ-DGAPGSKIII--TTR  341 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~-~~~~~~l~~~l~~~l-~--~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~ilv--TtR  341 (475)
                      ..++..|..++....+. ..........+...+ .  +...+||||+++......-+.|...+. ....+++|+|  +|.
T Consensus       831 ~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISN  910 (1164)
T PTZ00112        831 NAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISN  910 (1164)
T ss_pred             HHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecC
Confidence            88999999888554332 222333444444443 2  224589999996432111111221221 1123455443  333


Q ss_pred             Ch--------HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          342 NA--------DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       342 ~~--------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      ..        .+...+ ....+...|++.++..+++..++........+..++-+++.++...|-.=.||.++-....
T Consensus       911 dlDLperLdPRLRSRL-g~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        911 TMDLPERLIPRCRSRL-AFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             chhcchhhhhhhhhcc-ccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence            21        111111 1234677999999999999988754322223333444444444444444556665554443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.88  E-value=1.6e-08  Score=93.62  Aligned_cols=155  Identities=16%  Similarity=0.159  Sum_probs=96.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +.+.|+|++|+|||+|++.+++..  ........|++.....   .....                     +.+.+. +.
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~--~~~~~~~~y~~~~~~~---~~~~~---------------------~~~~~~-~~   92 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHY--LLNQRTAIYIPLSKSQ---YFSPA---------------------VLENLE-QQ   92 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEeeHHHhh---hhhHH---------------------HHhhcc-cC
Confidence            578999999999999999999853  2222344666553210   00001                     111111 23


Q ss_pred             EEEEEECCCCCC-hhhHhH-hhCcCCCC-CCCcEEE-EecCC---------hHHHHhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          305 FLLVLDDVWNEN-YNDWID-LSRPFQDG-APGSKII-ITTRN---------ADAALIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       305 ~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~gs~il-vTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      -+|+|||+|... ...|.. +...+... ..|..+| +|++.         +.+...+.....+++++++.++.++++.+
T Consensus        93 dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~  172 (229)
T PRK06893         93 DLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQR  172 (229)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHH
Confidence            499999998642 234553 33333221 2355554 45543         35555555667899999999999999998


Q ss_pred             cccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          372 HSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      .+....-    .-.+++..-|++.+.|..-.+..+-..|
T Consensus       173 ~a~~~~l----~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        173 NAYQRGI----ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHcCC----CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            8864321    1225677789999998887777665555

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.88  E-value=1.7e-08  Score=109.97  Aligned_cols=261  Identities=15%  Similarity=0.153  Sum_probs=153.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc-cCcCeEEEEEecCCC---CHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFDLKAWTYVSQDF---DIIRV  271 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~v~~~~---~~~~~  271 (475)
                      +++||+.|++.|...+.....     +...++.+.|..|||||+|++.|..-...+ ..|-.-.+-....+.   .....
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-----GRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQA   75 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhC-----CCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHH
Confidence            378999999999999876333     344699999999999999999998732111 111111111111111   12234


Q ss_pred             HHHHHHHhhcCCC--------------------------------C---------CCChH-----HHHHHHHHHh-CCce
Q 046770          272 TKSILRSVAMGIV--------------------------------D---------HNDLN-----LLQWKLKKQL-FGKR  304 (475)
Q Consensus       272 l~~il~~l~~~~~--------------------------------~---------~~~~~-----~l~~~l~~~l-~~kr  304 (475)
                      +++++.++.....                                +         .....     .....+.... +.++
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            4444444311110                                0         00000     1122233333 4569


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCC------CCcEEEEecCCh--HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCC
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGA------PGSKIIITTRNA--DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLET  376 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~------~gs~ilvTtR~~--~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~  376 (475)
                      .++|+||+++.+....+-+...+....      +..-.+.|.+..  .+-........+.|.||+..+...+........
T Consensus       156 lVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~  235 (849)
T COG3899         156 LVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT  235 (849)
T ss_pred             eEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc
Confidence            999999997776555544432222111      111223333332  222222345789999999999999998776432


Q ss_pred             CCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCC------CChhHHHHHHhccccccCCCccchHHHHHHhhhcCCh
Q 046770          377 RDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGK------YDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSR  450 (475)
Q Consensus       377 ~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~------~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~  450 (475)
                      .     ....+....|+++..|+|+.+..+-..+..+      .+...|..-..+. ...+.. +.+...+..-.+.||.
T Consensus       236 ~-----~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i-~~~~~~-~~vv~~l~~rl~kL~~  308 (849)
T COG3899         236 K-----LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASL-GILATT-DAVVEFLAARLQKLPG  308 (849)
T ss_pred             c-----cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhc-CCchhh-HHHHHHHHHHHhcCCH
Confidence            2     2334667779999999999999999888874      3334443222111 111111 2245568888999999


Q ss_pred             hHHHHhhhhcccCCCccc
Q 046770          451 PLKKCFAYCSLFPKDYEF  468 (475)
Q Consensus       451 ~~k~cf~~~sifp~~~~i  468 (475)
                      ..++.+...|++-..|..
T Consensus       309 ~t~~Vl~~AA~iG~~F~l  326 (849)
T COG3899         309 TTREVLKAAACIGNRFDL  326 (849)
T ss_pred             HHHHHHHHHHHhCccCCH
Confidence            999999999998877663

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

Probab=98.86  E-value=5.7e-09  Score=87.80  Aligned_cols=117  Identities=16%  Similarity=0.135  Sum_probs=81.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccc---cCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHh
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQ---CHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL  300 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l  300 (475)
                      -+++.|+|++|+|||++++.+.++....   ..-...+|+.+....+...+...++.++........+...+...+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4689999999999999999998843111   0023567999988889999999999999987766566777778888887


Q ss_pred             CCc-eEEEEEECCCCC-ChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          301 FGK-RFLLVLDDVWNE-NYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       301 ~~k-r~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      ... ..+|||||++.. +...++.+...+.  ..+.++|+..+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            655 459999999665 4444555544333  567778777664

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.81  E-value=3.9e-08  Score=91.15  Aligned_cols=171  Identities=15%  Similarity=0.115  Sum_probs=99.4

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA  280 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~  280 (475)
                      +..++.+..++..        .....+.|+|++|+|||+||+.+++..  .......+++++..-.+.   ...+     
T Consensus        23 ~~~~~~l~~~~~~--------~~~~~lll~G~~G~GKT~la~~~~~~~--~~~~~~~~~i~~~~~~~~---~~~~-----   84 (226)
T TIGR03420        23 AELLAALRQLAAG--------KGDRFLYLWGESGSGKSHLLQAACAAA--EERGKSAIYLPLAELAQA---DPEV-----   84 (226)
T ss_pred             HHHHHHHHHHHhc--------CCCCeEEEECCCCCCHHHHHHHHHHHH--HhcCCcEEEEeHHHHHHh---HHHH-----
Confidence            3456666666543        234678999999999999999998743  222234455555432110   0011     


Q ss_pred             cCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChh-hH-hHhhCcCCC-CCCCcEEEEecCChH---------HHHh
Q 046770          281 MGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYN-DW-IDLSRPFQD-GAPGSKIIITTRNAD---------AALI  348 (475)
Q Consensus       281 ~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~-~~-~~l~~~l~~-~~~gs~ilvTtR~~~---------v~~~  348 (475)
                                      ...+.+ .-+|||||++..... .| ..+...+.. ...+..+|+||+...         +...
T Consensus        85 ----------------~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        85 ----------------LEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             ----------------Hhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                            111222 238999999754321 22 233333321 123457888887532         1222


Q ss_pred             cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          349 MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       349 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      +.....+++.+++.++...++...+..... .   -..+..+.|++.+.|+|..+.-+...+
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~-~---~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRGL-Q---LPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            222467899999999999998865432211 1   123556678888999998877665443

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

>PTZ00202 tuzin; Provisional

Probab=98.81  E-value=8.7e-07  Score=86.76  Aligned_cols=168  Identities=13%  Similarity=0.140  Sum_probs=104.0

Q ss_pred             CCcccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          190 SLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       190 ~~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .+.+.+.|+||+.++..|...|...+.     ...+++.|+|++|+|||||++.+.....    + ...+++..   +..
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~-----~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~e  323 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDT-----AHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTE  323 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCC-----CCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHH
Confidence            444567899999999999999975232     2346999999999999999999987432    1 13333333   679


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHh-----C-CceEEEEEECCCCCCh-hhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQL-----F-GKRFLLVLDDVWNENY-NDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-----~-~kr~LlVlDdv~~~~~-~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      +++..++.+|+...  .....++...|.+.+     . |++.+||+-==..++. ..+.+. ..|.....-|.|++---.
T Consensus       324 ElLr~LL~ALGV~p--~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~-v~la~drr~ch~v~evpl  400 (550)
T PTZ00202        324 DTLRSVVKALGVPN--VEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEV-VALACDRRLCHVVIEVPL  400 (550)
T ss_pred             HHHHHHHHHcCCCC--cccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHH-HHHHccchhheeeeeehH
Confidence            99999999999732  222234444444433     3 6777777643211111 112221 123333445777765544


Q ss_pred             hHHHHhc---CCCceeeCCCCCHHHHHHHHhhcc
Q 046770          343 ADAALIM---GTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       343 ~~v~~~~---~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      +......   .....|.+.+++.+++..+..+..
T Consensus       401 eslt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        401 ESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hhcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            3322111   123457889999999998887653

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.80  E-value=2.4e-07  Score=90.21  Aligned_cols=177  Identities=15%  Similarity=0.241  Sum_probs=116.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc----ccccCcCeEEEEEe-cCCCCHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS----RVQCHFDLKAWTYV-SQDFDIIR  270 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~v-~~~~~~~~  270 (475)
                      +++|-+.-++.+..++.. .      .-.....++|+.|+||||+|+.++...    ....|.|...|... +....+.+
T Consensus         5 ~i~g~~~~~~~l~~~~~~-~------~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIK-N------RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hccCcHHHHHHHHHHHHc-C------CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            578888888899998865 2      223567899999999999999887631    23456666555442 22223323


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHH--Hh
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAA--LI  348 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~--~~  348 (475)
                       ++++.+.+....                ..+++=++|+|+++..+...+..++..+.....++.+|++|.+.+..  ..
T Consensus        78 -ir~~~~~~~~~p----------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI  140 (313)
T PRK05564         78 -IRNIIEEVNKKP----------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTI  140 (313)
T ss_pred             -HHHHHHHHhcCc----------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHH
Confidence             233333332211                12455678888887777778999999988777788888888764322  12


Q ss_pred             cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          349 MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       349 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      .+....+++.+++.++....+.+....     ..   .+.+..++..++|.|.-+.
T Consensus       141 ~SRc~~~~~~~~~~~~~~~~l~~~~~~-----~~---~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        141 KSRCQIYKLNRLSKEEIEKFISYKYND-----IK---EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HhhceeeeCCCcCHHHHHHHHHHHhcC-----CC---HHHHHHHHHHcCCCHHHHH
Confidence            233478999999999998888755321     11   2335678889999887554

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.80  E-value=1.2e-07  Score=93.46  Aligned_cols=202  Identities=12%  Similarity=0.055  Sum_probs=111.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCH-HHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDI-IRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~-~~~l  272 (475)
                      .+++|++..++.|..++..        +..+.+.++|++|+||||+|+.+.+... ...+. ..+.+++++..+. ...+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~--------~~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~~~~~~   85 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDS--------PNLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQGKKYL   85 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhC--------CCCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhcchhhh
Confidence            4688999999999998865        3345688999999999999999887432 11121 1233333321100 0000


Q ss_pred             H---HHHHHhhcC-CCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          273 K---SILRSVAMG-IVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       273 ~---~il~~l~~~-~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      .   .....+... .......+.....++...     .+.+-+|||||+..........+...+......+++|+||...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0   000000000 000111122222222221     2344589999997655444444554444333456787777543


Q ss_pred             H-HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          344 D-AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       344 ~-v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      . +. ........+.+.+++.++...++.+.+...+. .   -..+....|++.++|.+-.+......
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~al~~l~~~~~gdlr~l~~~l~~  229 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV-D---YDDDGLELIAYYAGGDLRKAILTLQT  229 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2 21 12223467889999999999999876543321 1   22456777899999987766544443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=3.5e-07  Score=90.81  Aligned_cols=194  Identities=15%  Similarity=0.171  Sum_probs=111.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-++.+.+.+.. .      .-...+.++|+.|+||||+|+.+++...-.....       ..+...-.....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~-~------~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~   81 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSL-G------RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKE   81 (363)
T ss_pred             hhccChHHHHHHHHHHHHc-C------CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHH
Confidence            3689999999999888866 2      2234678999999999999999987421111000       000000000011


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-  343 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-  343 (475)
                      +......     ........+... .+.+.+     .+++-++|||+++..+...+..++..+......+.+|++|.+. 
T Consensus        82 ~~~~~~~d~~~~~~~~~~~v~~ir-~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~  160 (363)
T PRK14961         82 IEKGLCLDLIEIDAASRTKVEEMR-EILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVE  160 (363)
T ss_pred             HhcCCCCceEEecccccCCHHHHH-HHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChH
Confidence            1000000     000001122211 121211     2445699999998777666777877776555566777766543 


Q ss_pred             HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          344 DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       344 ~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .+.. ..+....+++.+++.++..+++.+.+...+.    .-..+....|++.++|.|-.+....
T Consensus       161 ~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~----~i~~~al~~ia~~s~G~~R~al~~l  221 (363)
T PRK14961        161 KIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESI----DTDEYALKLIAYHAHGSMRDALNLL  221 (363)
T ss_pred             hhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3322 2233467999999999999988876543221    1123566779999999887544443

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=1.9e-07  Score=97.56  Aligned_cols=194  Identities=15%  Similarity=0.182  Sum_probs=114.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+.+...-...+.       +..+..-.....
T Consensus        16 dEVIGQe~Vv~~L~~aL~~-g------RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~   81 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDG-G------RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACRE   81 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHH
Confidence            4689999999999999866 2      2234567999999999999998876421111110       000111111111


Q ss_pred             HHHH-----hhcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-
Q 046770          275 ILRS-----VAMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-  344 (475)
Q Consensus       275 il~~-----l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-  344 (475)
                      |...     +..........+++.+.+...    ..++.-++|||+++..+...|..++..+..-....++|+||++.. 
T Consensus        82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~K  161 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQK  161 (830)
T ss_pred             HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhh
Confidence            1100     000000111122222222221    134555889999988877778888887765556778888877643 


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKAL  406 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~  406 (475)
                      +. .+.+....+++++++.++..+.+.+.+...+.    .-..+....|++.++|..- ++.++
T Consensus       162 Ip~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI----~id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        162 IPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI----AFEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             ccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            21 22233477999999999999999877643321    1124566779999998654 55543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.75  E-value=2.2e-07  Score=98.90  Aligned_cols=183  Identities=15%  Similarity=0.174  Sum_probs=113.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccE-EEEEEccCCCcHHHHHHHHHcCcccccCcC------------------
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFS-VVSIIGMGGLGKTTLAQLVYNDSRVQCHFD------------------  255 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~------------------  255 (475)
                      .+++|-+.-+..|.+++..        +++. .+.++|+.|+||||+|+.+++...-.....                  
T Consensus        16 ddIIGQe~Iv~~LknaI~~--------~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~   87 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQ--------QRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRF   87 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHh--------CCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCC
Confidence            3689999999999988876        3333 458999999999999999987431111100                  


Q ss_pred             -eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHH-HhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCC
Q 046770          256 -LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK-QLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPG  333 (475)
Q Consensus       256 -~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  333 (475)
                       ..+++.......+. .++.++.                 .+.. -..+++-++|||+++..+...+..++..+..-...
T Consensus        88 ~DviEidAas~~kVD-dIReLie-----------------~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~  149 (944)
T PRK14949         88 VDLIEVDAASRTKVD-DTRELLD-----------------NVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEH  149 (944)
T ss_pred             ceEEEeccccccCHH-HHHHHHH-----------------HHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCC
Confidence             01111111001111 1112221                 1111 12466779999999988877888888887655556


Q ss_pred             cEEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          334 SKIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       334 s~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      +++|++|.+ ..+. .+......+++++|+.++...++.+.+-....    ....+....|++.++|.|--+..+.
T Consensus       150 vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI----~~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        150 VKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQL----PFEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             eEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            666666554 3333 22334478999999999999999876543211    1224566779999999886554443

>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=98.74  E-value=7.9e-08  Score=86.23  Aligned_cols=183  Identities=19%  Similarity=0.175  Sum_probs=99.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+|+|-++-+..+.-++.. ....+  ..+..+.++|++|+||||||+.++++.  ...|.   +.+...-...      
T Consensus        24 ~efiGQ~~l~~~l~i~i~a-a~~r~--~~l~h~lf~GPPG~GKTTLA~IIA~e~--~~~~~---~~sg~~i~k~------   89 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRA-AKKRG--EALDHMLFYGPPGLGKTTLARIIANEL--GVNFK---ITSGPAIEKA------   89 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHH-HHCTT--S---EEEEESSTTSSHHHHHHHHHHHC--T--EE---EEECCC--SC------
T ss_pred             HHccCcHHHHhhhHHHHHH-HHhcC--CCcceEEEECCCccchhHHHHHHHhcc--CCCeE---eccchhhhhH------
Confidence            4799988877776554432 11001  456788999999999999999999943  33332   2221110011      


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC--------CCC-----------cE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG--------APG-----------SK  335 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~--------~~g-----------s~  335 (475)
                                     .++...+.. + +++-+|++|+++..+...-+.+...+.++        +.+           +-
T Consensus        90 ---------------~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTl  152 (233)
T PF05496_consen   90 ---------------GDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTL  152 (233)
T ss_dssp             ---------------HHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EE
T ss_pred             ---------------HHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceE
Confidence                           111112211 1 23457888999877654444444433221        111           23


Q ss_pred             EEEecCChHHHHhcCC-C-ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcC
Q 046770          336 IIITTRNADAALIMGT-V-QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHG  412 (475)
Q Consensus       336 ilvTtR~~~v~~~~~~-~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~  412 (475)
                      |=.|||...+...+.. . -..+|+..+.+|-..+..+.+..-.    -+-..+.+.+|+++|.|-|--+.-+-+..+.
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~----i~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN----IEIDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-----EE-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC----CCcCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            4457776544433332 2 3457999999999999998765432    2344678889999999999877766666554

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.

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

Probab=98.74  E-value=7.6e-07  Score=87.67  Aligned_cols=206  Identities=15%  Similarity=0.088  Sum_probs=128.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .+.+|+.+++++...|...-.+    ....-+.|+|.+|+|||+.++.+.+.......=...++|++....++..++..|
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~----~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i   93 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRG----ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKI   93 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcC----CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHH
Confidence            4899999999999888662222    222338899999999999999999843222111127899999999999999999


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhC--CceEEEEEECCCCCChhhHhHhhCcCCCCC-CCcE--EEEecCChHHHHhcC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLF--GKRFLLVLDDVWNENYNDWIDLSRPFQDGA-PGSK--IIITTRNADAALIMG  350 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-~gs~--ilvTtR~~~v~~~~~  350 (475)
                      +++++..........+....+.+.+.  ++.+++|||++.......-+.+...+.... ..++  +|..+.+..+...+.
T Consensus        94 ~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld  173 (366)
T COG1474          94 LNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLD  173 (366)
T ss_pred             HHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhh
Confidence            99998555555666677777777774  578999999995432111122222222211 1343  344444433332221


Q ss_pred             -------CCceeeCCCCCHHHHHHHHhhcccCCCC-CCCCchHHHHHHHHHHhcCC-chHHHHH
Q 046770          351 -------TVQAYPLKGLSNDDCMCLFTQHSLETRD-FSMHQPLKEIGAKIVIKCNG-LPLAAKA  405 (475)
Q Consensus       351 -------~~~~~~l~~L~~~~~~~lf~~~~~~~~~-~~~~~~~~~~~~~I~~~c~G-~PLai~~  405 (475)
                             ....+...|-+.+|..+++..++-..-. ....+..-+.+..++..-+| -=.||.+
T Consensus       174 ~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidi  237 (366)
T COG1474         174 PRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDI  237 (366)
T ss_pred             hhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHH
Confidence                   2234778999999999999987643211 12333334444444444444 3344443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.74  E-value=3.9e-07  Score=89.07  Aligned_cols=184  Identities=13%  Similarity=0.085  Sum_probs=108.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe--cCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV--SQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--~~~~~~~~~l  272 (475)
                      .+++|++..++.+..++..        ...+.+.|+|++|+||||+|+.+.+... ...+. ..++.+  +..... ..+
T Consensus        17 ~~~~g~~~~~~~l~~~i~~--------~~~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~~~-~~~i~~~~~~~~~~-~~~   85 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKE--------KNMPHLLFAGPPGTGKTTAALALARELY-GEDWR-ENFLELNASDERGI-DVI   85 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhC--------CCCCeEEEECCCCCCHHHHHHHHHHHHc-CCccc-cceEEeccccccch-HHH
Confidence            4588999999999998865        3344579999999999999999987421 11121 112222  221111 112


Q ss_pred             HHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HH-HHhcC
Q 046770          273 KSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DA-ALIMG  350 (475)
Q Consensus       273 ~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v-~~~~~  350 (475)
                      ...+..+....+.              ....+-++++|++..........+...+......+.+|+++... .+ .....
T Consensus        86 ~~~i~~~~~~~~~--------------~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~s  151 (319)
T PRK00440         86 RNKIKEFARTAPV--------------GGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQS  151 (319)
T ss_pred             HHHHHHHHhcCCC--------------CCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHH
Confidence            2222221111000              01234589999997665445556665555444556777776432 11 11112


Q ss_pred             CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          351 TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       351 ~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      ....+++.+++.++...++.+.+...+- .   -..+....|++.++|.+.-+....
T Consensus       152 r~~~~~~~~l~~~ei~~~l~~~~~~~~~-~---i~~~al~~l~~~~~gd~r~~~~~l  204 (319)
T PRK00440        152 RCAVFRFSPLKKEAVAERLRYIAENEGI-E---ITDDALEAIYYVSEGDMRKAINAL  204 (319)
T ss_pred             HhheeeeCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2356889999999998888877643321 1   124567778999999987654433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.73  E-value=2.5e-08  Score=102.25  Aligned_cols=195  Identities=15%  Similarity=0.153  Sum_probs=112.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-++.|..++.. .      .-...+.++|++|+||||+|+.+++...-...+....|.|.+-. .+......
T Consensus        14 ~dvvGq~~v~~~L~~~i~~-~------~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~-~i~~~~h~   85 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQ-G------RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCL-AVRRGAHP   85 (504)
T ss_pred             HHhcChHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhH-HHhcCCCC
Confidence            3689988888888888866 2      12245689999999999999998874321111211222221100 00000000


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hHHHH-
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-ADAAL-  347 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~v~~-  347 (475)
                      -+..+...  .....+.+ +.+.+.     +.+++-++|||+++..+...+..++..+......+.+|++|.. ..+.. 
T Consensus        86 dv~el~~~--~~~~vd~i-R~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~  162 (504)
T PRK14963         86 DVLEIDAA--SNNSVEDV-RDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPT  162 (504)
T ss_pred             ceEEeccc--ccCCHHHH-HHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChH
Confidence            00000000  11112221 122222     2355669999999877767788888877654455565555543 33322 


Q ss_pred             hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          348 IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       348 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      .......+++.+++.++...++.+.+...+- .   ...+....|++.++|.+--+.
T Consensus       163 I~SRc~~~~f~~ls~~el~~~L~~i~~~egi-~---i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        163 ILSRTQHFRFRRLTEEEIAGKLRRLLEAEGR-E---AEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             HhcceEEEEecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHH
Confidence            2233467999999999999999887643321 1   124567789999999987554

>PLN03025 replication factor C subunit; Provisional

Probab=98.73  E-value=2.3e-07  Score=90.52  Aligned_cols=187  Identities=13%  Similarity=0.092  Sum_probs=109.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|.+.-+..|..++..        ++.+.+.++|++|+||||+|+.+++... ...|. ..+-++.++.... +.++
T Consensus        13 ~~~~g~~~~~~~L~~~~~~--------~~~~~lll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~eln~sd~~~~-~~vr   82 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARD--------GNMPNLILSGPPGTGKTTSILALAHELL-GPNYKEAVLELNASDDRGI-DVVR   82 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhc--------CCCceEEEECCCCCCHHHHHHHHHHHHh-cccCccceeeecccccccH-HHHH
Confidence            3578988888888877655        3345578999999999999999987421 11221 1111222222221 1223


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~  351 (475)
                      .++..+......             ...++.-+++||+++..+......++..+..-...+++|+++... .+. ...+.
T Consensus        83 ~~i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SR  149 (319)
T PLN03025         83 NKIKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSR  149 (319)
T ss_pred             HHHHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHh
Confidence            332222111000             002446699999998776555555655554334456777776542 111 11122


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      ...+++++++.++....+...+-..+- ...   .+....|++.++|..-.+.....
T Consensus       150 c~~i~f~~l~~~~l~~~L~~i~~~egi-~i~---~~~l~~i~~~~~gDlR~aln~Lq  202 (319)
T PLN03025        150 CAIVRFSRLSDQEILGRLMKVVEAEKV-PYV---PEGLEAIIFTADGDMRQALNNLQ  202 (319)
T ss_pred             hhcccCCCCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHHHHHHH
Confidence            357899999999999998877643322 111   35567799999998765554433

>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=98.72  E-value=1e-07  Score=81.28  Aligned_cols=124  Identities=19%  Similarity=0.123  Sum_probs=71.9

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       198 vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      +|++..+..+...+..        ...+.+.|+|++|+|||+|++.+++...  ..-...+++..............+..
T Consensus         1 ~~~~~~~~~i~~~~~~--------~~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~   70 (151)
T cd00009           1 VGQEEAIEALREALEL--------PPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGH   70 (151)
T ss_pred             CchHHHHHHHHHHHhC--------CCCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhh
Confidence            4778888888888765        2346789999999999999999998532  11234556655543332221111100


Q ss_pred             HhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh---hhHhHhhCcCCCC---CCCcEEEEecCCh
Q 046770          278 SVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY---NDWIDLSRPFQDG---APGSKIIITTRNA  343 (475)
Q Consensus       278 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~---~~~~~l~~~l~~~---~~gs~ilvTtR~~  343 (475)
                      .            ............++.+||+||++....   ..+..+...+...   ..+..+|+||...
T Consensus        71 ~------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          71 F------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             h------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence            0            001111222345678999999975422   2233333333221   3578888888864

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=2.9e-07  Score=94.95  Aligned_cols=197  Identities=14%  Similarity=0.147  Sum_probs=114.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC--cCeEEEEEecCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH--FDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~v~~~~~~~~~l  272 (475)
                      .++||-+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+.+...-...  -....    +..+..-...
T Consensus        16 ddVIGQe~vv~~L~~al~~-g------RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~----~~PCG~C~sC   84 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQ-Q------RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT----AQPCGQCRAC   84 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHh-C------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC----CCCCcccHHH
Confidence            4689999999999999876 2      22345689999999999999998763211000  00000    0000000111


Q ss_pred             HHHHHH-----hhcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-
Q 046770          273 KSILRS-----VAMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-  342 (475)
Q Consensus       273 ~~il~~-----l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-  342 (475)
                      ..|...     +..........+++.+.+...    ..++.-++|||+++..+...+..++..+..-..++.+|++|.+ 
T Consensus        85 ~~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep  164 (700)
T PRK12323         85 TEIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDP  164 (700)
T ss_pred             HHHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCCh
Confidence            111000     000000111223332222221    1456669999999988878888888888755556666665554 


Q ss_pred             hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          343 ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       343 ~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      ..+. .+.+....+.++.++.++..+.+.+.+...+. .   ...+....|++.++|.|.-...+
T Consensus       165 ~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi-~---~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        165 QKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI-A---HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3332 22233467999999999999988876543221 1   11345577999999999755544

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

Probab=98.70  E-value=2e-08  Score=89.90  Aligned_cols=51  Identities=24%  Similarity=0.319  Sum_probs=33.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ  251 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  251 (475)
                      .|+||+++++++...|.. ...    ...+++.|+|++|+|||+|.+.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~-~~~----~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDA-AQS----GSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGG-TSS---------EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH-HHc----CCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            489999999999999952 221    456899999999999999999998854333

>PF13173 AAA_14: AAA domain

Probab=98.70  E-value=4.3e-08  Score=82.16  Aligned_cols=119  Identities=21%  Similarity=0.221  Sum_probs=78.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +++.|.|+.|+|||||+++++.+..   .....++++..+.........                + ....+.+....++
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            6899999999999999999997532   234566766655332110000                0 2223333333467


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHh------cCCCceeeCCCCCHHHH
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALI------MGTVQAYPLKGLSNDDC  365 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~------~~~~~~~~l~~L~~~~~  365 (475)
                      .+|+||++...  ..|......+.+.....+|++|+.+......      .+....++|.||+..|.
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            89999999665  4687777777665567899999998655432      12235688999998764

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

Probab=98.69  E-value=3e-07  Score=86.84  Aligned_cols=158  Identities=18%  Similarity=0.210  Sum_probs=101.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      +.++.+.+||++|+||||||+.+.+..+...    ..||..+....-..-+++|+++...               ...+.
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~---------------~~~l~  220 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQN---------------EKSLT  220 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHH---------------HHhhh
Confidence            5678889999999999999999998654333    4466666554444444555544321               12345


Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE--ecCChHHH---HhcCCCceeeCCCCCHHHHHHHHhhccc--
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII--TTRNADAA---LIMGTVQAYPLKGLSNDDCMCLFTQHSL--  374 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv--TtR~~~v~---~~~~~~~~~~l~~L~~~~~~~lf~~~~~--  374 (475)
                      ++|.+|++|+|+..+..+.+.+   |+.-.+|.-++|  ||.++...   ..+....++.|++|+.++...++.+..-  
T Consensus       221 krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l  297 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASL  297 (554)
T ss_pred             cceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhh
Confidence            7899999999976654333333   444456666555  77776443   2334557899999999999999987321  


Q ss_pred             CC-C---CCCCC---chHHHHHHHHHHhcCCchH
Q 046770          375 ET-R---DFSMH---QPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       375 ~~-~---~~~~~---~~~~~~~~~I~~~c~G~PL  401 (475)
                      +. .   ++..+   .....+.+-++..|+|-.-
T Consensus       298 ~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  298 GDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             ccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            11 1   11111   1345667778888888754

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=6.2e-07  Score=92.73  Aligned_cols=194  Identities=13%  Similarity=0.148  Sum_probs=114.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+..++.|.+++.. .      .-...+.++|+.|+||||+|+.+++...-..      ++. ..+++.-...+.
T Consensus        15 ddVIGQe~vv~~L~~aI~~-g------rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~------~~~-~~pCg~C~sC~~   80 (702)
T PRK14960         15 NELVGQNHVSRALSSALER-G------RLHHAYLFTGTRGVGKTTIARILAKCLNCET------GVT-STPCEVCATCKA   80 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCc------CCC-CCCCccCHHHHH
Confidence            4689999999999999876 2      2235778999999999999999876321110      100 000000011111


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-H
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-D  344 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~  344 (475)
                      +...-..     ........+.....+...    ..++.-++|||+++..+......++..+.....+..+|++|.+. .
T Consensus        81 I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~k  160 (702)
T PRK14960         81 VNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQK  160 (702)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHh
Confidence            1100000     000011222222222111    23566689999998877677777877776555567777777653 2


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      +. ...+....+++++++.++....+.+.+...+.    .-..+....|++.++|.+-.+..+
T Consensus       161 Ip~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI----~id~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        161 LPITVISRCLQFTLRPLAVDEITKHLGAILEKEQI----AADQDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             hhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            21 22234578999999999999998876643322    122455677999999987655443

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.64  E-value=3e-08  Score=95.69  Aligned_cols=236  Identities=20%  Similarity=0.245  Sum_probs=155.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ..+.+.++|.|||||||++-++..   +...|. .+.++.+....+...+...+...+.......   +.....+.....
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g---~~~~~~~~~~~~   86 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG---DSAVDTLVRRIG   86 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccc---hHHHHHHHHHHh
Confidence            357899999999999999999887   455565 4555555555555555555555455443221   223345666777


Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhcCCCceeeCCCCCHH-HHHHHHhhcccCCCC-C
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSND-DCMCLFTQHSLETRD-F  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~~~~~~~l~~L~~~-~~~~lf~~~~~~~~~-~  379 (475)
                      ++|.++|+||.... ...-..+...+..++..-.|+.|+|.....   .+.....+.+|+.. ++.++|...+..... .
T Consensus        87 ~rr~llvldncehl-~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          87 DRRALLVLDNCEHL-LDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhHHHHhcCcHHH-HHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccce
Confidence            89999999998332 112223333444455566888888875322   24456677777755 688888766533221 1


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHhccccccCCC-------ccchHHHHHHhhhcCChhH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQG-------RCDIVHTLALSYHYLSRPL  452 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~~~~~~~~~~-------~~~i~~~l~~sy~~L~~~~  452 (475)
                      ...........+|+++.+|.|++|...+...+.- ...+-..-++.....+.+.       .....+.+.+||.-|..-.
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl-~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe  241 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSL-SPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWE  241 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhc-CHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHH
Confidence            1223345678889999999999999999988876 4555444444332222222       1346678999999999999


Q ss_pred             HHHhhhhcccCCCcccC
Q 046770          453 KKCFAYCSLFPKDYEFQ  469 (475)
Q Consensus       453 k~cf~~~sifp~~~~i~  469 (475)
                      +-.|.-++.|...|...
T Consensus       242 ~~~~~rLa~~~g~f~~~  258 (414)
T COG3903         242 RALFGRLAVFVGGFDLG  258 (414)
T ss_pred             HHHhcchhhhhhhhccc
Confidence            99999999998887654

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=1.4e-07  Score=94.64  Aligned_cols=198  Identities=15%  Similarity=0.096  Sum_probs=115.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|-+.-+..|..++..        +++ ..+.++|+.|+||||+|+.+++...-.....   ...+.....-..+..
T Consensus        18 ~dvVGQe~iv~~L~~~i~~--------~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~sC~~i~~   86 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKS--------GKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTSCLEITK   86 (484)
T ss_pred             HHHhChHHHHHHHHHHHHc--------CCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcHHHHHHc
Confidence            3689988888889988876        333 3578999999999999999987421111000   001111111111111


Q ss_pred             HHHHH---hhc-CCCCCCChHHHHHHHHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hHHH-
Q 046770          274 SILRS---VAM-GIVDHNDLNLLQWKLKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-ADAA-  346 (475)
Q Consensus       274 ~il~~---l~~-~~~~~~~~~~l~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~v~-  346 (475)
                      .....   +.. ...+.++...+...+... ..++.-++|||+++..+...+..++..+........+|++|.. ..+. 
T Consensus        87 g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~  166 (484)
T PRK14956         87 GISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPE  166 (484)
T ss_pred             cCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccH
Confidence            00000   000 000111122222222211 2456669999999888878888888887654445565555544 3332 


Q ss_pred             HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          347 LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       347 ~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      ........|.+.+++.++...++.+.+...+.    .-..+....|++.++|.+--+..+.
T Consensus       167 TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi----~~e~eAL~~Ia~~S~Gd~RdAL~lL  223 (484)
T PRK14956        167 TILSRCQDFIFKKVPLSVLQDYSEKLCKIENV----QYDQEGLFWIAKKGDGSVRDMLSFM  223 (484)
T ss_pred             HHHhhhheeeecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCChHHHHHHHH
Confidence            23334467999999999999988877643321    1124567789999999986554444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.62  E-value=1e-06  Score=90.68  Aligned_cols=183  Identities=16%  Similarity=0.132  Sum_probs=110.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc-------------------CcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC-------------------HFD  255 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~  255 (475)
                      .+++|-+.-++.|...+.. .      .-...+.++|+.|+||||+|+.+++...-..                   .|.
T Consensus        16 ~diiGq~~~v~~L~~~i~~-~------rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~   88 (546)
T PRK14957         16 AEVAGQQHALNSLVHALET-Q------KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFI   88 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCC
Confidence            3688999999999988866 2      2234578999999999999999976321000                   111


Q ss_pred             eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCc
Q 046770          256 LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGS  334 (475)
Q Consensus       256 ~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  334 (475)
                      ..+++.......+.                  +...+...+... ..+++-++|+||++..+...+..++..+......+
T Consensus        89 dlieidaas~~gvd------------------~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v  150 (546)
T PRK14957         89 DLIEIDAASRTGVE------------------ETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYV  150 (546)
T ss_pred             ceEEeecccccCHH------------------HHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCc
Confidence            12222211111111                  111222222211 23566799999998877777888888877655566


Q ss_pred             EEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHH
Q 046770          335 KIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKAL  406 (475)
Q Consensus       335 ~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~  406 (475)
                      .+|++|.+ ..+. ........+++++++.++....+.+.+...+.    .........|++.++|.+- |+..+
T Consensus       151 ~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi----~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        151 KFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI----NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             eEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            66554443 3333 22334578999999999998888865433221    1124556679999999765 44443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.61  E-value=1.1e-06  Score=92.89  Aligned_cols=202  Identities=19%  Similarity=0.193  Sum_probs=119.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCc---CeEEEEEecCC---CCHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF---DLKAWTYVSQD---FDII  269 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~v~~~---~~~~  269 (475)
                      .++|++..+..+...+..        .....+.|+|++|+||||||+.+++.......+   ....|+.+...   .+..
T Consensus       155 ~iiGqs~~~~~l~~~ia~--------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~  226 (615)
T TIGR02903       155 EIVGQERAIKALLAKVAS--------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPR  226 (615)
T ss_pred             hceeCcHHHHHHHHHHhc--------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHH
Confidence            588999999988877754        234578999999999999999998754333322   12345544321   1222


Q ss_pred             HHHHHH---------------HHHhhcCC----------------CCCCC-hHHHHHHHHHHhCCceEEEEEECCCCCCh
Q 046770          270 RVTKSI---------------LRSVAMGI----------------VDHND-LNLLQWKLKKQLFGKRFLLVLDDVWNENY  317 (475)
Q Consensus       270 ~~l~~i---------------l~~l~~~~----------------~~~~~-~~~l~~~l~~~l~~kr~LlVlDdv~~~~~  317 (475)
                      .+...+               +...+...                +.... ....+..|.+.++.++++++-|+.|..+.
T Consensus       227 ~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~  306 (615)
T TIGR02903       227 EVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDP  306 (615)
T ss_pred             HHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCc
Confidence            221111               11111000                00111 12356778888888888888887777666


Q ss_pred             hhHhHhhCcCCCCCCCcEEEE--ecCChHH-H-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHH
Q 046770          318 NDWIDLSRPFQDGAPGSKIII--TTRNADA-A-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIV  393 (475)
Q Consensus       318 ~~~~~l~~~l~~~~~gs~ilv--TtR~~~v-~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~  393 (475)
                      ..|..+...+....+...+++  ||++... . ........+.+.+++.++.+.++.+.+..... ..   ..++...|.
T Consensus       307 ~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v-~l---s~eal~~L~  382 (615)
T TIGR02903       307 NVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINV-HL---AAGVEELIA  382 (615)
T ss_pred             ccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHH
Confidence            667777666665544444554  5664321 1 11123356789999999999999987643211 11   134556666


Q ss_pred             HhcCCchHHHHHHHHH
Q 046770          394 IKCNGLPLAAKALGCL  409 (475)
Q Consensus       394 ~~c~G~PLai~~~~~~  409 (475)
                      +.+..-+-++..++..
T Consensus       383 ~ys~~gRraln~L~~~  398 (615)
T TIGR02903       383 RYTIEGRKAVNILADV  398 (615)
T ss_pred             HCCCcHHHHHHHHHHH
Confidence            6666657777766544

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.

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

Probab=98.61  E-value=4.5e-07  Score=96.71  Aligned_cols=175  Identities=22%  Similarity=0.242  Sum_probs=99.5

Q ss_pred             ccccccchhHH---HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHH
Q 046770          195 AKVYGRSKERE---EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       195 ~~~vGR~~e~~---~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      .+++|.+..+.   .|...+..        .....+.|+|++|+||||||+.+++.  ...+|.   .++... ..+.  
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~--------~~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~-~~i~--   91 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA--------DRVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVL-AGVK--   91 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc--------CCCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhh-hhhH--
Confidence            35888887664   45555544        44567789999999999999999984  333331   111110 0000  


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHh--CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE--ecCChH--H
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQL--FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII--TTRNAD--A  345 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv--TtR~~~--v  345 (475)
                                      +...........+  .+++.+|||||++..+...++.++..+.   .++.+++  ||.++.  +
T Consensus        92 ----------------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l  152 (725)
T PRK13341         92 ----------------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEV  152 (725)
T ss_pred             ----------------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhh
Confidence                            0111111121111  2467799999998766656666665443   2444554  344432  1


Q ss_pred             H-HhcCCCceeeCCCCCHHHHHHHHhhcccCCC---CCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          346 A-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETR---DFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       346 ~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~---~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      . ...+....+.+++|+.++...++.+.+-...   ......-..+....|++.+.|..-.+.
T Consensus       153 ~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        153 NKALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             hhHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            1 1222346799999999999999987653100   000111224566778888888754333

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=2.3e-06  Score=87.61  Aligned_cols=198  Identities=18%  Similarity=0.173  Sum_probs=114.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|-+.-+..|...+.. .      .-...+.++|+.|+||||+|+.+++...-..... ...+..+....    ...
T Consensus        21 ~dliGq~~vv~~L~~ai~~-~------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~----~C~   89 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILN-D------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCT----NCI   89 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCCh----HHH
Confidence            3688988888888887765 2      2235788999999999999999987421111000 00000011100    001


Q ss_pred             HHHHHhhc-----CCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE-ecCCh
Q 046770          274 SILRSVAM-----GIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII-TTRNA  343 (475)
Q Consensus       274 ~il~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv-TtR~~  343 (475)
                      .+......     ........+++...+...    +.+++-++|||+++..+...|..++..+......+.+|+ ||+..
T Consensus        90 ~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~  169 (507)
T PRK06645         90 SFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQ  169 (507)
T ss_pred             HHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChH
Confidence            11000000     000111222222222221    245677999999988777788888887775555666655 44444


Q ss_pred             HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          344 DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       344 ~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .+.. .......+++.+++.++...++.+.+...+. .   -..+....|++.++|.+--+....
T Consensus       170 kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi-~---ie~eAL~~Ia~~s~GslR~al~~L  230 (507)
T PRK06645        170 KIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL-K---TDIEALRIIAYKSEGSARDAVSIL  230 (507)
T ss_pred             HhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4433 2234467999999999999999987754322 1   123556679999999876554333

>PRK08727 hypothetical protein; Validated

Probab=98.59  E-value=1.3e-06  Score=81.21  Aligned_cols=153  Identities=16%  Similarity=0.043  Sum_probs=90.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|+.|+|||.|++.+++..  ........|++..+      ....+.                 ..+.. + .+.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~--~~~~~~~~y~~~~~------~~~~~~-----------------~~~~~-l-~~~   94 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAA--EQAGRSSAYLPLQA------AAGRLR-----------------DALEA-L-EGR   94 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEeHHH------hhhhHH-----------------HHHHH-H-hcC
Confidence            458999999999999999998743  22223445665332      111111                 11111 1 123


Q ss_pred             EEEEEECCCCCC-hhhHhH-hhCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          305 FLLVLDDVWNEN-YNDWID-LSRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       305 ~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      -+|||||+.... ...|.. +...+.. ...+..+|+|++..         ++...+.....+++++++.++...++.++
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            589999996432 122332 2222221 12466799999852         22223334568999999999999999987


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      +....-    .-..+....|++.|.|..-.+..+-.
T Consensus       175 a~~~~l----~l~~e~~~~La~~~~rd~r~~l~~L~  206 (233)
T PRK08727        175 AQRRGL----ALDEAAIDWLLTHGERELAGLVALLD  206 (233)
T ss_pred             HHHcCC----CCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            654221    12246667788899877766644333

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=1.6e-06  Score=88.11  Aligned_cols=184  Identities=16%  Similarity=0.159  Sum_probs=112.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCccc--c-----------------cCc
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRV--Q-----------------CHF  254 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~--~-----------------~~F  254 (475)
                      .+++|-+.-++.|.+.+..        +++ ..+.++|+.|+||||+|+.++....-  .                 ..+
T Consensus        13 ~dliGQe~vv~~L~~a~~~--------~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~   84 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTL--------NKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNH   84 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHc--------CCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCC
Confidence            4689988888888888765        233 36889999999999999988752100  0                 011


Q ss_pred             CeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCc
Q 046770          255 DLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGS  334 (475)
Q Consensus       255 ~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  334 (475)
                      .-++.++.+....+.+ .+.+++.....                -+.++.-++|+|+++..+......++..+..-...+
T Consensus        85 ~Dv~eidaas~~~vdd-IR~Iie~~~~~----------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v  147 (491)
T PRK14964         85 PDVIEIDAASNTSVDD-IKVILENSCYL----------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHV  147 (491)
T ss_pred             CCEEEEecccCCCHHH-HHHHHHHHHhc----------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCe
Confidence            1122232222222222 12222221110                013455689999998777667778887777555566


Q ss_pred             EEEEecCC-hHHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          335 KIIITTRN-ADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       335 ~ilvTtR~-~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .+|++|.. ..+.. .......+.+++++.++....+.+.+...+.    .-..+....|++.++|.+-.+....
T Consensus       148 ~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi----~i~~eAL~lIa~~s~GslR~alslL  218 (491)
T PRK14964        148 KFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI----EHDEESLKLIAENSSGSMRNALFLL  218 (491)
T ss_pred             EEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            66666543 34332 2334577999999999999999887654322    1124556779999999886554433

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=9.3e-07  Score=92.25  Aligned_cols=195  Identities=12%  Similarity=0.124  Sum_probs=111.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-++.|..++.. .      .-...+.++|+.|+||||+|+.+.+...-.....   +..+...    .....
T Consensus        16 ddIIGQe~vv~~L~~ai~~-~------rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~---~~pCg~C----~sCr~   81 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDE-G------RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQH---GEPCGVC----QSCTQ   81 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC---CCCCccc----HHHHH
Confidence            4699999999999999876 2      2235678999999999999999876321111000   0000000    00000


Q ss_pred             HHHH-----hhcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-H
Q 046770          275 ILRS-----VAMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-D  344 (475)
Q Consensus       275 il~~-----l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~  344 (475)
                      +...     +..........+.+...+...    ..+++-++|||++...+......++..+..-...+.+|++|.+. .
T Consensus        82 i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~k  161 (709)
T PRK08691         82 IDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHK  161 (709)
T ss_pred             HhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccc
Confidence            0000     000000111122222222111    13556689999998766556666777665444456677666542 2


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      +. ...+....+.+.+++.++....+.+.+-..+.    .-..+....|++.++|.+.-+..+.
T Consensus       162 L~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi----~id~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        162 VPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI----AYEPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             cchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC----CcCHHHHHHHHHHhCCCHHHHHHHH
Confidence            21 12223356888999999999999876643321    1124567789999999986655444

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.58  E-value=2.5e-06  Score=84.77  Aligned_cols=186  Identities=16%  Similarity=0.155  Sum_probs=111.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc--------------------cCc
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ--------------------CHF  254 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F  254 (475)
                      .+++|.+..++.|.+++.. .      .-...+.++|++|+||||+|+.+.....-.                    .++
T Consensus        14 ~~iig~~~~~~~l~~~~~~-~------~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~   86 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKN-G------RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSL   86 (355)
T ss_pred             hhccCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            3689999999999998865 2      223567899999999999998887532100                    122


Q ss_pred             CeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCc
Q 046770          255 DLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGS  334 (475)
Q Consensus       255 ~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  334 (475)
                      +. .++.-...... +.++.++..+...                -..+++-++|+|++...+......++..+......+
T Consensus        87 ~~-~~~~~~~~~~~-~~~~~l~~~~~~~----------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~  148 (355)
T TIGR02397        87 DV-IEIDAASNNGV-DDIREILDNVKYA----------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHV  148 (355)
T ss_pred             CE-EEeeccccCCH-HHHHHHHHHHhcC----------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccce
Confidence            21 12211111111 1112222221110                012445588999997665556667777765444566


Q ss_pred             EEEEecCChH-HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          335 KIIITTRNAD-AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       335 ~ilvTtR~~~-v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      .+|++|.+.. +. ........+++.+++.++...++...+-..+. ..   ..+.+..|++.++|.|..+......
T Consensus       149 ~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~-~i---~~~a~~~l~~~~~g~~~~a~~~lek  221 (355)
T TIGR02397       149 VFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI-KI---EDEALELIARAADGSLRDALSLLDQ  221 (355)
T ss_pred             eEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCChHHHHHHHHH
Confidence            7677765543 22 22233467889999999999988876543221 11   2466777999999999766655443

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=1.1e-06  Score=86.22  Aligned_cols=198  Identities=14%  Similarity=0.149  Sum_probs=115.4

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc--CcCeEEEEEecCCCCHHH
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC--HFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--~F~~~~wv~v~~~~~~~~  270 (475)
                      .-..++|-+...+.+...+.. .      .-...+.|+|+.|+||||+|..+.+..--..  .+....   ...+.....
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~-g------rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~---~~~~~~~c~   90 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYRE-G------KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPET---LADPDPASP   90 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHc-C------CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccc---cCCCCCCCH
Confidence            345689999999999998876 2      2234688999999999999998876321100  011110   011111111


Q ss_pred             HHHHHHHH-------hhcCC-------CCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCC
Q 046770          271 VTKSILRS-------VAMGI-------VDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGA  331 (475)
Q Consensus       271 ~l~~il~~-------l~~~~-------~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  331 (475)
                      ..+.+...       +....       ...-..+++ +.+.+++     .+++-++|+|+++..+......++..+....
T Consensus        91 ~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp  169 (351)
T PRK09112         91 VWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPP  169 (351)
T ss_pred             HHHHHHcCCCCCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCC
Confidence            22222211       00000       011122332 3344444     3566799999998887777777777776444


Q ss_pred             CCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          332 PGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       332 ~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      ..+.+|++|..+ .+. ...+....+++.+++.++...++.+.....   .   ...+....|++.++|.|.....+.
T Consensus       170 ~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~---~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        170 ARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ---G---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc---C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            445544444433 222 222334689999999999999998743211   1   113446679999999999766544

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.58  E-value=2.6e-06  Score=76.48  Aligned_cols=91  Identities=18%  Similarity=0.246  Sum_probs=64.4

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      +.+-++|+||+...+...+..++..+......+.+|++|++. .+.. .......+++.+++.++..+++.+..      
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~g------  168 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQG------  168 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHcC------
Confidence            456689999998776667777887776555566677766653 2211 12234689999999999999998771      


Q ss_pred             CCCchHHHHHHHHHHhcCCchHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      . .   .+.+..|++.++|.|..
T Consensus       169 i-~---~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       169 I-S---EEAAELLLALAGGSPGA  187 (188)
T ss_pred             C-C---HHHHHHHHHHcCCCccc
Confidence            1 1   35677899999998863

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.58  E-value=1.1e-06  Score=91.84  Aligned_cols=194  Identities=14%  Similarity=0.137  Sum_probs=113.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|-+.-++.|...+..        +++ ..+.++|+.|+||||+|+.+++...-...+.       ..++..-...+
T Consensus        16 ~divGQe~vv~~L~~~l~~--------~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~   80 (647)
T PRK07994         16 AEVVGQEHVLTALANALDL--------GRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCR   80 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHc--------CCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHH
Confidence            4689999989988888866        233 4468999999999999999977421110000       00111111111


Q ss_pred             HHHHHhh-----cCCCCCCChHHHHHHHHH---H-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-h
Q 046770          274 SILRSVA-----MGIVDHNDLNLLQWKLKK---Q-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-A  343 (475)
Q Consensus       274 ~il~~l~-----~~~~~~~~~~~l~~~l~~---~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~  343 (475)
                      .|...-.     .........++....+..   . ..++.-++|||+++..+......++..+..-...+++|++|.+ .
T Consensus        81 ~i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~  160 (647)
T PRK07994         81 EIEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  160 (647)
T ss_pred             HHHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCcc
Confidence            1111000     000001122222221111   1 2466679999999888877888888877655456666555554 3


Q ss_pred             HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          344 DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       344 ~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .+. ...+....+++++++.++...++.+.+-..+.    ....+....|++.++|.+--+..+.
T Consensus       161 kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i----~~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        161 KLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQI----PFEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             ccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            332 22334578999999999999999876532211    1123556679999999887554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=2.1e-06  Score=89.66  Aligned_cols=197  Identities=12%  Similarity=0.162  Sum_probs=112.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC--cCeEEEEEecCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH--FDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~v~~~~~~~~~l  272 (475)
                      .+++|-+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+.+...-...  ......    .+++.-...
T Consensus        16 ~dviGQe~vv~~L~~~l~~-~------rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C   84 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQ-Q------RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQAC   84 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHH
Confidence            3688988888888888876 2      22356689999999999999998653210000  000000    011111111


Q ss_pred             HHHHHHh-----hcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-
Q 046770          273 KSILRSV-----AMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-  342 (475)
Q Consensus       273 ~~il~~l-----~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-  342 (475)
                      ..|-..-     ..........++..+.+...    ..++.-++|||+++..+...+..++..+..-...+.+|++|.+ 
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~  164 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDP  164 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCc
Confidence            1110000     00000111222222222211    1244558999999988877888888887765556666665543 


Q ss_pred             hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          343 ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       343 ~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      ..+. ........+++++++.++....+.+.+...+. .   ...+....|++.++|.+--+..+
T Consensus       165 ~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi-~---ie~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        165 QKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV-P---AEPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3332 23334578999999999999999876643321 1   12356677899999987655544

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.56  E-value=2.5e-06  Score=84.24  Aligned_cols=198  Identities=13%  Similarity=0.050  Sum_probs=113.8

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEE---EEecCCCCHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAW---TYVSQDFDIIR  270 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~w---v~v~~~~~~~~  270 (475)
                      -.+++|.+.-++.|.+.+.. .      .-...+.++|+.|+||+|+|..+.+..--.........   .........-.
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~-~------rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~   90 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRS-G------RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHP   90 (365)
T ss_pred             hhhccChHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCCh
Confidence            34789999989999998876 2      22345889999999999999877653210000000000   00000000001


Q ss_pred             HHHHHHHHhhc----------CC----CCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCC
Q 046770          271 VTKSILRSVAM----------GI----VDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGA  331 (475)
Q Consensus       271 ~l~~il~~l~~----------~~----~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  331 (475)
                      ..+.+...-..          ..    ...-..++ ++.+.+.+     .+.+-++||||++..+......++..+..-.
T Consensus        91 ~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp  169 (365)
T PRK07471         91 VARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPP  169 (365)
T ss_pred             HHHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCC
Confidence            11111100000          00    01112233 33344443     2556799999998888777888887776555


Q ss_pred             CCcEEEEecCChH-HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          332 PGSKIIITTRNAD-AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       332 ~gs~ilvTtR~~~-v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .++.+|++|.... +. ...+....+.+.+++.++..+++.+.....     .   ......++..++|.|+.+..+.
T Consensus       170 ~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-----~---~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        170 ARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-----P---DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-----C---HHHHHHHHHHcCCCHHHHHHHh
Confidence            5666777776643 22 223345789999999999999998764211     1   1222568999999999665543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.55  E-value=1.6e-06  Score=89.57  Aligned_cols=187  Identities=18%  Similarity=0.142  Sum_probs=112.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.++.++.|.+|+.....+    ...+.+.|+|++|+||||+|+.++++.    .|+. +-++.++..+ ...+..
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g----~~~~~lLL~GppG~GKTtla~ala~el----~~~~-ielnasd~r~-~~~i~~   83 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKG----KPKKALLLYGPPGVGKTSLAHALANDY----GWEV-IELNASDQRT-ADVIER   83 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcC----CCCCeEEEECCCCCCHHHHHHHHHHHc----CCCE-EEEccccccc-HHHHHH
Confidence            46999999999999998752211    225789999999999999999999853    1322 2233333222 223333


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh----hhHhHhhCcCCCCCCCcEEEEecCCh-HHH--H
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY----NDWIDLSRPFQDGAPGSKIIITTRNA-DAA--L  347 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~--~  347 (475)
                      ++.......              .....++-+||||+++....    ..+..+...+..  .+..||+|+... ...  .
T Consensus        84 ~i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         84 VAGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLRE  147 (482)
T ss_pred             HHHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhh
Confidence            333221110              00113577999999975432    234445444432  334566666542 111  1


Q ss_pred             hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          348 IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       348 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      .......+.+.+++.++....+.+.+...+. ..+   .+....|++.++|..-.+......+.
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi-~i~---~eaL~~Ia~~s~GDlR~ain~Lq~~a  207 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEGI-ECD---DEALKEIAERSGGDLRSAINDLQAIA  207 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence            2223467899999999999988877644322 122   45677899999998776665444443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=3.6e-06  Score=83.80  Aligned_cols=191  Identities=11%  Similarity=0.067  Sum_probs=106.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCC---CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTS---HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~---~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      +++|-+.-++.|.+++.. +...   ....-...+.++|+.|+|||++|..+++..--...  .  +.++...    ...
T Consensus         6 ~IiGq~~~~~~L~~~i~~-~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~--~--~~~Cg~C----~~C   76 (394)
T PRK07940          6 DLVGQEAVVAELRAAARA-ARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDP--D--EPGCGEC----RAC   76 (394)
T ss_pred             hccChHHHHHHHHHHHHh-ccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCC--C--CCCCCCC----HHH
Confidence            588988888889988876 2100   00012456889999999999999988652110000  0  0000000    000


Q ss_pred             HHHHHHhhcC------CCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecC
Q 046770          273 KSILRSVAMG------IVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTR  341 (475)
Q Consensus       273 ~~il~~l~~~------~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR  341 (475)
                      ..+...-...      .......+++. .+.+.+     .+++-++|||+++..+......++..+.....++.+|++|.
T Consensus        77 ~~~~~~~hpD~~~i~~~~~~i~i~~iR-~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~  155 (394)
T PRK07940         77 RTVLAGTHPDVRVVAPEGLSIGVDEVR-ELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAP  155 (394)
T ss_pred             HHHhcCCCCCEEEeccccccCCHHHHH-HHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEEC
Confidence            0000000000      00011112211 122221     24555888899988776666777777765455666666665


Q ss_pred             C-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHH
Q 046770          342 N-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKA  405 (475)
Q Consensus       342 ~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~  405 (475)
                      + ..+. ...+....+.+.+++.++..+.+.+...      ..   .+.+..++..++|.|.....
T Consensus       156 ~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~------~~---~~~a~~la~~s~G~~~~A~~  212 (394)
T PRK07940        156 SPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG------VD---PETARRAARASQGHIGRARR  212 (394)
T ss_pred             ChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC------CC---HHHHHHHHHHcCCCHHHHHH
Confidence            5 3333 2233457899999999999988874321      11   24466789999999975543

>PRK09087 hypothetical protein; Validated

Probab=98.54  E-value=3.1e-06  Score=78.09  Aligned_cols=145  Identities=14%  Similarity=0.092  Sum_probs=90.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      .+.+.|+|+.|+|||+|++.+++...       ..+++..      .+...++..+                     .+ 
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~------~~~~~~~~~~---------------------~~-   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN------EIGSDAANAA---------------------AE-   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH------HcchHHHHhh---------------------hc-
Confidence            35789999999999999999887421       1133221      1111111111                     11 


Q ss_pred             eEEEEEECCCCC--ChhhHhHhhCcCCCCCCCcEEEEecCC---------hHHHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          304 RFLLVLDDVWNE--NYNDWIDLSRPFQDGAPGSKIIITTRN---------ADAALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       304 r~LlVlDdv~~~--~~~~~~~l~~~l~~~~~gs~ilvTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                       -+|+|||+...  +...+-.+...+.  ..|..+|+|++.         ++....+....++++++++.++-..++.+.
T Consensus        89 -~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~  165 (226)
T PRK09087         89 -GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKL  165 (226)
T ss_pred             -CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHH
Confidence             27888999543  2223333333332  236778988874         333444456688999999999999999988


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      +....- .   -.+++..-|++.+.|..-++..+...|
T Consensus       166 ~~~~~~-~---l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        166 FADRQL-Y---VDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHHcCC-C---CCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            744221 1   225677788999988888777544444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=2.8e-06  Score=86.60  Aligned_cols=209  Identities=17%  Similarity=0.212  Sum_probs=112.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|.+.-...|...+..        +.+ ..+.++|++|+||||+|+.+++...-.....       ..+...-....
T Consensus        14 ~divGq~~i~~~L~~~i~~--------~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~-------~~pc~~c~~c~   78 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKK--------NSISHAYIFAGPRGTGKTTVARILAKSLNCENRKG-------VEPCNECRACR   78 (472)
T ss_pred             HHccCcHHHHHHHHHHHHc--------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-------CCCCcccHHHH
Confidence            4689988877777777765        233 4578999999999999999977421110000       00000000000


Q ss_pred             HHHHHh-----hcCCCCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-
Q 046770          274 SILRSV-----AMGIVDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-  342 (475)
Q Consensus       274 ~il~~l-----~~~~~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-  342 (475)
                      .+...-     ..........+.+. .+.+.     ..+++-++|+|+++.........++..+......+.+|++|.+ 
T Consensus        79 ~i~~g~~~dv~el~aa~~~gid~iR-~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~  157 (472)
T PRK14962         79 SIDEGTFMDVIELDAASNRGIDEIR-KIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNL  157 (472)
T ss_pred             HHhcCCCCccEEEeCcccCCHHHHH-HHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCCh
Confidence            000000     00000011111111 12221     2355679999999766555566676666543344555544443 


Q ss_pred             hHHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC-chHHHHHHHHHhcC---CCChh
Q 046770          343 ADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG-LPLAAKALGCLLHG---KYDPS  417 (475)
Q Consensus       343 ~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G-~PLai~~~~~~L~~---~~~~~  417 (475)
                      ..+.. .......+.+.+++.++....+.+.+...+- .   -..+....|++.++| ++.++..+-.+...   +-+.+
T Consensus       158 ~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi-~---i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e  233 (472)
T PRK14962        158 EKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI-E---IDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLE  233 (472)
T ss_pred             HhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHH
Confidence            33322 2234578999999999999988877643221 1   124556778887765 46677666554322   23455


Q ss_pred             HHHHHH
Q 046770          418 DWESVL  423 (475)
Q Consensus       418 ~w~~~l  423 (475)
                      ....++
T Consensus       234 ~V~~~l  239 (472)
T PRK14962        234 TVHEAL  239 (472)
T ss_pred             HHHHHH
Confidence            555544

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=2.2e-06  Score=88.22  Aligned_cols=185  Identities=14%  Similarity=0.135  Sum_probs=110.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC-------------------cC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH-------------------FD  255 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~  255 (475)
                      .+++|-+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+.+...-...                   |.
T Consensus        16 ~divGq~~v~~~L~~~~~~-~------~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~   88 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQ-Q------YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFP   88 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHh-C------CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCc
Confidence            3689999999999999976 2      12235689999999999999988763211111                   11


Q ss_pred             eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcE
Q 046770          256 LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSK  335 (475)
Q Consensus       256 ~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  335 (475)
                      -.+.+.......+.+ ++.++..+...                -..++.-++|||+++..+......++..+..-...+.
T Consensus        89 d~~eidaas~~~v~~-iR~l~~~~~~~----------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~  151 (509)
T PRK14958         89 DLFEVDAASRTKVED-TRELLDNIPYA----------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVK  151 (509)
T ss_pred             eEEEEcccccCCHHH-HHHHHHHHhhc----------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeE
Confidence            112222111111111 11222211110                1135566899999988777778878777765555677


Q ss_pred             EEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          336 IIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       336 ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      +|++|.+. .+. ...+....+++++++.++....+.+.+-..+. ..   ..+....|++.++|.+.-+..+.
T Consensus       152 fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi-~~---~~~al~~ia~~s~GslR~al~lL  221 (509)
T PRK14958        152 FILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV-EF---ENAALDLLARAANGSVRDALSLL  221 (509)
T ss_pred             EEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCcHHHHHHHH
Confidence            76665442 222 22233467889999999988777665533221 11   23456678999999886555443

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

Probab=98.50  E-value=2e-07  Score=86.76  Aligned_cols=88  Identities=20%  Similarity=0.215  Sum_probs=62.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC--CCHHHHHHHHHHHhhcCCCCCCChH------HHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD--FDIIRVTKSILRSVAMGIVDHNDLN------LLQWKL  296 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~--~~~~~~l~~il~~l~~~~~~~~~~~------~l~~~l  296 (475)
                      ..+.|+|++|+|||||++.++++.... +|+...|+.+...  +++.++++.+...+-....+.....      ......
T Consensus        17 qr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~a   95 (249)
T cd01128          17 QRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEKA   95 (249)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            478999999999999999999976544 8999999997766  7899999888444333222222111      112222


Q ss_pred             HHH-hCCceEEEEEECCC
Q 046770          297 KKQ-LFGKRFLLVLDDVW  313 (475)
Q Consensus       297 ~~~-l~~kr~LlVlDdv~  313 (475)
                      ..+ -.|++.++++|++.
T Consensus        96 ~~~~~~G~~vll~iDei~  113 (249)
T cd01128          96 KRLVEHGKDVVILLDSIT  113 (249)
T ss_pred             HHHHHCCCCEEEEEECHH
Confidence            222 25899999999994

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=1.5e-06  Score=87.43  Aligned_cols=200  Identities=14%  Similarity=0.152  Sum_probs=111.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE-ecCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY-VSQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~-v~~~~~~~~~l  272 (475)
                      .+++|.+.-++.|..++.+        +++ ..+.++|+.|+||||+|..+++...-........|.. +..+...-...
T Consensus        16 ~eiiGq~~~~~~L~~~~~~--------~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c   87 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRM--------GRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESC   87 (397)
T ss_pred             hhccChHHHHHHHHHHHHh--------CCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHH
Confidence            3688988888888888866        333 3477999999999999999876321111010000000 00011100111


Q ss_pred             HHHHHHhhcC-----CCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-C
Q 046770          273 KSILRSVAMG-----IVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-R  341 (475)
Q Consensus       273 ~~il~~l~~~-----~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R  341 (475)
                      +.+.......     .......+++.+ +.+.+     .+.+-++|+|+++..+...+..++..+......+.+|++| +
T Consensus        88 ~~~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~  166 (397)
T PRK14955         88 RDFDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTE  166 (397)
T ss_pred             HHHhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence            1111100000     001111233322 22222     3455688999998776667888887776555566666555 4


Q ss_pred             ChHHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          342 NADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       342 ~~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      ...+.. .......+++.+++.++....+...+-..+.    .-..+.+..|++.++|.+--+....
T Consensus       167 ~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~----~i~~~al~~l~~~s~g~lr~a~~~L  229 (397)
T PRK14955        167 LHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGI----SVDADALQLIGRKAQGSMRDAQSIL  229 (397)
T ss_pred             hHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            333332 1222357889999999998888876532211    1224667789999999886554433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.46  E-value=4.2e-06  Score=90.52  Aligned_cols=193  Identities=11%  Similarity=0.093  Sum_probs=111.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+..++.|..++.. .      .-...+.++|+.|+||||+|+.+.+...-.......   .|..+    ...+.
T Consensus        15 ~eiiGqe~v~~~L~~~i~~-~------ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~---pCg~C----~sC~~   80 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDS-G------RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTST---PCGEC----DSCVA   80 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHh-C------CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCC---CCccc----HHHHH
Confidence            3689999989999998876 2      122457899999999999999987642111100000   00000    00111


Q ss_pred             HHHH-------hhcCCCCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          275 ILRS-------VAMGIVDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       275 il~~-------l~~~~~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      |...       +..........+++.. |++.     ..++.-++|||+++..+...+..|+..+..-...+.+|++|.+
T Consensus        81 ~~~g~~~~~dv~eidaas~~~Vd~iR~-l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~  159 (824)
T PRK07764         81 LAPGGPGSLDVTEIDAASHGGVDDARE-LRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTE  159 (824)
T ss_pred             HHcCCCCCCcEEEecccccCCHHHHHH-HHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCC
Confidence            1000       0000001112222222 2221     2355568899999888877888888888765556666655543


Q ss_pred             -hHHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          343 -ADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       343 -~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                       ..+.. +......|++.+++.++...++.+.+-..+. .   ...+....|++.++|.+..+..+
T Consensus       160 ~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv-~---id~eal~lLa~~sgGdlR~Al~e  221 (824)
T PRK07764        160 PDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV-P---VEPGVLPLVIRAGGGSVRDSLSV  221 (824)
T ss_pred             hhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence             34432 3334578999999999998888775532221 1   12345567899999988544433

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.45  E-value=2.5e-06  Score=79.11  Aligned_cols=153  Identities=19%  Similarity=0.128  Sum_probs=88.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      ...+.|+|+.|+|||+||+.+++... .... ...+++......      .    +                  ... ..
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~-~~~~-~~~~i~~~~~~~------~----~------------------~~~-~~   90 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADAS-YGGR-NARYLDAASPLL------A----F------------------DFD-PE   90 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-hCCC-cEEEEehHHhHH------H----H------------------hhc-cc
Confidence            35788999999999999999988431 1111 234444333110      0    0                  011 22


Q ss_pred             eEEEEEECCCCCChhhHhHhhCcCCCC-CCCc-EEEEecCChHHH--------HhcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          304 RFLLVLDDVWNENYNDWIDLSRPFQDG-APGS-KIIITTRNADAA--------LIMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs-~ilvTtR~~~v~--------~~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      .-+||+||+...+...-..+...+... ..+. .+|+|++.....        ..+.....+++.++++++...++.+.+
T Consensus        91 ~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903         91 AELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             CCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHH
Confidence            347899999654322323343333211 2333 466776643221        122234678999999988777776543


Q ss_pred             cCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          374 LETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      -... ..   -.++....|++.+.|++..+..+...|.
T Consensus       171 ~~~~-v~---l~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        171 AERG-LQ---LADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHcC-CC---CCHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            2211 11   2246677788899999998887776653

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.45  E-value=4.6e-06  Score=86.23  Aligned_cols=194  Identities=15%  Similarity=0.165  Sum_probs=108.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+++...      |.-|... .+.+.-...+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~-~------rl~hA~Lf~GP~GvGKTTlA~~lAk~L~------C~~~~~~-~~Cg~C~sCr~   81 (605)
T PRK05896         16 KQIIGQELIKKILVNAILN-N------KLTHAYIFSGPRGIGKTSIAKIFAKAIN------CLNPKDG-DCCNSCSVCES   81 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHHhc------CCCCCCC-CCCcccHHHHH
Confidence            4689999999999998865 2      2234688999999999999999876321      1111110 01111111111


Q ss_pred             HHHHhhcC-----CCCCCChHHHHHH---HHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-CChH
Q 046770          275 ILRSVAMG-----IVDHNDLNLLQWK---LKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-RNAD  344 (475)
Q Consensus       275 il~~l~~~-----~~~~~~~~~l~~~---l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R~~~  344 (475)
                      +.......     .......+++...   +... ..+++-++|+|+++..+...+..++..+......+.+|++| ....
T Consensus        82 i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~K  161 (605)
T PRK05896         82 INTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQK  161 (605)
T ss_pred             HHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHh
Confidence            11100000     0001112222111   1110 12334479999998776667777777776444455555544 4333


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      +. ...+....+++.+++.++....+...+...+. ..   ..+.+..|++.++|.+.-+..+
T Consensus       162 Ll~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi-~I---s~eal~~La~lS~GdlR~Alnl  220 (605)
T PRK05896        162 IPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI-KI---EDNAIDKIADLADGSLRDGLSI  220 (605)
T ss_pred             hhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCcHHHHHHH
Confidence            32 22334567999999999999888876533221 11   1345677999999976544333

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.45  E-value=3.6e-06  Score=78.30  Aligned_cols=155  Identities=12%  Similarity=0.083  Sum_probs=92.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +.+.|+|+.|+|||+|++.+++...  ..-..+.++++.....   .                 .....+.+.+     -
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~--~~~~~v~y~~~~~~~~---~-----------------~~~~~~~~~~-----~   98 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELS--QRGRAVGYVPLDKRAW---F-----------------VPEVLEGMEQ-----L   98 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEEHHHHhh---h-----------------hHHHHHHhhh-----C
Confidence            5789999999999999999987432  2222345555533110   0                 0111111111     1


Q ss_pred             EEEEEECCCCCC-hhhHhHh-hCcCCCC-CCC-cEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          305 FLLVLDDVWNEN-YNDWIDL-SRPFQDG-APG-SKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       305 ~LlVlDdv~~~~-~~~~~~l-~~~l~~~-~~g-s~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      -+|+|||+.... ...|... ...+... ..| .++|+||+.+         +....+....++++++++.++-.+++.+
T Consensus        99 dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~  178 (235)
T PRK08084         99 SLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQL  178 (235)
T ss_pred             CEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHH
Confidence            388999996532 1234432 2222211 123 4788988854         3333444567899999999999999987


Q ss_pred             cccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          372 HSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      ++....    -.-.+++..-|++.+.|..-.+..+-..|
T Consensus       179 ~a~~~~----~~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        179 RARLRG----FELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHcC----CCCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            664322    12235677789999998877766655554

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=3.8e-06  Score=87.07  Aligned_cols=179  Identities=12%  Similarity=0.132  Sum_probs=107.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC-------------------cC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH-------------------FD  255 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~  255 (475)
                      .+++|-+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+.....-...                   |.
T Consensus        16 ~divGq~~v~~~L~~~i~~-~------~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~   88 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQ-Q------RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFV   88 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            3688999999999998876 2      12245679999999999999998763211100                   11


Q ss_pred             eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCC
Q 046770          256 LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA  331 (475)
Q Consensus       256 ~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  331 (475)
                      ..+++....                     ....+.+...+...    ..+++-++|+|+++..+......++..+....
T Consensus        89 d~~ei~~~~---------------------~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp  147 (527)
T PRK14969         89 DLIEVDAAS---------------------NTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPP  147 (527)
T ss_pred             ceeEeeccc---------------------cCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCC
Confidence            111111111                     11122222111111    13566699999998777666777777776544


Q ss_pred             CCcEEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHH
Q 046770          332 PGSKIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKA  405 (475)
Q Consensus       332 ~gs~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~  405 (475)
                      ..+.+|++|.+ ..+. ...+....+++++++.++....+.+.+...+. .   ...+....|++.++|.+--+..
T Consensus       148 ~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi-~---~~~~al~~la~~s~Gslr~al~  219 (527)
T PRK14969        148 EHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI-P---FDATALQLLARAAAGSMRDALS  219 (527)
T ss_pred             CCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHH
Confidence            56666665544 2222 11222367899999999999888776533221 1   1235567789999998764433

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.43  E-value=6.6e-06  Score=86.10  Aligned_cols=198  Identities=13%  Similarity=0.137  Sum_probs=114.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC--eEEEEEecCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD--LKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~v~~~~~~~~~l  272 (475)
                      .+++|.+..++.|.+++.. .      .-...+.++|+.|+||||+|+.+++...-.....  ...+-.+..    -.-.
T Consensus        24 ~dliGq~~~v~~L~~~~~~-g------ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~----c~~C   92 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFET-G------RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGV----GEHC   92 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcc----cHHH
Confidence            4689999999999998876 2      2234688999999999999999977421111000  000000010    0111


Q ss_pred             HHHHHHhhcC-----CCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-C
Q 046770          273 KSILRSVAMG-----IVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-R  341 (475)
Q Consensus       273 ~~il~~l~~~-----~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R  341 (475)
                      ..|...-...     .......+++.. +.+.+     .+++-++|+|+++..+......++..+..-...+.+|++| .
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IRe-Iie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte  171 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIRE-IIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTE  171 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHH-HHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            1111110000     001112222222 21221     2445589999998777667777877776554566666555 3


Q ss_pred             ChHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          342 NADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       342 ~~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      ...+. ...+....+.+.+++.++....+.+.+-..+. .   -..+....|++.++|.+.-+.....
T Consensus       172 ~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi-~---i~~eAl~lIa~~a~Gdlr~al~~Ld  235 (598)
T PRK09111        172 IRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV-E---VEDEALALIARAAEGSVRDGLSLLD  235 (598)
T ss_pred             hhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            33332 22233467999999999999999876643321 1   1235667799999999876665443

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

Probab=98.42  E-value=1e-05  Score=76.11  Aligned_cols=201  Identities=17%  Similarity=0.162  Sum_probs=121.5

Q ss_pred             hhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       202 ~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      +-++.|.++|.. +..    ...+-+.|+|.+|+|||++++.+....-...    .--.++.|.....++...++..||.
T Consensus        44 ~~L~~L~~Ll~~-P~~----~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~  118 (302)
T PF05621_consen   44 EALDRLEELLEY-PKR----HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILE  118 (302)
T ss_pred             HHHHHHHHHHhC-Ccc----cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHH
Confidence            345666666655 322    5567899999999999999999986432111    1114677788888999999999999


Q ss_pred             HhhcCCCCCCChHHHHHHHHHHhCC-ceEEEEEECCCCC---ChhhHhHh---hCcCCCCCCCcEEEEecCChHHHH---
Q 046770          278 SVAMGIVDHNDLNLLQWKLKKQLFG-KRFLLVLDDVWNE---NYNDWIDL---SRPFQDGAPGSKIIITTRNADAAL---  347 (475)
Q Consensus       278 ~l~~~~~~~~~~~~l~~~l~~~l~~-kr~LlVlDdv~~~---~~~~~~~l---~~~l~~~~~gs~ilvTtR~~~v~~---  347 (475)
                      +++...........+.......++. +-=+||||++++.   +...-..+   +..|.+.-.-+-|.+-|+...-+.   
T Consensus       119 ~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D  198 (302)
T PF05621_consen  119 ALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTD  198 (302)
T ss_pred             HhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccC
Confidence            9998876666666665555555533 2348899999652   11122223   333333333445666665422221   


Q ss_pred             --hcCCCceeeCCCCCHH-HHHHHHhhc--ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          348 --IMGTVQAYPLKGLSND-DCMCLFTQH--SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       348 --~~~~~~~~~l~~L~~~-~~~~lf~~~--~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                        ..+.+..+.|.....+ +...|+...  ...-...+ .-...+++..|...++|+.--+..+-.
T Consensus       199 ~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S-~l~~~~la~~i~~~s~G~iG~l~~ll~  263 (302)
T PF05621_consen  199 PQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPS-NLASPELARRIHERSEGLIGELSRLLN  263 (302)
T ss_pred             HHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCC-CCCCHHHHHHHHHHcCCchHHHHHHHH
Confidence              1123456677776544 444454432  11212211 223468889999999999766554443

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

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.41  E-value=5.7e-07  Score=87.51  Aligned_cols=101  Identities=19%  Similarity=0.218  Sum_probs=66.5

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC--CHHHHHHHHHHHhhcC
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF--DIIRVTKSILRSVAMG  282 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~--~~~~~l~~il~~l~~~  282 (475)
                      -++++++.....+       .-..|+|++|+||||||+.+|++.... +|+..+||.+.+..  .+.++.+.++..+-..
T Consensus       157 ~rvID~l~PIGkG-------QR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~s  228 (416)
T PRK09376        157 TRIIDLIAPIGKG-------QRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVAS  228 (416)
T ss_pred             eeeeeeecccccC-------ceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEE
Confidence            3466766653221       357899999999999999999975544 89999999998887  7777777776433222


Q ss_pred             CCCCCChHH------HHHHHHHH-hCCceEEEEEECCC
Q 046770          283 IVDHNDLNL------LQWKLKKQ-LFGKRFLLVLDDVW  313 (475)
Q Consensus       283 ~~~~~~~~~------l~~~l~~~-l~~kr~LlVlDdv~  313 (475)
                      ..+......      ....-..+ ..|+.+||++|++.
T Consensus       229 t~d~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsIt  266 (416)
T PRK09376        229 TFDEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSIT  266 (416)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChH
Confidence            222221111      11111111 36899999999994

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

Probab=98.41  E-value=1e-05  Score=79.33  Aligned_cols=212  Identities=17%  Similarity=0.093  Sum_probs=128.6

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHH
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      .+..+.||+.|++.+.+++...-+.    .....+-|.|-+|.|||.+...++.+..-...=.+++++++..-.....++
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~----~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF  223 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLEL----NTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIF  223 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhc----ccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHH
Confidence            3567999999999999999763222    344678899999999999999999864322222356788777767788888


Q ss_pred             HHHHHHhhcCCCCCCChHHHHHHHHHHhCCc--eEEEEEECCCCCChhhHhHhhCcCC-CCCCCcEEEEecCCh--HH--
Q 046770          273 KSILRSVAMGIVDHNDLNLLQWKLKKQLFGK--RFLLVLDDVWNENYNDWIDLSRPFQ-DGAPGSKIIITTRNA--DA--  345 (475)
Q Consensus       273 ~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k--r~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~ilvTtR~~--~v--  345 (475)
                      ..|...+...........+....+..+..+.  .+|+|+|+++......-..+...|. +.-.++++|+.---.  +.  
T Consensus       224 ~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTd  303 (529)
T KOG2227|consen  224 KKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTD  303 (529)
T ss_pred             HHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHH
Confidence            8888888332222222255566666666433  6899999985422112222333333 233566655433211  11  


Q ss_pred             ---HHh----cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          346 ---ALI----MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       346 ---~~~----~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                         ...    -.....+...|.+.++..++|..+......   ...+....+.+++||.|.---+.-+....+
T Consensus       304 R~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t---~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R  373 (529)
T KOG2227|consen  304 RFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEEST---SIFLNAAIELCARKVAAPSGDLRKALDVCR  373 (529)
T ss_pred             HHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccc---cccchHHHHHHHHHhccCchhHHHHHHHHH
Confidence               111    113466788999999999999988754332   122223444555666555444444433333

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=9.2e-06  Score=81.05  Aligned_cols=184  Identities=14%  Similarity=0.209  Sum_probs=105.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc------ccCcCeEEE-EEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV------QCHFDLKAW-TYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~------~~~F~~~~w-v~v~~~~~  267 (475)
                      .+++|.+..++.+.+++.. .      .-.+.+.++|++|+||||+|+.+.+....      ...|...+. +.......
T Consensus        17 ~~iig~~~~~~~l~~~i~~-~------~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~   89 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIEN-N------HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNS   89 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCC
Confidence            3578999999999998866 2      23357889999999999999998764211      011211111 11001011


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecC-ChHHH
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTR-NADAA  346 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR-~~~v~  346 (475)
                      + +.+..+++++...                -..+++-++++|++.......+..++..+......+.+|++|. ...+.
T Consensus        90 ~-~~i~~l~~~~~~~----------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~  152 (367)
T PRK14970         90 V-DDIRNLIDQVRIP----------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKII  152 (367)
T ss_pred             H-HHHHHHHHHHhhc----------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCC
Confidence            1 1112222221100                0124455899999976555556667665544334455555553 32222


Q ss_pred             -HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          347 -LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       347 -~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                       ........++.++++.++....+...+...+- ..   ..+....|++.++|.+-.+...
T Consensus       153 ~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~-~i---~~~al~~l~~~~~gdlr~~~~~  209 (367)
T PRK14970        153 PTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI-KF---EDDALHIIAQKADGALRDALSI  209 (367)
T ss_pred             HHHHhcceeEecCCccHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHhCCCCHHHHHHH
Confidence             22233467899999999999888876643321 11   2456777888999976644433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.40  E-value=1.1e-05  Score=83.96  Aligned_cols=193  Identities=13%  Similarity=0.096  Sum_probs=110.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|.+.-++.|.+++..        +++ ..+.++|+.|+||||+|+.+++...-....+   +-.+...    ...+
T Consensus        13 ~eivGq~~i~~~L~~~i~~--------~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~~pCg~C----~~C~   77 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDA--------GRINHAYLFSGPRGCGKTSSARILARSLNCAQGPT---ATPCGVC----ESCV   77 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHc--------CCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---CCccccc----HHHH
Confidence            3689999999999999876        233 3568999999999999999886321101000   0001110    1111


Q ss_pred             HHHHHhhc-------CCCCCCChHHH---HHHHHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-C
Q 046770          274 SILRSVAM-------GIVDHNDLNLL---QWKLKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-R  341 (475)
Q Consensus       274 ~il~~l~~-------~~~~~~~~~~l---~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R  341 (475)
                      .+...-..       ........+..   ...+... ..+++-++|||+++..+......++..+..-...+.+|++| .
T Consensus        78 ~i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte  157 (584)
T PRK14952         78 ALAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTE  157 (584)
T ss_pred             HhhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence            11100000       00001112222   2222111 13455689999998887778888888877555566655555 4


Q ss_pred             ChHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHH
Q 046770          342 NADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKAL  406 (475)
Q Consensus       342 ~~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~  406 (475)
                      ...+. ...+....+++.+++.++..+.+.+.+...+. ..   ..+....|++.++|.+- ++..+
T Consensus       158 ~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi-~i---~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        158 PEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV-VV---DDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             hHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            44433 23334578999999999998888776543321 11   13456678899999775 33333

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.38  E-value=3.7e-06  Score=88.63  Aligned_cols=197  Identities=13%  Similarity=0.175  Sum_probs=113.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-++.|..++.. .      .-...+.++|+.|+||||+|+.+++...-.....      ....++.....+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~-~------~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~   82 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAE-G------RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRA   82 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHh-C------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHH
Confidence            3689999989999888866 2      1224568999999999999999986321100000      0011111122222


Q ss_pred             HHHHhhcCC-----CCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-h
Q 046770          275 ILRSVAMGI-----VDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-A  343 (475)
Q Consensus       275 il~~l~~~~-----~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~  343 (475)
                      +........     ......+.+. .+.+.+     .+++-++|||+++..+....+.++..+......+.+|++|.+ .
T Consensus        83 i~~~~~~d~~~i~~~~~~~vd~ir-~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~  161 (585)
T PRK14950         83 IAEGSAVDVIEMDAASHTSVDDAR-EIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVH  161 (585)
T ss_pred             HhcCCCCeEEEEeccccCCHHHHH-HHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChh
Confidence            222111100     0111222222 122221     245668999999776666677777776654455666665543 3


Q ss_pred             HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          344 DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       344 ~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      .+.. .......+.+.+++.++....+...+...+. ..   ..+.+..|++.++|.+..+......
T Consensus       162 kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl-~i---~~eal~~La~~s~Gdlr~al~~Lek  224 (585)
T PRK14950        162 KVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGI-NL---EPGALEAIARAATGSMRDAENLLQQ  224 (585)
T ss_pred             hhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            3322 2233467889999999998888876543321 11   2356778999999998766554443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=1.4e-05  Score=83.07  Aligned_cols=197  Identities=13%  Similarity=0.179  Sum_probs=112.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-++.|.+.+.. .      .-...+.++|+.|+||||+|+.+++...-.....       ..+++.-...+.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~-~------ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~-------~~pCg~C~sC~~   81 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQE-N------RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPT-------GEPCNTCEQCRK   81 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHhccccCCCC-------CCCCcccHHHHH
Confidence            3678988878888887765 2      2235778999999999999999887431111000       001111111111


Q ss_pred             HHHHhhcCC-----CCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-h
Q 046770          275 ILRSVAMGI-----VDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-A  343 (475)
Q Consensus       275 il~~l~~~~-----~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~  343 (475)
                      +........     ......+.+. .|.+.     ..+++-+||||+++..+...+..|+..+..-.....+|++|.. .
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR-~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~  160 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAK-RLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPH  160 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHH-HHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChh
Confidence            111100000     0011122211 12222     2356679999999877767777887777643345556565544 3


Q ss_pred             HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch-HHHHHHHHHh
Q 046770          344 DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP-LAAKALGCLL  410 (475)
Q Consensus       344 ~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P-Lai~~~~~~L  410 (475)
                      .+. ........+++++++.++....+.+.+..... .   -..+.+..|++.++|.+ .|+..+...+
T Consensus       161 kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi-~---id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        161 KFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV-D---YDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            333 22233467899999999999888876543221 1   12456777899999965 5777665544

>PRK05642 DNA replication initiation factor; Validated

Probab=98.34  E-value=9.8e-06  Score=75.31  Aligned_cols=155  Identities=17%  Similarity=0.217  Sum_probs=92.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|..|+|||.|++.+++...  ..-..++|++..+      +...              ..    .+.+.+.+-.
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~--~~~~~v~y~~~~~------~~~~--------------~~----~~~~~~~~~d   99 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFE--QRGEPAVYLPLAE------LLDR--------------GP----ELLDNLEQYE   99 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH--hCCCcEEEeeHHH------HHhh--------------hH----HHHHhhhhCC
Confidence            5789999999999999999987432  1113355665432      1110              01    1222222222


Q ss_pred             EEEEEECCCCCC-hhhHhH-hhCcCCC-CCCCcEEEEecCChH---------HHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          305 FLLVLDDVWNEN-YNDWID-LSRPFQD-GAPGSKIIITTRNAD---------AALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       305 ~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~ilvTtR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                       +|||||+.... ...|.. +...+.. ...|..+|+|++...         ....+....++++++++.++-..++..+
T Consensus       100 -~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~k  178 (234)
T PRK05642        100 -LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLR  178 (234)
T ss_pred             -EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHH
Confidence             68899996331 124433 3333321 224667888887532         1222334467899999999999999966


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      +.... ..   -.+++..-|++.+.|..-.+..+-..|
T Consensus       179 a~~~~-~~---l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        179 ASRRG-LH---LTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHcC-CC---CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            54321 11   225777889999998877766555554

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=1.5e-05  Score=83.54  Aligned_cols=198  Identities=14%  Similarity=0.138  Sum_probs=109.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCcc-EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE-ecCCCCHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHF-SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY-VSQDFDIIRVT  272 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~-v~~~~~~~~~l  272 (475)
                      .+++|-+.-+..|..++..        +.+ ..+.++|+.|+||||+|+.+.+...-....+...|-. +..+...-...
T Consensus        16 ~eivGQe~i~~~L~~~i~~--------~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC   87 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRM--------DRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESC   87 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHc--------CCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHH
Confidence            3688988888888888865        223 4478999999999999988876321111010000110 00111111111


Q ss_pred             HHHHHHhhcC-----CCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-CC
Q 046770          273 KSILRSVAMG-----IVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-RN  342 (475)
Q Consensus       273 ~~il~~l~~~-----~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R~  342 (475)
                      +.+...-...     .......+++...+...    ..+++-++|+||++..+......++..+..-...+.+|++| +.
T Consensus        88 ~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~  167 (620)
T PRK14954         88 RDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTEL  167 (620)
T ss_pred             HHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            1111100000     00111123333222222    23455588999998776667777887776544455555444 44


Q ss_pred             hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          343 ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       343 ~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      ..+. ........+++.+++.++....+.+.+...+. .   -..+.+..|++.++|..--+.
T Consensus       168 ~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi-~---I~~eal~~La~~s~Gdlr~al  226 (620)
T PRK14954        168 HKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI-Q---IDADALQLIARKAQGSMRDAQ  226 (620)
T ss_pred             hhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHhCCCHHHHH
Confidence            4433 23345578999999999988888765532221 1   124566779999999665333

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.30  E-value=5.1e-06  Score=90.86  Aligned_cols=155  Identities=15%  Similarity=0.184  Sum_probs=86.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc---c-CcCeEEE-EEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---C-HFDLKAW-TYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~-~F~~~~w-v~v~~~~~~~  269 (475)
                      ..++||+.++.++++.|..        ....-+.++|++|+||||||+.++......   . -....+| +..+.     
T Consensus       187 d~~iGr~~ei~~~i~~l~r--------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~-----  253 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLR--------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL-----  253 (852)
T ss_pred             CcccCCHHHHHHHHHHHhc--------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh-----
Confidence            4689999999999999876        223345699999999999999998742111   0 1122332 22211     


Q ss_pred             HHHHHHHHHhhcCCCCCCCh-HHHHHHHHHHh-CCceEEEEEECCCCCC-------hhhHhHhhCcCCCCCCCcEEEEec
Q 046770          270 RVTKSILRSVAMGIVDHNDL-NLLQWKLKKQL-FGKRFLLVLDDVWNEN-------YNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~-~~l~~~l~~~l-~~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                               +........+. ..+...+.+.- .+++.+|++|+++...       ..+-..++.+.... ..-++|-||
T Consensus       254 ---------l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~-G~l~~IgaT  323 (852)
T TIGR03345       254 ---------LQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR-GELRTIAAT  323 (852)
T ss_pred             ---------hhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC-CCeEEEEec
Confidence                     00000001111 12222222221 2568999999996431       11111233222221 234666666


Q ss_pred             CChHHHH-------hcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          341 RNADAAL-------IMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       341 R~~~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ...+...       .......+.+++++.++...++...
T Consensus       324 T~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       324 TWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             CHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHH
Confidence            6543321       2234578999999999999997543

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.

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

Probab=98.28  E-value=6.7e-06  Score=89.11  Aligned_cols=156  Identities=15%  Similarity=0.155  Sum_probs=85.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc---cccCc-CeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR---VQCHF-DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---~~~~F-~~~~wv~v~~~~~~~~  270 (475)
                      ..++||+++++++++.|.. .       ...-+.++|++|+|||++|+.+++...   +...+ ...+|. +    +.. 
T Consensus       182 ~~~igr~~ei~~~~~~L~~-~-------~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~-  247 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCR-R-------KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMG-  247 (731)
T ss_pred             CcccCcHHHHHHHHHHHhc-C-------CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHH-
Confidence            3689999999999998876 2       223467999999999999999987421   11111 233432 1    111 


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCC---------hhhHhHhhCcCCCCCCCcEEEEec
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNEN---------YNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                         .++.   ... ...+.+.....+.+.+ ..++.+|+||+++.-.         .+.-..+...+..  ..-++|-+|
T Consensus       248 ---~l~a---~~~-~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~IgaT  318 (731)
T TIGR02639       248 ---SLLA---GTK-YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGST  318 (731)
T ss_pred             ---HHhh---hcc-ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEec
Confidence               1111   000 1112222222222222 3457899999996321         1111223333322  123555555


Q ss_pred             CChHHHH-------hcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          341 RNADAAL-------IMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       341 R~~~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ...+...       .......+.+++++.++..+++....
T Consensus       319 t~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       319 TYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             CHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            5432211       11235679999999999999998644

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.27  E-value=1.3e-05  Score=81.57  Aligned_cols=185  Identities=11%  Similarity=0.012  Sum_probs=108.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .-+.|+|..|+|||+|++.+.+.......-..+++++      ..+++..+...+....       .....+.+.+. ..
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~~  207 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH-------KEIEQFKNEIC-QN  207 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh-------hHHHHHHHHhc-cC
Confidence            4588999999999999999988422111111233433      3456666666654311       11223333333 34


Q ss_pred             EEEEEECCCCCC--hhhHhHhhCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          305 FLLVLDDVWNEN--YNDWIDLSRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       305 ~LlVlDdv~~~~--~~~~~~l~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      -+|||||+....  ....+.+...+.. ...|..||+|+...         .+...+...-++.+++++.++...++.++
T Consensus       208 dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~  287 (450)
T PRK14087        208 DVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKE  287 (450)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHH
Confidence            488999996543  1122333333321 12355788887643         22223334567889999999999999988


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc-----C----CCChhHHHHHHhc
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH-----G----KYDPSDWESVLNS  425 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~-----~----~~~~~~w~~~l~~  425 (475)
                      +-..+-  ...-.+++..-|++.+.|.|-.+.-+...+.     .    ..+.+.-+.++..
T Consensus       288 ~~~~gl--~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~  347 (450)
T PRK14087        288 IKNQNI--KQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRD  347 (450)
T ss_pred             HHhcCC--CCCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhh
Confidence            743221  0123367888899999999988876654442     1    1344555556554

>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=98.27  E-value=1.7e-05  Score=72.91  Aligned_cols=190  Identities=17%  Similarity=0.168  Sum_probs=104.1

Q ss_pred             cccccc-hhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRS-KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~-~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      -++|.. +..-.....+.....     .....+.|+|+.|+|||.|.+.+++.......=..++++      +..++...
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~~-----~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~------~~~~f~~~   78 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENPG-----ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL------SAEEFIRE   78 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHSTT-----TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE------EHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcCC-----CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee------cHHHHHHH
Confidence            345653 333344444544121     234567899999999999999999853221111124444      34455566


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh-hhHhH-hhCcCCC-CCCCcEEEEecCCh--------
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY-NDWID-LSRPFQD-GAPGSKIIITTRNA--------  343 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~gs~ilvTtR~~--------  343 (475)
                      +...+...     ...    .+.+.+.+ -=+|+|||++.-.. ..|.. +...+.. ...|.++|+|++..        
T Consensus        79 ~~~~~~~~-----~~~----~~~~~~~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~  148 (219)
T PF00308_consen   79 FADALRDG-----EIE----EFKDRLRS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLL  148 (219)
T ss_dssp             HHHHHHTT-----SHH----HHHHHHCT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-
T ss_pred             HHHHHHcc-----cch----hhhhhhhc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccC
Confidence            66555442     222    23333432 34889999965322 22332 2222221 13467899999642        


Q ss_pred             -HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          344 -DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       344 -~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                       ...+.+...-++++++++.++...++.+.+....-    .-.+++..-|++.+.+..-.+..+-..|
T Consensus       149 ~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~----~l~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  149 PDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI----ELPEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT------S-HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             hhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC----CCcHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence             33344446678999999999999999988754332    1335677778888877766665544433

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.26  E-value=5.7e-05  Score=77.47  Aligned_cols=196  Identities=12%  Similarity=0.124  Sum_probs=107.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH-
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK-  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~-  273 (475)
                      .+++|-+.-+..|.+++.. .      .-.....++|+.|+||||+|+.++....-...-+   +-.+....+-..+-. 
T Consensus        16 ~diiGq~~i~~~L~~~i~~-~------~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~---~~pc~~c~nc~~i~~g   85 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKL-Q------RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQE---GEPCGKCENCVEIDKG   85 (486)
T ss_pred             HHccChHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCC---CCCCCccHHHHHHhcC
Confidence            3688999989999998866 2      2234567899999999999999876321000000   000000000000000 


Q ss_pred             ---HHHHHhhcCCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-CChH
Q 046770          274 ---SILRSVAMGIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-RNAD  344 (475)
Q Consensus       274 ---~il~~l~~~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R~~~  344 (475)
                         +++ .+..  ......+.. +.+.+.+     .+++-++|+|+++..+......++..+......+.+|++| +...
T Consensus        86 ~~~d~~-eida--as~~gvd~i-r~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~k  161 (486)
T PRK14953         86 SFPDLI-EIDA--ASNRGIDDI-RALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDK  161 (486)
T ss_pred             CCCcEE-EEeC--ccCCCHHHH-HHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHH
Confidence               000 0000  000111111 1222221     3566799999998776666677777766444455555544 4333


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      +. ........+.+.+++.++....+.+.+-..+- .   ...+....|++.++|.+..+.....
T Consensus       162 l~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi-~---id~~al~~La~~s~G~lr~al~~Ld  222 (486)
T PRK14953        162 IPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI-E---YEEKALDLLAQASEGGMRDAASLLD  222 (486)
T ss_pred             HHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            32 22233467899999999999888876543221 1   1235566788999998765554443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.26  E-value=1.4e-05  Score=79.49  Aligned_cols=182  Identities=14%  Similarity=0.093  Sum_probs=98.6

Q ss_pred             cccccccchhHHHHHHHHhcCCCCC-----CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTS-----HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~-----~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ..++.|++..+++|.+.+...-...     -.-...+-+.|+|++|+|||+||+.+++..  ...|     +.+..    
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l--~~~~-----~~v~~----  189 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET--NATF-----IRVVG----  189 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC--CCCE-----Eecch----
Confidence            3578999999999988764310000     000224568899999999999999999843  3333     22211    


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-----------h---hhHhHhhCcCC--CCCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-----------Y---NDWIDLSRPFQ--DGAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-----------~---~~~~~l~~~l~--~~~~  332 (475)
                      ..+.....    .     .....+...+...-...+.+|+|||++...           .   ..+..++..+.  ....
T Consensus       190 ~~l~~~~~----g-----~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~  260 (364)
T TIGR01242       190 SELVRKYI----G-----EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRG  260 (364)
T ss_pred             HHHHHHhh----h-----HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCC
Confidence            11111110    0     011111112222223457899999985421           1   11223332222  1224


Q ss_pred             CcEEEEecCChHHH-Hh-c---CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          333 GSKIIITTRNADAA-LI-M---GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       333 gs~ilvTtR~~~v~-~~-~---~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      +..||.||...... .. .   .-...+.+...+.++..++|..+...... ...-.    ...+++.+.|..
T Consensus       261 ~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l-~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       261 NVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKL-AEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCC-CccCC----HHHHHHHcCCCC
Confidence            67888888764321 11 1   12356889999999999999987644321 11112    345777787764

Many proteins may score above the trusted cutoff because an internal

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

Probab=98.24  E-value=1.3e-05  Score=74.53  Aligned_cols=194  Identities=15%  Similarity=0.114  Sum_probs=118.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEE-EEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAW-TYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~w-v~v~~~~~~~~~l~  273 (475)
                      .+++|-+..++-|.+.+..        ...+....+|++|.|||+-|..++...--...|.+++- .+.+..-.+. +.+
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            4688988888888888876        45678999999999999999888764322344554442 2223221111 000


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHh--CCce-EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH-H-Hh
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQL--FGKR-FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA-A-LI  348 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l--~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v-~-~~  348 (475)
                      .          ...+...+........  ..++ -+||||+++....+.|..++..+......++.|+.+..-+. . ..
T Consensus       107 ~----------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  107 E----------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             h----------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence            0          0111111111111000  1123 37889999988889999999988876667777666654221 1 11


Q ss_pred             cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          349 MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       349 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      .+...-+..++|..++...-+...+-..+...+    .+..+.|++.++|.---+.++...++
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d----~~al~~I~~~S~GdLR~Ait~Lqsls  235 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKEGVDID----DDALKLIAKISDGDLRRAITTLQSLS  235 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCcHHHHHHHHHHhh
Confidence            122345788999999999888887754433222    45567799999987554444444443

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

Probab=98.24  E-value=1.3e-05  Score=71.57  Aligned_cols=102  Identities=18%  Similarity=0.175  Sum_probs=61.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++||-++.++.+.-...+        ++.+-+.|.||+|+||||-+..+++..--..+-+.+.-.+.|           
T Consensus        27 ~dIVGNe~tv~rl~via~~--------gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNAS-----------   87 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE--------GNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNAS-----------   87 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc--------CCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCc-----------
Confidence            4689988888887766555        567789999999999999888777632111111222222222           


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhC-------CceEEEEEECCCCCChhhHhHhhC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLF-------GKRFLLVLDDVWNENYNDWIDLSR  325 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~-------~kr~LlVlDdv~~~~~~~~~~l~~  325 (475)
                                +....+.+...++.+.+       ++.-++|||+..+........++.
T Consensus        88 ----------deRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRR  135 (333)
T KOG0991|consen   88 ----------DERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRR  135 (333)
T ss_pred             ----------cccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHH
Confidence                      22333444444444332       455688999997655433334443

>TIGR00767 rho transcription termination factor Rho

Probab=98.22  E-value=5.1e-06  Score=81.37  Aligned_cols=89  Identities=17%  Similarity=0.172  Sum_probs=62.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC--CCHHHHHHHHHHHhhcCCCCCCChH------HHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD--FDIIRVTKSILRSVAMGIVDHNDLN------LLQWKL  296 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~--~~~~~~l~~il~~l~~~~~~~~~~~------~l~~~l  296 (475)
                      ..++|+|++|+|||||++.+++.... ++|+..+|+.+.+.  .++.++++.++..+-....+.....      ......
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~A  247 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKA  247 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHH
Confidence            46899999999999999999996543 37999999999865  7888999988655443332222111      111122


Q ss_pred             HHH-hCCceEEEEEECCCC
Q 046770          297 KKQ-LFGKRFLLVLDDVWN  314 (475)
Q Consensus       297 ~~~-l~~kr~LlVlDdv~~  314 (475)
                      ... -.|++.+|++|++..
T Consensus       248 e~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       248 KRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHcCCCeEEEEEChhH
Confidence            222 368999999999943

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.21  E-value=7.9e-06  Score=89.62  Aligned_cols=156  Identities=21%  Similarity=0.148  Sum_probs=85.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc---cccCc-CeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR---VQCHF-DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---~~~~F-~~~~wv~v~~~~~~~~  270 (475)
                      ..++||++++++++++|.. .       ..+-+.++|++|+|||++|+.++....   +.... ...+|. +    +...
T Consensus       179 ~~~igr~~ei~~~~~~L~r-~-------~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~  245 (821)
T CHL00095        179 DPVIGREKEIERVIQILGR-R-------TKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGL  245 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcc-c-------ccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHH
Confidence            3589999999999999976 2       223457999999999999999877421   11111 234442 1    1111


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-------hhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-------YNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      +    +   .+......-.+.+...+.+.-..++.+|+||+++.-.       ......++.+.... ..-++|.+|...
T Consensus       246 l----~---ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g~l~~IgaTt~~  317 (821)
T CHL00095        246 L----L---AGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-GELQCIGATTLD  317 (821)
T ss_pred             H----h---ccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-CCcEEEEeCCHH
Confidence            1    1   1111111111222223333334568999999995210       01122233222221 234566666655


Q ss_pred             HHHH-------hcCCCceeeCCCCCHHHHHHHHhh
Q 046770          344 DAAL-------IMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       344 ~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      +...       .......+.+...+.++...++..
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            4422       122446788888999988888764

>PF14516 AAA_35: AAA-like domain

Probab=98.21  E-value=0.00015  Score=70.98  Aligned_cols=199  Identities=15%  Similarity=0.133  Sum_probs=117.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-----CCHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-----FDIIR  270 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-----~~~~~  270 (475)
                      ..+.|..--+++.+.|.+ .        -..+.|.|+..+|||+|...+.+..+.. .+ ..+++++...     .+...
T Consensus        12 ~Yi~R~~~e~~~~~~i~~-~--------G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~   80 (331)
T PF14516_consen   12 FYIERPPAEQECYQEIVQ-P--------GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQ   80 (331)
T ss_pred             cccCchHHHHHHHHHHhc-C--------CCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHH
Confidence            456787566677777755 2        1488999999999999999998754332 33 3456766542     24566


Q ss_pred             HHHHHHHHhhcCCCC-----------CCChHHHHHHHHHHh---CCceEEEEEECCCCCCh-----hhHhHhhCcCCC-C
Q 046770          271 VTKSILRSVAMGIVD-----------HNDLNLLQWKLKKQL---FGKRFLLVLDDVWNENY-----NDWIDLSRPFQD-G  330 (475)
Q Consensus       271 ~l~~il~~l~~~~~~-----------~~~~~~l~~~l~~~l---~~kr~LlVlDdv~~~~~-----~~~~~l~~~l~~-~  330 (475)
                      .+..++..+.....-           ..........+.+.+   .+++.+|+||++.....     .++-.+++.+-. .
T Consensus        81 f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~  160 (331)
T PF14516_consen   81 FLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQR  160 (331)
T ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhc
Confidence            666666655443311           112223333444432   26899999999954211     112222222111 1


Q ss_pred             C----CCc-EE-EEecCChHHHH-h----cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc
Q 046770          331 A----PGS-KI-IITTRNADAAL-I----MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL  399 (475)
Q Consensus       331 ~----~gs-~i-lvTtR~~~v~~-~----~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~  399 (475)
                      .    ... ++ ++.+....... .    ......++|.+++.+|...|+.++-..-     .   ....++|...++|+
T Consensus       161 ~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-----~---~~~~~~l~~~tgGh  232 (331)
T PF14516_consen  161 KNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-----S---QEQLEQLMDWTGGH  232 (331)
T ss_pred             ccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-----C---HHHHHHHHHHHCCC
Confidence            0    111 22 22221111111 0    1123568899999999999998764221     1   22378899999999


Q ss_pred             hHHHHHHHHHhcCC
Q 046770          400 PLAAKALGCLLHGK  413 (475)
Q Consensus       400 PLai~~~~~~L~~~  413 (475)
                      |..+..++..+..+
T Consensus       233 P~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  233 PYLVQKACYLLVEE  246 (331)
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999999775

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.21  E-value=5.2e-05  Score=80.02  Aligned_cols=198  Identities=11%  Similarity=0.159  Sum_probs=111.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-+..|..++.. .      .-...+.++|+.|+||||+|+.+++..--. ..+...    ......-...+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~-~------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~-~~~~~~----~~~Cg~C~~C~~   83 (620)
T PRK14948         16 DELVGQEAIATTLKNALIS-N------RIAPAYLFTGPRGTGKTSSARILAKSLNCL-NSDKPT----PEPCGKCELCRA   83 (620)
T ss_pred             hhccChHHHHHHHHHHHHc-C------CCCceEEEECCCCCChHHHHHHHHHHhcCC-CcCCCC----CCCCcccHHHHH
Confidence            3688999889999988876 2      122467899999999999999998742111 110000    011111122222


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hH
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-AD  344 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~  344 (475)
                      +......     ........+.+.+.+...    ..+++-++|||+++..+...+..++..+..-...+.+|++|.+ ..
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~  163 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQR  163 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhh
Confidence            2211110     000112222222222111    1245568999999877767778887777654445555555544 32


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      +. ........+.+.+++.++....+...+...+. ..   ..+.+..|++.++|.+..+..+..
T Consensus       164 llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi-~i---s~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        164 VLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESI-EI---EPEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCC-CC---CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            22 22334467888899999888877765533221 11   134567899999998875554444

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.21  E-value=5.4e-05  Score=77.81  Aligned_cols=195  Identities=13%  Similarity=0.123  Sum_probs=110.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-++.|...+.. .      .-.....++|+.|+||||+|+.+.+..--....+.       .+...-.....
T Consensus        14 deiiGqe~v~~~L~~~I~~-g------rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~-------~pC~~C~~C~~   79 (535)
T PRK08451         14 DELIGQESVSKTLSLALDN-N------RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSS-------TPCDTCIQCQS   79 (535)
T ss_pred             HHccCcHHHHHHHHHHHHc-C------CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCC-------CCCcccHHHHH
Confidence            3689988888888888866 2      22346689999999999999987653210000000       00000000000


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-H
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-D  344 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~  344 (475)
                      +......     ........+.+...+...    ..+++-++|+|+++..+......++..+..-...+.+|++|.+. .
T Consensus        80 ~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~k  159 (535)
T PRK08451         80 ALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLK  159 (535)
T ss_pred             HhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhh
Confidence            0000000     000001122222222211    12455689999998887777777877776545567777766553 2


Q ss_pred             HH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          345 AA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       345 v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      +. ........+++.+++.++....+.+.+...+. .   -..+.+..|++.++|.+.-+..+.
T Consensus       160 L~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi-~---i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        160 LPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV-S---YEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             CchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCcHHHHHHHH
Confidence            11 12223467999999999999988876543321 1   124567789999999986655544

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.21  E-value=5.7e-05  Score=79.85  Aligned_cols=190  Identities=17%  Similarity=0.207  Sum_probs=107.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC---cC-eEEEE-EecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH---FD-LKAWT-YVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~---F~-~~~wv-~v~~~~~~~  269 (475)
                      .+++|.+.-++.|..++.. .      .-.....++|+.|+||||+|+.++...--...   +. |..-. +....++..
T Consensus        18 ~dIiGQe~~v~~L~~aI~~-~------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvi   90 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKS-N------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDII   90 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEE
Confidence            3688998888999998876 2      22345679999999999999998763110000   00 00000 000000000


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEE-EecCCh
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKII-ITTRNA  343 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~il-vTtR~~  343 (475)
                                ..........+++ +.+.+.+     .+++-++|+|+++......+..++..+..-...+.+| +|+...
T Consensus        91 ----------eidaasn~~vd~I-ReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~  159 (725)
T PRK07133         91 ----------EMDAASNNGVDEI-RELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVH  159 (725)
T ss_pred             ----------EEeccccCCHHHH-HHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChh
Confidence                      0000000112221 1222222     3566699999998777677888877776444455544 555444


Q ss_pred             HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          344 DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       344 ~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      .+. ........+.+.+++.++....+...+-..+. .   ...+.+..|++.++|.+--+..+
T Consensus       160 KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI-~---id~eAl~~LA~lS~GslR~Alsl  219 (725)
T PRK07133        160 KIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENI-S---YEKNALKLIAKLSSGSLRDALSI  219 (725)
T ss_pred             hhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            443 23334568999999999999888865432221 1   11345677999999976544333

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.20  E-value=3.8e-05  Score=72.76  Aligned_cols=137  Identities=12%  Similarity=0.097  Sum_probs=70.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      +....+.++|++|+||||+|+.+++............++.++..    ++    .....     ..........+... .
T Consensus        40 ~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~----~l----~~~~~-----g~~~~~~~~~~~~a-~  105 (261)
T TIGR02881        40 KQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA----DL----VGEYI-----GHTAQKTREVIKKA-L  105 (261)
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH----Hh----hhhhc-----cchHHHHHHHHHhc-c
Confidence            34566889999999999999999763211111111122332221    11    11110     01112222222222 1


Q ss_pred             CceEEEEEECCCCCC--------hhhHhHhhCcCCCCCCCcEEEEecCChHHHH-------hcCC-CceeeCCCCCHHHH
Q 046770          302 GKRFLLVLDDVWNEN--------YNDWIDLSRPFQDGAPGSKIIITTRNADAAL-------IMGT-VQAYPLKGLSNDDC  365 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~-------~~~~-~~~~~l~~L~~~~~  365 (475)
                        .-+|+||+++...        .+....++..+........+|+++...+...       .... ...+.+++++.++.
T Consensus       106 --~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el  183 (261)
T TIGR02881       106 --GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEEL  183 (261)
T ss_pred             --CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHH
Confidence              3488999996421        1233444444444334445666655433211       1112 24588899999999


Q ss_pred             HHHHhhccc
Q 046770          366 MCLFTQHSL  374 (475)
Q Consensus       366 ~~lf~~~~~  374 (475)
                      .+++.+.+.
T Consensus       184 ~~Il~~~~~  192 (261)
T TIGR02881       184 MEIAERMVK  192 (261)
T ss_pred             HHHHHHHHH
Confidence            999987764

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.

>CHL00181 cbbX CbbX; Provisional

Probab=98.20  E-value=8.6e-05  Score=71.03  Aligned_cols=135  Identities=13%  Similarity=0.028  Sum_probs=74.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.++|++|+||||+|+.++........-....|+.++.    .    .++..+.+..     .......+.+. .  .
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~----~----~l~~~~~g~~-----~~~~~~~l~~a-~--g  123 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTR----D----DLVGQYIGHT-----APKTKEVLKKA-M--G  123 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecH----H----HHHHHHhccc-----hHHHHHHHHHc-c--C
Confidence            3578999999999999999976321111111122444442    1    2222222111     11122223322 2  2


Q ss_pred             EEEEEECCCCC---------ChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhc--------CCCceeeCCCCCHHHHHH
Q 046770          305 FLLVLDDVWNE---------NYNDWIDLSRPFQDGAPGSKIIITTRNADAALIM--------GTVQAYPLKGLSNDDCMC  367 (475)
Q Consensus       305 ~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~--------~~~~~~~l~~L~~~~~~~  367 (475)
                      -+|+||++...         ..+....+...+.....+..||+++....+....        .-...+.+.+++.++..+
T Consensus       124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~  203 (287)
T CHL00181        124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQ  203 (287)
T ss_pred             CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHH
Confidence            49999999642         1122333444444444566777777654432211        123568899999999999


Q ss_pred             HHhhcccC
Q 046770          368 LFTQHSLE  375 (475)
Q Consensus       368 lf~~~~~~  375 (475)
                      ++...+-.
T Consensus       204 I~~~~l~~  211 (287)
T CHL00181        204 IAKIMLEE  211 (287)
T ss_pred             HHHHHHHH
Confidence            98877643

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

Probab=98.19  E-value=9.1e-05  Score=71.03  Aligned_cols=203  Identities=19%  Similarity=0.213  Sum_probs=118.9

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ++.+.+|+.++..+..++.+ ...    .-+++|.|.|-.|.|||.+.+++++...     ...+|+++-+.++..-++.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~-~~~----~~PS~~~iyG~sgTGKT~~~r~~l~~~n-----~~~vw~n~~ecft~~~lle   74 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGN-NSC----TIPSIVHIYGHSGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLE   74 (438)
T ss_pred             ccCccchHHHHHHHHHHhCC-CCc----ccceeEEEeccCCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHH
Confidence            56789999999999999977 321    2346679999999999999999998542     2368999999999999999


Q ss_pred             HHHHHhhcCCCCC-------CChHHHHHHHHHH--hC--CceEEEEEECCCCCC---hhhHhHh---hCcCCCCCCCcEE
Q 046770          274 SILRSVAMGIVDH-------NDLNLLQWKLKKQ--LF--GKRFLLVLDDVWNEN---YNDWIDL---SRPFQDGAPGSKI  336 (475)
Q Consensus       274 ~il~~l~~~~~~~-------~~~~~l~~~l~~~--l~--~kr~LlVlDdv~~~~---~~~~~~l---~~~l~~~~~gs~i  336 (475)
                      .|+.+.+....+.       .+.......+.++  .+  ++.++||||++..-.   ..-+..+   -..++  .+...|
T Consensus        75 ~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~--~~~i~i  152 (438)
T KOG2543|consen   75 KILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLN--EPTIVI  152 (438)
T ss_pred             HHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhC--CCceEE
Confidence            9999986222111       2223334444441  22  468999999995321   1111111   11111  123333


Q ss_pred             EEecCC-hHHHHh-cCC--CceeeCCCCCHHHHHHHHhhcccCCCCCC-CCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          337 IITTRN-ADAALI-MGT--VQAYPLKGLSNDDCMCLFTQHSLETRDFS-MHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       337 lvTtR~-~~v~~~-~~~--~~~~~l~~L~~~~~~~lf~~~~~~~~~~~-~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      ++..-. +..... ++.  ..++....-+.++...++.+.-.+..... ...-+.-+..-....|+ -+-.+..++..
T Consensus       153 ils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~p~~r~~~~ya~fl~v~l~vF~~~cr-d~~eL~~~~~~  229 (438)
T KOG2543|consen  153 ILSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDNPGKRKLDVYAQFLHVLLQVFYMACR-DVNELRSLISL  229 (438)
T ss_pred             EEeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCCccccchHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHH
Confidence            333222 222221 233  24566788889999888875432111100 01112223344556666 55555555544

>PRK06620 hypothetical protein; Validated

Probab=98.19  E-value=5.1e-05  Score=69.38  Aligned_cols=142  Identities=13%  Similarity=0.051  Sum_probs=83.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +.+.|+|++|+|||+|++.+++...  .     .++.  ..+..                     .       +.. +..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~~---------------------~-------~~~-~~~   86 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFFN---------------------E-------EIL-EKY   86 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhhc---------------------h-------hHH-hcC
Confidence            5789999999999999999887432  1     1111  00000                     0       011 123


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-------HHHhcCCCceeeCCCCCHHHHHHHHhhcccCCC
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-------AALIMGTVQAYPLKGLSNDDCMCLFTQHSLETR  377 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-------v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~  377 (475)
                      -++++||++.......-.+...+.  ..|..||+|++.+.       ..+.+....++++++++.++...++.+.+....
T Consensus        87 d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~  164 (214)
T PRK06620         87 NAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISS  164 (214)
T ss_pred             CEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcC
Confidence            478899996432112222222222  34668999887532       223334556899999999998888887764321


Q ss_pred             CCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          378 DFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       378 ~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                       .   .-.+++..-|++.+.|.--.+.-+-..|
T Consensus       165 -l---~l~~ev~~~L~~~~~~d~r~l~~~l~~l  193 (214)
T PRK06620        165 -V---TISRQIIDFLLVNLPREYSKIIEILENI  193 (214)
T ss_pred             -C---CCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence             1   1225677778888887766555444433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=5.8e-05  Score=76.88  Aligned_cols=180  Identities=15%  Similarity=0.144  Sum_probs=105.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc---------------------cC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---------------------CH  253 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------~~  253 (475)
                      .+++|.+..+..|.+++.. .      .-...+.++|+.|+||||+|+.+.+...-.                     .+
T Consensus        17 ~diiGq~~~v~~L~~~i~~-~------~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~   89 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRF-N------RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTS   89 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCC
Confidence            4689999999999998866 2      123567899999999999999887632110                     01


Q ss_pred             cCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCC
Q 046770          254 FDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAP  332 (475)
Q Consensus       254 F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  332 (475)
                      ++. .++.......+.                  +...+.+.+... ..+++-++|+|++..........++..+.....
T Consensus        90 ~d~-~~i~g~~~~gid------------------~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~  150 (451)
T PRK06305         90 LDV-LEIDGASHRGIE------------------DIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQ  150 (451)
T ss_pred             Cce-EEeeccccCCHH------------------HHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCC
Confidence            111 111100000111                  111111111110 125566889999976655556667777665445


Q ss_pred             CcEEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          333 GSKIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       333 gs~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      .+.+|++|.. ..+. ........+++.+++.++....+.+.+-..+. .   -..+.+..|++.++|.+--+.
T Consensus       151 ~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~-~---i~~~al~~L~~~s~gdlr~a~  220 (451)
T PRK06305        151 HVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGI-E---TSREALLPIARAAQGSLRDAE  220 (451)
T ss_pred             CceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHH
Confidence            6666666643 2222 12233467899999999998888876532211 1   124567779999999765443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.17  E-value=2.4e-05  Score=76.44  Aligned_cols=147  Identities=14%  Similarity=0.151  Sum_probs=84.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+...+.+..++.. .      .-..++.++|++|+||||+|+.+++..  ...   ...++.+. .. ...++.
T Consensus        21 ~~~~~~~~~~~~l~~~~~~-~------~~~~~lll~G~~G~GKT~la~~l~~~~--~~~---~~~i~~~~-~~-~~~i~~   86 (316)
T PHA02544         21 DECILPAADKETFKSIVKK-G------RIPNMLLHSPSPGTGKTTVAKALCNEV--GAE---VLFVNGSD-CR-IDFVRN   86 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhc-C------CCCeEEEeeCcCCCCHHHHHHHHHHHh--Ccc---ceEeccCc-cc-HHHHHH
Confidence            4689999999999998865 2      234677779999999999999998742  211   22333333 12 122222


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCCCCCCcEEEEecCChHHH--HhcCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQDGAPGSKIIITTRNADAA--LIMGT  351 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~--~~~~~  351 (475)
                      .+..+....               .+.+.+-++||||+... .......+...+.....++.+|+||......  ...+.
T Consensus        87 ~l~~~~~~~---------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR  151 (316)
T PHA02544         87 RLTRFASTV---------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSR  151 (316)
T ss_pred             HHHHHHHhh---------------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhh
Confidence            121111100               01134558899999755 2222333433344334577888888753211  11123


Q ss_pred             CceeeCCCCCHHHHHHHHh
Q 046770          352 VQAYPLKGLSNDDCMCLFT  370 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~  370 (475)
                      ...+.+...+.++...++.
T Consensus       152 ~~~i~~~~p~~~~~~~il~  170 (316)
T PHA02544        152 CRVIDFGVPTKEEQIEMMK  170 (316)
T ss_pred             ceEEEeCCCCHHHHHHHHH
Confidence            3567777777877765544

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=6.6e-05  Score=79.22  Aligned_cols=183  Identities=14%  Similarity=0.163  Sum_probs=109.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc---------------------cccC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR---------------------VQCH  253 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---------------------~~~~  253 (475)
                      .+++|.+..++.|..++.. .      .-...+.++|+.|+||||+|+.+.....                     ...+
T Consensus        17 ~~viGq~~~~~~L~~~i~~-~------~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~   89 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIAT-N------KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRS   89 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHc-C------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCC
Confidence            3689999999999999876 2      2234578999999999999988766321                     0112


Q ss_pred             cCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCC
Q 046770          254 FDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPG  333 (475)
Q Consensus       254 F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  333 (475)
                      |+.. .+.......+ +.++.++.++....                ..+++=++|+|++...+...+..++..+..-...
T Consensus        90 ~n~~-~ld~~~~~~v-d~Ir~li~~~~~~P----------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~  151 (614)
T PRK14971         90 YNIH-ELDAASNNSV-DDIRNLIEQVRIPP----------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSY  151 (614)
T ss_pred             CceE-EecccccCCH-HHHHHHHHHHhhCc----------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCC
Confidence            2211 1111111111 11112222211100                1234558899999887777788888877754456


Q ss_pred             cEEEEec-CChHHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          334 SKIIITT-RNADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       334 s~ilvTt-R~~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      +.+|++| ....+.. .......+++.+++.++....+.+.+...+- .   ...+.+..|++.++|..--+...
T Consensus       152 tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi-~---i~~~al~~La~~s~gdlr~al~~  222 (614)
T PRK14971        152 AIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI-T---AEPEALNVIAQKADGGMRDALSI  222 (614)
T ss_pred             eEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            6665544 4443332 3334577999999999999888876543221 1   11345677999999977644433

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=6.9e-05  Score=78.76  Aligned_cols=193  Identities=12%  Similarity=0.175  Sum_probs=106.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-++.|.+++.. .      .-...+.++|+.|+||||+|+.+++..--.....       ..+++.-.....
T Consensus        16 ~~iiGq~~v~~~L~~~i~~-~------~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-------~~~c~~c~~c~~   81 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDT-G------RVAHAFLFTGARGVGKTSTARILAKALNCEQGLT-------AEPCNVCPPCVE   81 (576)
T ss_pred             HHccCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-------CCCCCccHHHHH
Confidence            4689999888999998866 2      1234568999999999999999876421110000       000000011111


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-CCh
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-RNA  343 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R~~  343 (475)
                      |...-..     ........++. +.+.+.+     .+++-++|||+++..+......++..+..-...+.+|++| ...
T Consensus        82 i~~g~~~d~~eid~~s~~~v~~i-r~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~  160 (576)
T PRK14965         82 ITEGRSVDVFEIDGASNTGVDDI-RELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPH  160 (576)
T ss_pred             HhcCCCCCeeeeeccCccCHHHH-HHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChh
Confidence            1000000     00001111121 1122221     2445589999998777667777877776544556665554 444


Q ss_pred             HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHH
Q 046770          344 DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKAL  406 (475)
Q Consensus       344 ~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~  406 (475)
                      .+.. ..+....+++.+++.++....+...+-..+. .   -..+....|++.++|..- ++..+
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi-~---i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        161 KVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGI-S---ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCC-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4432 2334467889999999988888765433221 1   123556778999999664 44444

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

Probab=98.11  E-value=1.7e-05  Score=79.04  Aligned_cols=109  Identities=13%  Similarity=0.104  Sum_probs=71.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++++.+...+.+...|.. .         +.+.++|++|+|||++|+.+++.......|+.+.||++++.++..+++..
T Consensus       175 ~d~~i~e~~le~l~~~L~~-~---------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G  244 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI-K---------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQG  244 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc-C---------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcc
Confidence            4578889999999998865 1         35778999999999999999886544556788889999988876655432


Q ss_pred             HHHHhhcCCCCCCCh-HHHHHHHHHHh--CCceEEEEEECCCCCCh
Q 046770          275 ILRSVAMGIVDHNDL-NLLQWKLKKQL--FGKRFLLVLDDVWNENY  317 (475)
Q Consensus       275 il~~l~~~~~~~~~~-~~l~~~l~~~l--~~kr~LlVlDdv~~~~~  317 (475)
                      +    .....+-.-. ....+.+....  .+++++||||++...+.
T Consensus       245 ~----rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani  286 (459)
T PRK11331        245 Y----RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANL  286 (459)
T ss_pred             c----CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCH
Confidence            2    1111010000 11122222222  24689999999965543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.11  E-value=0.00017  Score=75.30  Aligned_cols=195  Identities=15%  Similarity=0.069  Sum_probs=112.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-+..|..++.. .      .-...+.++|+.|+||||+|+.+++..--......   ..+....+-    +.
T Consensus        16 ~diiGqe~iv~~L~~~i~~-~------~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~C----~~   81 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIES-N------KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSSC----KS   81 (563)
T ss_pred             HHccCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchHH----HH
Confidence            3689999889999999876 2      22356889999999999999999874211110000   001111110    11


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHH---HH-HhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hH
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKL---KK-QLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-AD  344 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l---~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~  344 (475)
                      +...-..     ........+.+....   .. -..+++-++|+|+++..+...+..++..+..-...+.+|++|.. ..
T Consensus        82 i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~k  161 (563)
T PRK06647         82 IDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHK  161 (563)
T ss_pred             HHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHH
Confidence            1000000     000011222222211   11 12355668999999887777788888877754456666665543 33


Q ss_pred             HHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          345 AAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       345 v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      +.. .......+++.+++.++....+.+.+...+.    .-..+....|++.++|.+..+..+.
T Consensus       162 L~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi----~id~eAl~lLa~~s~GdlR~alslL  221 (563)
T PRK06647        162 LPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI----KYEDEALKWIAYKSTGSVRDAYTLF  221 (563)
T ss_pred             hHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC----CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            322 2233467899999999998888876643321    1124566779999999886555443

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

Probab=98.10  E-value=8e-05  Score=68.02  Aligned_cols=109  Identities=23%  Similarity=0.252  Sum_probs=63.9

Q ss_pred             CcccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          191 LVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       191 ~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      ++.-..++|-+.+++.|++-...--.+    ....-+.++|..|+|||+|++.+.+....+.   .+ -|.+..      
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G----~pannvLL~G~rGtGKSSlVkall~~y~~~G---LR-lIev~k------   88 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQG----LPANNVLLWGARGTGKSSLVKALLNEYADQG---LR-LIEVSK------   88 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcC----CCCcceEEecCCCCCHHHHHHHHHHHHhhcC---ce-EEEECH------
Confidence            444567999999999987754321111    2334678899999999999999987432222   11 122222      


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCC-CCChhhHhHhhCcCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVW-NENYNDWIDLSRPFQ  328 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~-~~~~~~~~~l~~~l~  328 (475)
                                   .+-.++..+...|+.  ...+|+|++||+- +.....+..+.+.|.
T Consensus        89 -------------~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~Le  132 (249)
T PF05673_consen   89 -------------EDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLE  132 (249)
T ss_pred             -------------HHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhc
Confidence                         112223333333332  3569999999983 222234555555554

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.10  E-value=3.3e-05  Score=85.08  Aligned_cols=157  Identities=15%  Similarity=0.098  Sum_probs=85.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~~  270 (475)
                      ..++||+.++++++..|.. .       ....+.++|++|+|||++|..+.........    ....+|..     ++..
T Consensus       173 ~~~igr~~ei~~~~~~l~r-~-------~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~  239 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSR-R-------TKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGA  239 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhc-C-------CCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHH
Confidence            3589999999999999876 2       2234568999999999999998774211110    12233321     1111


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhC-CceEEEEEECCCCCC-------hhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLF-GKRFLLVLDDVWNEN-------YNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                          ++   ........-...+...+...-. +++.+|+||+++...       ..+-..++.+.... ..-.+|-+|..
T Consensus       240 ----l~---a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~-g~i~~IgaTt~  311 (852)
T TIGR03346       240 ----LI---AGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR-GELHCIGATTL  311 (852)
T ss_pred             ----Hh---hcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc-CceEEEEeCcH
Confidence                11   0100011111222223332222 468999999996321       01122333333222 22455555555


Q ss_pred             hHHHH-------hcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          343 ADAAL-------IMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       343 ~~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ++...       .......+.+...+.++...++...
T Consensus       312 ~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       312 DEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             HHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            44322       1224466889999999999988754

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.09  E-value=0.00012  Score=74.16  Aligned_cols=183  Identities=13%  Similarity=0.073  Sum_probs=102.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      ...+.|+|+.|+|||+|++.+++.......=..+++++.      .++...+...+...     .....    .+.+.. 
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~~~----~~~~~~-  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN-----KMEEF----KEKYRS-  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC-----CHHHH----HHHHHh-
Confidence            356889999999999999999985322111123445543      33444555544322     22222    223322 


Q ss_pred             eEEEEEECCCCCChhh--HhHhhCcCCC-CCCCcEEEEecCCh-HH--------HHhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          304 RFLLVLDDVWNENYND--WIDLSRPFQD-GAPGSKIIITTRNA-DA--------ALIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~ilvTtR~~-~v--------~~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      .-+|+|||++......  ...+...+.. ...+..+|+|+... ..        ...+.....+.+++.+.++-..++.+
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~  279 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQK  279 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHH
Confidence            3489999996432111  1223322221 12355678877642 11        11222335689999999999999998


Q ss_pred             cccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh-------cCCCChhHHHHHHhcc
Q 046770          372 HSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL-------HGKYDPSDWESVLNSR  426 (475)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L-------~~~~~~~~w~~~l~~~  426 (475)
                      .+..... .   -.+++...|++.+.|..-.+.-+-..|       ....+.+..+.++...
T Consensus       280 ~~~~~~~-~---l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       280 KAEEEGL-E---LPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDL  337 (405)
T ss_pred             HHHHcCC-C---CCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence            8754321 1   125677778888888776544322222       1224556677777653

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).

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

Probab=98.07  E-value=2.2e-05  Score=84.45  Aligned_cols=155  Identities=21%  Similarity=0.207  Sum_probs=87.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc---cC-cCeEEEEEecCCCCHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---CH-FDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~~-F~~~~wv~v~~~~~~~~~  271 (475)
                      .++||+.+++++++.|.. ..       ..-+.++|++|+|||++|+.++......   .. .++.+|..     ++.  
T Consensus       187 ~liGR~~ei~~~i~iL~r-~~-------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~--  251 (758)
T PRK11034        187 PLIGREKELERAIQVLCR-RR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIG--  251 (758)
T ss_pred             cCcCCCHHHHHHHHHHhc-cC-------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHH--
Confidence            589999999999998876 21       2334689999999999999988632111   11 13444421     111  


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCC--------ChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNE--------NYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                        .++   .+.. ...+.+.....+.+.+ +.++.+|+||+++.-        ...+...++.++... ..-++|-+|..
T Consensus       252 --~ll---aG~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~  324 (758)
T PRK11034        252 --SLL---AGTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTY  324 (758)
T ss_pred             --HHh---cccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCCh
Confidence              111   1111 1112222222222222 345779999999631        112233333333322 23456666665


Q ss_pred             hHHHH-------hcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          343 ADAAL-------IMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       343 ~~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ++...       .......+.+++.+.++...++...
T Consensus       325 ~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        325 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            44322       2234568999999999999999854

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.06  E-value=0.00021  Score=74.77  Aligned_cols=194  Identities=14%  Similarity=0.141  Sum_probs=109.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+.-++.|.+++.. .      .-.....++|+.|+||||+|+.+....--...-+       ..+.+.-.....
T Consensus        16 ~~viGq~~v~~~L~~~i~~-~------~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~   81 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQ-G------KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKA   81 (559)
T ss_pred             HhccCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHH
Confidence            4689999999999999876 2      2234567899999999999998875321100000       001111111111


Q ss_pred             HHHHhhcC-----CCCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec-CCh
Q 046770          275 ILRSVAMG-----IVDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT-RNA  343 (475)
Q Consensus       275 il~~l~~~-----~~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt-R~~  343 (475)
                      +.......     .......+... .+.+.     ..++.-++|||+++..+...+..++..+......+.+|++| ...
T Consensus        82 i~~g~~~dv~eidaas~~~vd~ir-~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~  160 (559)
T PRK05563         82 ITNGSLMDVIEIDAASNNGVDEIR-DIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH  160 (559)
T ss_pred             HhcCCCCCeEEeeccccCCHHHHH-HHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChh
Confidence            11100000     00011222222 22222     13556688999998777667778877776544455555544 433


Q ss_pred             HHHH-hcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          344 DAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       344 ~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      .+.. ..+....+.+.+++.++....+...+-..+- ..   ..+....|++.++|.+..+..+.
T Consensus       161 ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi-~i---~~~al~~ia~~s~G~~R~al~~L  221 (559)
T PRK05563        161 KIPATILSRCQRFDFKRISVEDIVERLKYILDKEGI-EY---EDEALRLIARAAEGGMRDALSIL  221 (559)
T ss_pred             hCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            3222 2233467889999999998888876533221 11   13556778889998876554433

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.04  E-value=6.7e-05  Score=71.81  Aligned_cols=133  Identities=12%  Similarity=0.041  Sum_probs=72.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceE
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRF  305 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~  305 (475)
                      -+.++|++|+|||++|+.++.............|+.++.        .+++..+.+..     .......+.+.   ..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~--------~~l~~~~~g~~-----~~~~~~~~~~a---~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR--------DDLVGQYIGHT-----APKTKEILKRA---MGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH--------HHHhHhhcccc-----hHHHHHHHHHc---cCc
Confidence            478999999999999977765321111111112444442        11222222211     11222223322   235


Q ss_pred             EEEEECCCCC---------ChhhHhHhhCcCCCCCCCcEEEEecCChHHHHhcC--------CCceeeCCCCCHHHHHHH
Q 046770          306 LLVLDDVWNE---------NYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMG--------TVQAYPLKGLSNDDCMCL  368 (475)
Q Consensus       306 LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~--------~~~~~~l~~L~~~~~~~l  368 (475)
                      +|+||++...         ....+..+...+.....+.+||+++..........        -...+++++++.++...+
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I  203 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVI  203 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHH
Confidence            8999999632         12223445555544445667777776543322211        135688999999999999


Q ss_pred             Hhhccc
Q 046770          369 FTQHSL  374 (475)
Q Consensus       369 f~~~~~  374 (475)
                      +...+-
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            887653

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.03  E-value=7.2e-05  Score=74.96  Aligned_cols=182  Identities=14%  Similarity=0.092  Sum_probs=96.3

Q ss_pred             cccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ..++.|++..+++|.+.+...-..     .-.-...+-|.++|++|+|||++|+.+++..  ...     |+.++.    
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~--~~~-----~i~v~~----  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET--NAT-----FIRVVG----  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh--CCC-----EEEeeh----
Confidence            346899999999998866320000     0000234568899999999999999999842  222     222221    


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC-----------Chhh---HhHhhCcCCC--CCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE-----------NYND---WIDLSRPFQD--GAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~-----------~~~~---~~~l~~~l~~--~~~  332 (475)
                      .++    .....+     .....+...+...-...+.+|+|||+...           +...   ...++..+..  ...
T Consensus       199 ~~l----~~~~~g-----~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~  269 (389)
T PRK03992        199 SEL----VQKFIG-----EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRG  269 (389)
T ss_pred             HHH----hHhhcc-----chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCC
Confidence            111    111110     11111111222222345789999999532           1111   1122222221  123


Q ss_pred             CcEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          333 GSKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       333 gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      +..||.||...+...  ...   -...+.+.+.+.++-.++|..+.....- ...-.+    ..+++.+.|.-
T Consensus       270 ~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~-~~~~~~----~~la~~t~g~s  337 (389)
T PRK03992        270 NVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNL-ADDVDL----EELAELTEGAS  337 (389)
T ss_pred             CEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCC-CCcCCH----HHHHHHcCCCC
Confidence            567787887643221  111   2356889999999999999977643221 111223    44677777753

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.03  E-value=6.5e-05  Score=82.57  Aligned_cols=156  Identities=14%  Similarity=0.064  Sum_probs=83.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc---C-cCeEEE-EEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC---H-FDLKAW-TYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~---~-F~~~~w-v~v~~~~~~~  269 (475)
                      ..++||+.+++++++.|..        .....+.++|++|+|||+||+.+........   . ....+| +..+.     
T Consensus       178 ~~vigr~~ei~~~i~iL~r--------~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~-----  244 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQR--------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA-----  244 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhc--------CCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh-----
Confidence            3599999999999999976        2234566999999999999999887421110   0 122222 22221     


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCCh-------hhHhHhhCcCCCCCCCcEEEEecC
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNENY-------NDWIDLSRPFQDGAPGSKIIITTR  341 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~~-------~~~~~l~~~l~~~~~gs~ilvTtR  341 (475)
                       ++       .+......-...+...+.+.- .+++.+|++|+++....       .+-..++.+.... ..-++|-+|.
T Consensus       245 -l~-------ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt  315 (857)
T PRK10865        245 -LV-------AGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATT  315 (857)
T ss_pred             -hh-------hccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCC
Confidence             10       000011111122222232221 25689999999964310       1122333333222 2346666666


Q ss_pred             ChHHHHh-------cCCCceeeCCCCCHHHHHHHHhhc
Q 046770          342 NADAALI-------MGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       342 ~~~v~~~-------~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ..+....       ......+.+...+.++...++...
T Consensus       316 ~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l  353 (857)
T PRK10865        316 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGL  353 (857)
T ss_pred             CHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHH
Confidence            5543211       123345667667888888887654

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.02  E-value=0.0004  Score=72.15  Aligned_cols=181  Identities=13%  Similarity=0.083  Sum_probs=100.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|..|+|||.|++.+++.......-..+.+++.      .+++..+...+...     ..+    .+++.+.. .
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~-----~~~----~f~~~y~~-~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG-----KGD----SFRRRYRE-M  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc-----cHH----HHHHHhhc-C
Confidence            45899999999999999999984321111122344433      33444444443221     112    23333322 2


Q ss_pred             EEEEEECCCCCCh-hhHh-HhhCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          305 FLLVLDDVWNENY-NDWI-DLSRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       305 ~LlVlDdv~~~~~-~~~~-~l~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      =+|||||+..... ..|. .+...+.. ...+..||+||+..         .+...+...-++.|.+.+.+.-..++.++
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk  458 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK  458 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence            4889999965422 2222 23322221 12356788888752         22233345678999999999999999988


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc------C-CCChhHHHHHHhc
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH------G-KYDPSDWESVLNS  425 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~------~-~~~~~~w~~~l~~  425 (475)
                      +....- .   .-.++..-|++.+.+..-.+.-+...|.      . ..+...-+.++..
T Consensus       459 a~~r~l-~---l~~eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~  514 (617)
T PRK14086        459 AVQEQL-N---APPEVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRD  514 (617)
T ss_pred             HHhcCC-C---CCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence            754321 1   2246677777777766554443333221      1 2444555556654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.00  E-value=0.00019  Score=70.01  Aligned_cols=97  Identities=16%  Similarity=0.204  Sum_probs=66.9

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH-H-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA-A-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v-~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      +++=++|||+++..+......++..+..-..++.+|+||.+... . ...+....+.+.+++.+++.+.+.......   
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~~---  181 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPES---  181 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcccC---
Confidence            34445678999888888888888888755567777777776432 2 233345679999999999999998653111   


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                        .   .+.+..++..++|.|+.+..+
T Consensus       182 --~---~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        182 --D---ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             --C---hHHHHHHHHHcCCCHHHHHHH
Confidence              1   233456788999999865544

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.99  E-value=0.00014  Score=74.05  Aligned_cols=182  Identities=17%  Similarity=0.106  Sum_probs=101.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      ..-+.|+|++|+|||+|++.+++... +.+.. .+.|++.      .+++..+...+...     ....    +.+.+..
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~~----f~~~~~~  193 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDLRVMYITS------EKFLNDLVDSMKEG-----KLNE----FREKYRK  193 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHhcc-----cHHH----HHHHHHh
Confidence            34589999999999999999998532 22222 3455543      34555555555322     1222    2233333


Q ss_pred             ceEEEEEECCCCCC-hhhH-hHhhCcCCC-CCCCcEEEEecC-ChHHH--------HhcCCCceeeCCCCCHHHHHHHHh
Q 046770          303 KRFLLVLDDVWNEN-YNDW-IDLSRPFQD-GAPGSKIIITTR-NADAA--------LIMGTVQAYPLKGLSNDDCMCLFT  370 (475)
Q Consensus       303 kr~LlVlDdv~~~~-~~~~-~~l~~~l~~-~~~gs~ilvTtR-~~~v~--------~~~~~~~~~~l~~L~~~~~~~lf~  370 (475)
                      +.-+|+|||++... ...+ ..+...+.. ...|..||+||. .+.-.        ..+.....+.+++.+.+.-..++.
T Consensus       194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~  273 (440)
T PRK14088        194 KVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIAR  273 (440)
T ss_pred             cCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHH
Confidence            45589999996421 1111 222222221 123457888875 32211        122334578899999999999999


Q ss_pred             hcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh-------cCCCChhHHHHHHhc
Q 046770          371 QHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL-------HGKYDPSDWESVLNS  425 (475)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L-------~~~~~~~~w~~~l~~  425 (475)
                      +.+..... .   -.+++...|++.+.|..-.+.-+-..|       ....+......++..
T Consensus       274 ~~~~~~~~-~---l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~  331 (440)
T PRK14088        274 KMLEIEHG-E---LPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKD  331 (440)
T ss_pred             HHHHhcCC-C---CCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            87643221 1   124667778888887654444332222       112455556666654

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

Probab=97.94  E-value=0.00041  Score=63.30  Aligned_cols=179  Identities=13%  Similarity=0.134  Sum_probs=108.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe-cCCCCHHHHHHHHHHHhhcCCCCCCChHH----HHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV-SQDFDIIRVTKSILRSVAMGIVDHNDLNL----LQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v-~~~~~~~~~l~~il~~l~~~~~~~~~~~~----l~~~l~~  298 (475)
                      -.++.++|.-|+|||++.+.......-.   +... +.+ ........+...++..+...  .......    ..+.|..
T Consensus        51 qg~~~vtGevGsGKTv~~Ral~~s~~~d---~~~~-v~i~~~~~s~~~~~~ai~~~l~~~--p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          51 QGILAVTGEVGSGKTVLRRALLASLNED---QVAV-VVIDKPTLSDATLLEAIVADLESQ--PKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             CceEEEEecCCCchhHHHHHHHHhcCCC---ceEE-EEecCcchhHHHHHHHHHHHhccC--ccchhHHHHHHHHHHHHH
Confidence            3689999999999999999554422111   1112 333 34457778888888888773  2333333    3333333


Q ss_pred             Hh-CCce-EEEEEECCCCCChhhHhHhhCcCCCCCCC---cEEEEecCC--------hHHHHhcCCCce-eeCCCCCHHH
Q 046770          299 QL-FGKR-FLLVLDDVWNENYNDWIDLSRPFQDGAPG---SKIIITTRN--------ADAALIMGTVQA-YPLKGLSNDD  364 (475)
Q Consensus       299 ~l-~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~g---s~ilvTtR~--------~~v~~~~~~~~~-~~l~~L~~~~  364 (475)
                      .. ++++ ..+++||.+.......+.++........+   -+|++....        ......-..... |++.|++.++
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 5777 89999999876665665554433311112   234443322        111111112233 8999999999


Q ss_pred             HHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          365 CMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       365 ~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      ...++..+..+... ..+--..+....|..+..|.|.+|..++..
T Consensus       205 t~~yl~~~Le~a~~-~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         205 TGLYLRHRLEGAGL-PEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             HHHHHHHHHhccCC-CcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            99998887655432 222223456677999999999999877654

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

Probab=97.94  E-value=6.3e-05  Score=69.35  Aligned_cols=183  Identities=17%  Similarity=0.154  Sum_probs=102.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+|+|-++-+++|.=.+.. ....+  ..+--|.++|++|.||||||.-+++...+.  +..    .......-..-+..
T Consensus        26 ~efiGQ~~vk~~L~ifI~A-Ak~r~--e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~k~----tsGp~leK~gDlaa   96 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKA-AKKRG--EALDHVLLFGPPGLGKTTLAHIIANELGVN--LKI----TSGPALEKPGDLAA   96 (332)
T ss_pred             HHhcChHHHHHHHHHHHHH-HHhcC--CCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--eEe----cccccccChhhHHH
Confidence            4799988777777655544 22222  556789999999999999999999953322  211    11110110111122


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCC--------CCCCCc-----------E
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQ--------DGAPGS-----------K  335 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~--------~~~~gs-----------~  335 (475)
                      ++..+.                      ..=++++|.++..+...-+-+..++.        ..++++           -
T Consensus        97 iLt~Le----------------------~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTL  154 (332)
T COG2255          97 ILTNLE----------------------EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTL  154 (332)
T ss_pred             HHhcCC----------------------cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeE
Confidence            222221                      12356667776544322222222211        112222           2


Q ss_pred             EEEecCChHHHHhcC--CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcC
Q 046770          336 IIITTRNADAALIMG--TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHG  412 (475)
Q Consensus       336 ilvTtR~~~v~~~~~--~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~  412 (475)
                      |=.|||.-.+...+.  -.-+.+++--+.+|..++..+.+..-.    -+-.++.+.+|+++..|-|--..-+.+..+.
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~----i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRD  229 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILG----IEIDEEAALEIARRSRGTPRIANRLLRRVRD  229 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhC----CCCChHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence            445888644332222  224567888889999999887764322    1223466788999999999877666665543

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.93  E-value=0.00063  Score=65.95  Aligned_cols=197  Identities=15%  Similarity=0.108  Sum_probs=111.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc-------------ccCcCeEEEEEe
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV-------------QCHFDLKAWTYV  262 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-------------~~~F~~~~wv~v  262 (475)
                      +++|-+.-++.+...+.. .      .-.....++|+.|+||+++|..+.+..--             ...+.-..|+.-
T Consensus         5 ~iiGq~~~~~~L~~~i~~-~------rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p   77 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQ-N------RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEP   77 (314)
T ss_pred             HhCCHHHHHHHHHHHHHh-C------CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEec
Confidence            688999989999998876 2      22368899999999999999777553110             011112233321


Q ss_pred             cCCCCHHHHHHHHHHHhh--cCCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcE
Q 046770          263 SQDFDIIRVTKSILRSVA--MGIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSK  335 (475)
Q Consensus       263 ~~~~~~~~~l~~il~~l~--~~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  335 (475)
                      ....+-..+-..-+...+  ......-..++ .+.+.+.+     .+.+-++|+|++...+......++..+..-. .+.
T Consensus        78 ~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~  155 (314)
T PRK07399         78 TYQHQGKLITASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGT  155 (314)
T ss_pred             cccccccccchhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCe
Confidence            100000000001111111  01011112222 23344443     3556699999998777777777877776433 445


Q ss_pred             EEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          336 IIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       336 ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      +|++|.+. .+. ...+....+++.+++.++..+.+.+......   .    ......++..++|.|..+..+..
T Consensus       156 fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~---~----~~~~~~l~~~a~Gs~~~al~~l~  223 (314)
T PRK07399        156 LILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI---L----NINFPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             EEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc---c----hhHHHHHHHHcCCCHHHHHHHHH
Confidence            55555443 222 2334457899999999999999997642111   0    11135688999999987665443

>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=97.92  E-value=1.4e-05  Score=66.92  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcCc
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      |.|+|++|+|||++|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999853

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 ....

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.91  E-value=0.00023  Score=72.32  Aligned_cols=155  Identities=14%  Similarity=0.126  Sum_probs=87.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      ..-+.|+|+.|+|||+|++.+++...  ..-..+++++      ...+...+...+...     ..    ..++..+. .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~--~~~~~v~yi~------~~~f~~~~~~~l~~~-----~~----~~f~~~~~-~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR--ESGGKILYVR------SELFTEHLVSAIRSG-----EM----QRFRQFYR-N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH--HcCCCEEEee------HHHHHHHHHHHHhcc-----hH----HHHHHHcc-c
Confidence            35678999999999999999998432  2122234443      233444444444321     11    22333333 3


Q ss_pred             eEEEEEECCCCCChhh--HhHhhCcCCC-CCCCcEEEEecCCh-H--------HHHhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          304 RFLLVLDDVWNENYND--WIDLSRPFQD-GAPGSKIIITTRNA-D--------AALIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~gs~ilvTtR~~-~--------v~~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      .-+|+|||+.......  .+.+...+.. ...|..||+||... .        +...+.....+.+.+++.++...++.+
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            4488899996532111  1222222211 11355788888642 1        122233446889999999999999998


Q ss_pred             cccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          372 HSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      .+-...- ..   ..++..-|+..+.|.-
T Consensus       283 k~~~~~~-~l---~~evl~~la~~~~~di  307 (445)
T PRK12422        283 KAEALSI-RI---EETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHcCC-CC---CHHHHHHHHHhcCCCH
Confidence            7744321 11   2455566777666543

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.91  E-value=0.00022  Score=71.60  Aligned_cols=119  Identities=19%  Similarity=0.172  Sum_probs=75.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceE
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRF  305 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~  305 (475)
                      ++.|.|+.++||||+++.+....  ...   .++++..+......-+.+.+.                 .+...-..++.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~--~~~---~iy~~~~d~~~~~~~l~d~~~-----------------~~~~~~~~~~~   96 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGL--LEE---IIYINFDDLRLDRIELLDLLR-----------------AYIELKEREKS   96 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhC--Ccc---eEEEEecchhcchhhHHHHHH-----------------HHHHhhccCCc
Confidence            99999999999999997776632  111   445444332211111111111                 11111122778


Q ss_pred             EEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH------hcCCCceeeCCCCCHHHHHHHH
Q 046770          306 LLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL------IMGTVQAYPLKGLSNDDCMCLF  369 (475)
Q Consensus       306 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~------~~~~~~~~~l~~L~~~~~~~lf  369 (475)
                      +|+||.|+..  ..|...+..+.+.... +|++|+.+.....      ..+....+.+.||+..|...+.
T Consensus        97 yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~  163 (398)
T COG1373          97 YIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLK  163 (398)
T ss_pred             eEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhc
Confidence            9999999654  5899888888776655 8888888754432      2234567899999999887643

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.89  E-value=0.00014  Score=74.62  Aligned_cols=181  Identities=13%  Similarity=0.063  Sum_probs=103.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCc--CeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF--DLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ..-+.|+|++|+|||+|++.+.+..  ...+  ..+.+++..      ++...+...+...     ....    +.+.+.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~--~~~~~~~~v~yi~~~------~~~~~~~~~~~~~-----~~~~----~~~~~~  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYI--LEKNPNAKVVYVTSE------KFTNDFVNALRNN-----TMEE----FKEKYR  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HHhCCCCeEEEEEHH------HHHHHHHHHHHcC-----cHHH----HHHHHh
Confidence            3568999999999999999999853  3332  234455432      3334444444221     1222    233333


Q ss_pred             CceEEEEEECCCCCChh--hHhHhhCcCCC-CCCCcEEEEecCChH---------HHHhcCCCceeeCCCCCHHHHHHHH
Q 046770          302 GKRFLLVLDDVWNENYN--DWIDLSRPFQD-GAPGSKIIITTRNAD---------AALIMGTVQAYPLKGLSNDDCMCLF  369 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~--~~~~l~~~l~~-~~~gs~ilvTtR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf  369 (475)
                       +.-+|||||++.....  ....+...+.. ...|..||+||....         +...+....++++++.+.++-..++
T Consensus       211 -~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il  289 (450)
T PRK00149        211 -SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAIL  289 (450)
T ss_pred             -cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHH
Confidence             2448999999643211  11223322221 113456777776531         1222334467999999999999999


Q ss_pred             hhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh-------cCCCChhHHHHHHhcc
Q 046770          370 TQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL-------HGKYDPSDWESVLNSR  426 (475)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L-------~~~~~~~~w~~~l~~~  426 (475)
                      .+.+.....    .-.+++...|++.+.|..-.+.-+-..|       ....+....+.+++..
T Consensus       290 ~~~~~~~~~----~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        290 KKKAEEEGI----DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHHHcCC----CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            988754221    1224677789999998876544332222       1224566677777653

>TIGR00763 lon ATP-dependent protease La

Probab=97.86  E-value=0.00061  Score=74.51  Aligned_cols=165  Identities=18%  Similarity=0.172  Sum_probs=85.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.++-++.|.+++........  ..-+++.++|++|+|||++|+.+++..  ...|-   -++++...+..++.. 
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~--~~~~~lll~GppG~GKT~lAk~iA~~l--~~~~~---~i~~~~~~~~~~i~g-  391 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGK--MKGPILCLVGPPGVGKTSLGKSIAKAL--NRKFV---RFSLGGVRDEAEIRG-  391 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcC--CCCceEEEECCCCCCHHHHHHHHHHHh--cCCeE---EEeCCCcccHHHHcC-
Confidence            4588988888888887643111011  223579999999999999999999842  32331   122232222222110 


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChh----hHhHhhCcC--------CCC-------CCCcE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYN----DWIDLSRPF--------QDG-------APGSK  335 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~----~~~~l~~~l--------~~~-------~~gs~  335 (475)
                         .  ...........+...+.... .++-+|+||+++.....    .-..++..+        .+.       ..+.-
T Consensus       392 ---~--~~~~~g~~~g~i~~~l~~~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~  465 (775)
T TIGR00763       392 ---H--RRTYVGAMPGRIIQGLKKAK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVI  465 (775)
T ss_pred             ---C--CCceeCCCCchHHHHHHHhC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEE
Confidence               0  00011111223333444332 33448899999643211    111222211        111       12344


Q ss_pred             EEEecCChHH--HHhcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          336 IIITTRNADA--ALIMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       336 ilvTtR~~~v--~~~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      +|.||.....  .........+++.+++.++-..++..+.
T Consensus       466 ~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       466 FIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            5556654321  1222344678999999988888876543

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.

>PRK08116 hypothetical protein; Validated

Probab=97.83  E-value=6.2e-05  Score=71.31  Aligned_cols=104  Identities=22%  Similarity=0.226  Sum_probs=58.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|..|+|||.||..+++...  ..-..+++++      ..+++..+...+...  ...+...    +.+.+.+-.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~--~~~~~v~~~~------~~~ll~~i~~~~~~~--~~~~~~~----~~~~l~~~d  180 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI--EKGVPVIFVN------FPQLLNRIKSTYKSS--GKEDENE----IIRSLVNAD  180 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH--HcCCeEEEEE------HHHHHHHHHHHHhcc--ccccHHH----HHHHhcCCC
Confidence            3578999999999999999999532  2223345554      334455554443321  1112222    233333333


Q ss_pred             EEEEEECCCCCChhhHhH--hhCcCCC-CCCCcEEEEecCCh
Q 046770          305 FLLVLDDVWNENYNDWID--LSRPFQD-GAPGSKIIITTRNA  343 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~ilvTtR~~  343 (475)
                       ||||||+.......|..  +...+.. -..+..+|+||...
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             89999996544445543  2222221 12456789998763

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.82  E-value=0.00012  Score=61.55  Aligned_cols=88  Identities=18%  Similarity=0.017  Sum_probs=46.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc-
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK-  303 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k-  303 (475)
                      ..+.|+|++|+||||+++.++......  .....++..+........... ....... ............+....... 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQLL-LIIVGGK-KASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHHHH-hhhhhcc-CCCCCHHHHHHHHHHHHHhcC
Confidence            478999999999999999998853222  123455544443322111111 0111111 11222222233344444333 


Q ss_pred             eEEEEEECCCCCC
Q 046770          304 RFLLVLDDVWNEN  316 (475)
Q Consensus       304 r~LlVlDdv~~~~  316 (475)
                      ..+|++|++....
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.

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

Probab=97.81  E-value=0.00039  Score=75.47  Aligned_cols=167  Identities=17%  Similarity=0.231  Sum_probs=90.1

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      +.+.+|.++-++.|+++|........  ..-.++.++|++|+||||+|+.++..  ....|   .-++.+...+..++..
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~--~~g~~i~l~GppG~GKTtl~~~ia~~--l~~~~---~~i~~~~~~d~~~i~g  393 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNK--IKGPILCLVGPPGVGKTSLGQSIAKA--TGRKY---VRMALGGVRDEAEIRG  393 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhccc--CCCceEEEECCCCCCHHHHHHHHHHH--hCCCE---EEEEcCCCCCHHHhcc
Confidence            44689999999999988864121111  23357999999999999999999873  22222   1123333333222211


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhh----HhHhhCcCCC---------------CCCCc
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYND----WIDLSRPFQD---------------GAPGS  334 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~---------------~~~gs  334 (475)
                      .- ...    .+. ....+...+... ...+-+|+||++.......    ...++..+..               .-...
T Consensus       394 ~~-~~~----~g~-~~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        394 HR-RTY----IGS-MPGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             ch-hcc----CCC-CCcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCce
Confidence            10 000    011 112233334332 2234578999996433211    2333333321               11344


Q ss_pred             EEEEecCChHHHH-hcCCCceeeCCCCCHHHHHHHHhhccc
Q 046770          335 KIIITTRNADAAL-IMGTVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       335 ~ilvTtR~~~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      -+|.|+.+..+.. ..+...++.+.+++.++-.++.+++..
T Consensus       467 ~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        467 MFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             EEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence            5566665432221 223446789999999999888877653

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.81  E-value=0.001  Score=65.60  Aligned_cols=207  Identities=15%  Similarity=0.123  Sum_probs=123.2

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHH-HHHHcCcccccCcCeEEEEEecCC---CCHHHHHHHH
Q 046770          200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA-QLVYNDSRVQCHFDLKAWTYVSQD---FDIIRVTKSI  275 (475)
Q Consensus       200 R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~~~wv~v~~~---~~~~~~l~~i  275 (475)
                      |.+..++|..||..        ..-..|.|.||.|+||+.|+ .++..+.+.      +..+.|.+-   -+...++..+
T Consensus         1 R~e~~~~L~~wL~e--------~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~l   66 (431)
T PF10443_consen    1 RKEAIEQLKSWLNE--------NPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNL   66 (431)
T ss_pred             CchHHHHHHHHHhc--------CCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHH
Confidence            56778999999987        33479999999999999999 888775332      444444322   1222333333


Q ss_pred             HHHhh-----------------------cCCCC-CCCh-HHHHHH-------HHH-------------------Hh---C
Q 046770          276 LRSVA-----------------------MGIVD-HNDL-NLLQWK-------LKK-------------------QL---F  301 (475)
Q Consensus       276 l~~l~-----------------------~~~~~-~~~~-~~l~~~-------l~~-------------------~l---~  301 (475)
                      ..+++                       +...+ ..+. .++...       |++                   +|   .
T Consensus        67 A~qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hP  146 (431)
T PF10443_consen   67 ASQVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHP  146 (431)
T ss_pred             HHhcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCC
Confidence            33322                       11111 1121 122111       111                   01   1


Q ss_pred             CceEEEEEECCCCCC---------hhhHhHhhCcCCCCCCCcEEEEecCChHHHHhcC------CCceeeCCCCCHHHHH
Q 046770          302 GKRFLLVLDDVWNEN---------YNDWIDLSRPFQDGAPGSKIIITTRNADAALIMG------TVQAYPLKGLSNDDCM  366 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~------~~~~~~l~~L~~~~~~  366 (475)
                      .++-+|||||.....         ..+|...+.    ..+-.+||++|-+......+.      ..+.+.|.-.+.+.|.
T Consensus       147 e~~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv----~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak  222 (431)
T PF10443_consen  147 ERRPVVVIDNFLHKAEENDFIYDKLAEWAASLV----QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAK  222 (431)
T ss_pred             ccCCEEEEcchhccCcccchHHHHHHHHHHHHH----hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHH
Confidence            236799999985322         123443322    224457888887754443322      4567889999999999


Q ss_pred             HHHhhcccCCCCC------------CCC----chHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhH-HHHHHh
Q 046770          367 CLFTQHSLETRDF------------SMH----QPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSD-WESVLN  424 (475)
Q Consensus       367 ~lf~~~~~~~~~~------------~~~----~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~-w~~~l~  424 (475)
                      .+...+.......            ...    .....-....++..||--.-+..+++.++...++.+ ...+.+
T Consensus       223 ~yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~  297 (431)
T PF10443_consen  223 QYVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIIS  297 (431)
T ss_pred             HHHHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            9999887543110            000    123444566888999999999999999998866543 444443

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 [].

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.79  E-value=0.00022  Score=74.96  Aligned_cols=210  Identities=13%  Similarity=0.121  Sum_probs=105.7

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEec---CCCCHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS---QDFDIIR  270 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~---~~~~~~~  270 (475)
                      -.+++|-++.++++..|+...... .  ....++.|+|++|+||||+++.++....    ++..-|++-.   ...+...
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~-~--~~~~illL~GP~GsGKTTl~~~la~~l~----~~~~Ew~npv~~~~~~~~~~  155 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLE-N--APKRILLITGPSGCGKSTTIKILSKELG----IQVQEWSNPTLPDFQKNDHK  155 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccc-c--CCCcEEEEECCCCCCHHHHHHHHHHHhh----hHHHHHhhhhhhcccccccc
Confidence            346899999999999998762211 1  2235799999999999999999987421    2223332100   0000011


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHH---H----hCCceEEEEEECCCCC---ChhhHhHhhC-cCCCCCCCcEEEEe
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKK---Q----LFGKRFLLVLDDVWNE---NYNDWIDLSR-PFQDGAPGSKIIIT  339 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~---~----l~~kr~LlVlDdv~~~---~~~~~~~l~~-~l~~~~~gs~ilvT  339 (475)
                      +...+..++..-................   .    ..+++.+|+||++.+.   ....+..++. .+...+.-.-|++|
T Consensus       156 ~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~pLI~I~  235 (637)
T TIGR00602       156 VTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFII  235 (637)
T ss_pred             cchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCceEEEEe
Confidence            1111111111110011111111111111   1    1356779999999332   1123444444 33222223345555


Q ss_pred             cCChH---------HH-------HhcC--CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCc---hHHHHHHHHHHhcCC
Q 046770          340 TRNAD---------AA-------LIMG--TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQ---PLKEIGAKIVIKCNG  398 (475)
Q Consensus       340 tR~~~---------v~-------~~~~--~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~---~~~~~~~~I~~~c~G  398 (475)
                      |-...         ..       ....  ....+.+.|++..+....+...+-.........   ...+....|+..++|
T Consensus       236 TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~~~s~G  315 (637)
T TIGR00602       236 TESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSG  315 (637)
T ss_pred             cCCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHHHhCCC
Confidence            53211         00       1111  234588999999997777766553221110010   113556678888888


Q ss_pred             chHHHHHHHHHh
Q 046770          399 LPLAAKALGCLL  410 (475)
Q Consensus       399 ~PLai~~~~~~L  410 (475)
                      ---.+......+
T Consensus       316 DiRsAIn~LQf~  327 (637)
T TIGR00602       316 DIRSAINSLQFS  327 (637)
T ss_pred             hHHHHHHHHHHH
Confidence            876666555554

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

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

Probab=97.76  E-value=0.00044  Score=68.37  Aligned_cols=135  Identities=16%  Similarity=0.203  Sum_probs=82.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      ....+.|+|..|.|||.|++.+.+.  ...+......+.++    .......++..+..+         -...+++..  
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~--~~~~~~~a~v~y~~----se~f~~~~v~a~~~~---------~~~~Fk~~y--  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNE--ALANGPNARVVYLT----SEDFTNDFVKALRDN---------EMEKFKEKY--  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHH--HHhhCCCceEEecc----HHHHHHHHHHHHHhh---------hHHHHHHhh--
Confidence            4578999999999999999999984  33334322223332    233444444443321         123444444  


Q ss_pred             ceEEEEEECCCCCC-----hhhHhHhhCcCCCCCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHH
Q 046770          303 KRFLLVLDDVWNEN-----YNDWIDLSRPFQDGAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCL  368 (475)
Q Consensus       303 kr~LlVlDdv~~~~-----~~~~~~l~~~l~~~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~l  368 (475)
                      .-=++++||++-..     .+..-.+...+..  .|-.||+|++..         .....+...-++.+.+.+.+....+
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~--~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~ai  252 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLE--NGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAI  252 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHh--cCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHH
Confidence            23388999996421     1222223333333  344899999652         3344445667899999999999999


Q ss_pred             HhhcccCC
Q 046770          369 FTQHSLET  376 (475)
Q Consensus       369 f~~~~~~~  376 (475)
                      +.+.+...
T Consensus       253 L~kka~~~  260 (408)
T COG0593         253 LRKKAEDR  260 (408)
T ss_pred             HHHHHHhc
Confidence            99866443

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.74  E-value=0.0037  Score=60.48  Aligned_cols=94  Identities=18%  Similarity=0.198  Sum_probs=67.6

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-H-HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-A-ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      ++.=++|||++...+......++..+..-..++.+|++|.+.+ + ....+....+.+.+++.+++.+.+.....     
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            4455889999988887788888888876566777777666543 2 33444557899999999999998875421     


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                        .     ....++..++|.|+.+..+.
T Consensus       182 --~-----~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        182 --T-----VPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             --c-----hHHHHHHHcCCCHHHHHHHh
Confidence              1     12457889999999776553

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.74  E-value=0.00048  Score=66.60  Aligned_cols=96  Identities=13%  Similarity=0.145  Sum_probs=66.2

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      +++=++|||++...+...-..++..+..-..++.+|++|... .+. .+.+....+.+.+++.+++...+.+..      
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~------  185 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG------  185 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC------
Confidence            455699999998777666677777776555677777777653 222 333345778999999999998887541      


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      . .   ...+..++..++|.|+.+..+.
T Consensus       186 ~-~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        186 V-S---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             C-C---hHHHHHHHHHcCCCHHHHHHHh
Confidence            1 1   1225567899999999765443

>CHL00176 ftsH cell division protein; Validated

Probab=97.73  E-value=0.00068  Score=71.79  Aligned_cols=179  Identities=15%  Similarity=0.165  Sum_probs=95.5

Q ss_pred             ccccccchhHHHH---HHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEI---VELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l---~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .++.|.++.++++   ++.+.....- .-.....+-+.++|++|+|||+||+.+++..  ..     .|+.++..    +
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--EV-----PFFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--CC-----CeeeccHH----H
Confidence            3577876655554   4444331110 0000224568999999999999999998843  21     12322211    1


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------hhh----HhHhhCcCC--CCCCCc
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------YND----WIDLSRPFQ--DGAPGS  334 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~~~----~~~l~~~l~--~~~~gs  334 (475)
                      +    ......     .....+...+.......+++|+|||++...          ...    +..++..+.  ....+.
T Consensus       252 f----~~~~~g-----~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~V  322 (638)
T CHL00176        252 F----VEMFVG-----VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGV  322 (638)
T ss_pred             H----HHHhhh-----hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCe
Confidence            1    111100     111233334455556778999999995321          112    223333332  123456


Q ss_pred             EEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC
Q 046770          335 KIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG  398 (475)
Q Consensus       335 ~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G  398 (475)
                      .||.||...+...  ...   -...+.+...+.++-.++++.++.....     ........|++.+.|
T Consensus       323 iVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~-----~~d~~l~~lA~~t~G  386 (638)
T CHL00176        323 IVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKL-----SPDVSLELIARRTPG  386 (638)
T ss_pred             eEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhccc-----chhHHHHHHHhcCCC
Confidence            6777777644322  111   2356788888999999999877643211     112234568888888

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.73  E-value=6e-05  Score=76.63  Aligned_cols=187  Identities=13%  Similarity=0.143  Sum_probs=111.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      +++|-+.-...|...+.. .      .-..--...|+.|+||||+|+.++.-.--.      -+ ....+++.-...+.|
T Consensus        17 evvGQe~v~~~L~nal~~-~------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~------~~-~~~ePC~~C~~Ck~I   82 (515)
T COG2812          17 DVVGQEHVVKTLSNALEN-G------RIAHAYLFSGPRGVGKTTIARILAKALNCE------NG-PTAEPCGKCISCKEI   82 (515)
T ss_pred             HhcccHHHHHHHHHHHHh-C------cchhhhhhcCCCCcCchhHHHHHHHHhcCC------CC-CCCCcchhhhhhHhh
Confidence            579999888999998876 2      222345688999999999999887521101      00 112222222222222


Q ss_pred             HHHhhc-----CCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-H
Q 046770          276 LRSVAM-----GIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-D  344 (475)
Q Consensus       276 l~~l~~-----~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~  344 (475)
                      -..-..     ..-.....++.. .|.+..     ++|-=++|||+|+-.+...|..++..+..-.....+|+.|.+. .
T Consensus        83 ~~g~~~DviEiDaASn~gVddiR-~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~K  161 (515)
T COG2812          83 NEGSLIDVIEIDAASNTGVDDIR-EIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQK  161 (515)
T ss_pred             hcCCcccchhhhhhhccChHHHH-HHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCc
Confidence            211000     000111222222 222222     3455589999998888889999999887655666666666653 2


Q ss_pred             H-HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          345 A-ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       345 v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      + ....+..+.|.++.++.++....+...+......    ...+....|++..+|..-
T Consensus       162 ip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~----~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         162 IPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN----IEEDALSLIARAAEGSLR  215 (515)
T ss_pred             CchhhhhccccccccCCCHHHHHHHHHHHHHhcCCc----cCHHHHHHHHHHcCCChh
Confidence            2 2334455789999999999988888776543321    223455567777777544

>PRK10536 hypothetical protein; Provisional

Probab=97.72  E-value=0.0004  Score=64.28  Aligned_cols=132  Identities=14%  Similarity=0.195  Sum_probs=74.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE----ecC-----C
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY----VSQ-----D  265 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~----v~~-----~  265 (475)
                      ..+.+|......+..+|.+        .  .++.++|+.|+|||+||..+..+.-....|+..+-..    ..+     +
T Consensus        55 ~~i~p~n~~Q~~~l~al~~--------~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLP  124 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES--------K--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLP  124 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc--------C--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCC
Confidence            3467888888889998855        2  3899999999999999998876422223344332221    111     1


Q ss_pred             CCHHHHH----HHHHHHhhcCCCCCCChHHHHHHH-----------HHHhCCceE---EEEEECCCCCChhhHhHhhCcC
Q 046770          266 FDIIRVT----KSILRSVAMGIVDHNDLNLLQWKL-----------KKQLFGKRF---LLVLDDVWNENYNDWIDLSRPF  327 (475)
Q Consensus       266 ~~~~~~l----~~il~~l~~~~~~~~~~~~l~~~l-----------~~~l~~kr~---LlVlDdv~~~~~~~~~~l~~~l  327 (475)
                      -+..+-+    .-+...+..-. +.   +.+...+           -.++.|+.+   +||+|++.+.+......++.. 
T Consensus       125 G~~~eK~~p~~~pi~D~L~~~~-~~---~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR-  199 (262)
T PRK10536        125 GDIAEKFAPYFRPVYDVLVRRL-GA---SFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTR-  199 (262)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHh-Ch---HHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhh-
Confidence            1222211    12222221100 00   1111111           124567655   999999988776555555443 


Q ss_pred             CCCCCCcEEEEecCCh
Q 046770          328 QDGAPGSKIIITTRNA  343 (475)
Q Consensus       328 ~~~~~gs~ilvTtR~~  343 (475)
                        .+.+|++|+|--..
T Consensus       200 --~g~~sk~v~~GD~~  213 (262)
T PRK10536        200 --LGENVTVIVNGDIT  213 (262)
T ss_pred             --cCCCCEEEEeCChh
Confidence              35789999988654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.69  E-value=0.00096  Score=69.28  Aligned_cols=206  Identities=13%  Similarity=0.110  Sum_probs=104.3

Q ss_pred             ccccccchhHHHHHHHH---hcCCC---CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELL---LKEDG---TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L---~~~~~---~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|-+..++++.+++   .....   .+.  ...+-+.++|++|+|||+||+.+++..  ...     ++.++.    
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~--~~~~giLL~GppGtGKT~la~alA~~~--~~~-----~~~i~~----  121 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGA--KIPKGVLLVGPPGTGKTLLAKAVAGEA--GVP-----FFSISG----  121 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCC--CCCCcEEEECCCCCCHHHHHHHHHHHc--CCC-----eeeccH----
Confidence            45778776665554433   22000   001  233458899999999999999999843  222     222221    


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------hhhHhH----hhCcCC--CCCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------YNDWID----LSRPFQ--DGAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~~~~~~----l~~~l~--~~~~  332 (475)
                      .++    ......     .....+...+.......+.+|+|||++...          ...+..    ++..+.  ....
T Consensus       122 ~~~----~~~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~  192 (495)
T TIGR01241       122 SDF----VEMFVG-----VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNT  192 (495)
T ss_pred             HHH----HHHHhc-----ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCC
Confidence            111    111110     111233333444445567899999994311          111222    222221  1223


Q ss_pred             CcEEEEecCChHHH-H-hc---CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch-HHHHHH
Q 046770          333 GSKIIITTRNADAA-L-IM---GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP-LAAKAL  406 (475)
Q Consensus       333 gs~ilvTtR~~~v~-~-~~---~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P-Lai~~~  406 (475)
                      +..||.||...+.. . ..   .-...+.+...+.++-.++|..+...... .....    ...|++.+.|.. --|..+
T Consensus       193 ~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~-~~~~~----l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       193 GVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKL-APDVD----LKAVARRTPGFSGADLANL  267 (495)
T ss_pred             CeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCC-Ccchh----HHHHHHhCCCCCHHHHHHH
Confidence            45667777664321 1 11   12356888888888888888876533211 11112    346888888743 333333


Q ss_pred             HHH-----hcCC---CChhHHHHHHhccc
Q 046770          407 GCL-----LHGK---YDPSDWESVLNSRI  427 (475)
Q Consensus       407 ~~~-----L~~~---~~~~~w~~~l~~~~  427 (475)
                      ...     .+.+   -+.+.+..+++...
T Consensus       268 ~~eA~~~a~~~~~~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       268 LNEAALLAARKNKTEITMNDIEEAIDRVI  296 (495)
T ss_pred             HHHHHHHHHHcCCCCCCHHHHHHHHHHHh
Confidence            221     1112   35566777666543

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.69  E-value=0.00038  Score=71.28  Aligned_cols=170  Identities=14%  Similarity=0.092  Sum_probs=89.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc---CcCeEEEEEecCCC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC---HFDLKAWTYVSQDF  266 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~---~F~~~~wv~v~~~~  266 (475)
                      .++.|.+..+++|.+.+.-.-..     ...-...+-+.++|++|+|||++|+.+++......   ......|+++....
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            35778999988888876320000     00002345688999999999999999998532211   11233444443311


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH-hCCceEEEEEECCCCCC-------hhh-----HhHhhCcCCC--CC
Q 046770          267 DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ-LFGKRFLLVLDDVWNEN-------YND-----WIDLSRPFQD--GA  331 (475)
Q Consensus       267 ~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~-l~~kr~LlVlDdv~~~~-------~~~-----~~~l~~~l~~--~~  331 (475)
                          +    +......  .......+....+.. ..+++++|+||+++...       ...     ...++..+..  ..
T Consensus       262 ----L----l~kyvGe--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       262 ----L----LNKYVGE--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             ----h----cccccch--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccC
Confidence                1    1110000  000111122222222 23578999999995321       001     1233333321  12


Q ss_pred             CCcEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhccc
Q 046770          332 PGSKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      .+..||.||...+...  ...   -...+.+...+.++..++|..+..
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            3455666776543321  111   134589999999999999998763

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.67  E-value=0.0015  Score=61.80  Aligned_cols=111  Identities=22%  Similarity=0.191  Sum_probs=57.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH--------HHHh----hcCCCCCCChHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI--------LRSV----AMGIVDHNDLNLLQ  293 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i--------l~~l----~~~~~~~~~~~~l~  293 (475)
                      -|.|.|++|+|||+||+.+.+  ....   ....++++...+..+++...        ..++    .... ...+.....
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~--~lg~---~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   96 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR--KRDR---PVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLE-DIVRQNWVD   96 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH--HhCC---CEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhh-cccceeecC
Confidence            466899999999999999986  2221   23455566555554443221        1110    0000 000000000


Q ss_pred             HHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC----------------CCCcEEEEecCCh
Q 046770          294 WKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG----------------APGSKIIITTRNA  343 (475)
Q Consensus       294 ~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~----------------~~gs~ilvTtR~~  343 (475)
                      ..+.... .+...++||++...+.+.+..+...+..+                .++.+||+|+...
T Consensus        97 g~l~~A~-~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~  161 (262)
T TIGR02640        97 NRLTLAV-REGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPV  161 (262)
T ss_pred             chHHHHH-HcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCc
Confidence            0111111 13468999999876665555555544321                1356888888854

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).

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.0015  Score=64.07  Aligned_cols=162  Identities=11%  Similarity=0.086  Sum_probs=88.8

Q ss_pred             cccc-cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYG-RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vG-R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++| -+.-++.|...+.. .      .-.....++|+.|+||||+|..+.+..--........   +...    ...+.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~-~------~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~---cg~C----~~c~~   71 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAK-N------RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEP---CGTC----TNCKR   71 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHc-C------CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCC---CCcC----HHHHH
Confidence            3566 55566677777655 2      2235668999999999999988865311000000000   0000    00000


Q ss_pred             HHHH-------hhcCCCCCCChHHHHHHHHHH----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          275 ILRS-------VAMGIVDHNDLNLLQWKLKKQ----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       275 il~~-------l~~~~~~~~~~~~l~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      +...       +... ......+++.+.+...    ..+.+=++|+|++...+......++..+..-..++.+|++|.+.
T Consensus        72 ~~~~~hpD~~~i~~~-~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~  150 (329)
T PRK08058         72 IDSGNHPDVHLVAPD-GQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENK  150 (329)
T ss_pred             HhcCCCCCEEEeccc-cccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCCh
Confidence            0000       0000 0011122222222111    23455589999998777667777888887655677777777653


Q ss_pred             H-HH-HhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          344 D-AA-LIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       344 ~-v~-~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      . +. ...+....+++.+++.++..+.+.+.
T Consensus       151 ~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        151 HQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             HhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            2 22 23334578999999999998888754

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.63  E-value=0.0034  Score=60.86  Aligned_cols=94  Identities=11%  Similarity=0.082  Sum_probs=66.5

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      +++=++|+|+++..+......++..+..-..++.+|++|.+. .+. ...+....+.+.+++.++..+.+......    
T Consensus       106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~~~----  181 (325)
T PRK06871        106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQSSA----  181 (325)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHhcc----
Confidence            556688899998888778888888887666677777777653 332 33334578999999999999988865311    


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                        .   ...+...+..++|.|+.+.
T Consensus       182 --~---~~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        182 --E---ISEILTALRINYGRPLLAL  201 (325)
T ss_pred             --C---hHHHHHHHHHcCCCHHHHH
Confidence              1   1124456788999997443

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

Probab=97.62  E-value=0.00035  Score=69.86  Aligned_cols=182  Identities=15%  Similarity=0.145  Sum_probs=94.8

Q ss_pred             ccccccchhHHHHHHHHhcC---CC--CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKE---DG--TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~--~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|-+..+++|.+.+.-.   .+  ..-+-...+-+.++|++|+|||+||+.+++..  ...|     +.+..    .
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l--~~~f-----i~i~~----s  213 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT--TATF-----IRVVG----S  213 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE-----EEEeh----H
Confidence            46888888888877765310   00  00000234678899999999999999999842  2222     11211    1


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC-----------Chh---hHhHhhCcCC--CCCCC
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE-----------NYN---DWIDLSRPFQ--DGAPG  333 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~-----------~~~---~~~~l~~~l~--~~~~g  333 (475)
                      .+    .....+     .....+...+.......+.+|+||++...           +..   .+..++..+.  ....+
T Consensus       214 ~l----~~k~~g-----e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~  284 (398)
T PTZ00454        214 EF----VQKYLG-----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTN  284 (398)
T ss_pred             HH----HHHhcc-----hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCC
Confidence            11    111111     11122222333333567899999997421           000   1222332222  12245


Q ss_pred             cEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          334 SKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       334 s~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      ..||.||...+...  ...   -...+.+...+.++...+|..+..... ....-++    ..+++.+.|..-
T Consensus       285 v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~-l~~dvd~----~~la~~t~g~sg  352 (398)
T PTZ00454        285 VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMN-LSEEVDL----EDFVSRPEKISA  352 (398)
T ss_pred             EEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCC-CCcccCH----HHHHHHcCCCCH
Confidence            67888887643321  122   234588888888888888876543221 1122233    346667776643

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

Probab=97.61  E-value=0.00092  Score=72.68  Aligned_cols=136  Identities=14%  Similarity=0.125  Sum_probs=74.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCC-CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTS-HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|-+..++.|...+.....+- ..+....++.++|+.|+|||+||+.++...     +...+.++.++......    
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~----  525 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHT----  525 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhccc----
Confidence            47788888888877776411100 001234568899999999999999998732     22234444443222111    


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCc-eEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEecCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGK-RFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITTRN  342 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTtR~  342 (475)
                       ...+.+..++....+. ...+.+.+..+ .-+++||+++....+.+..++..+..+           -..+-||+||..
T Consensus       526 -~~~lig~~~gyvg~~~-~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~  603 (731)
T TIGR02639       526 -VSRLIGAPPGYVGFEQ-GGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNA  603 (731)
T ss_pred             -HHHHhcCCCCCcccch-hhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCc
Confidence             1112222111111111 11233333333 459999999887777777777766533           123457777754

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

Probab=97.60  E-value=0.00029  Score=71.00  Aligned_cols=182  Identities=16%  Similarity=0.149  Sum_probs=94.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|.+..+++|.+.+.-.-..     .-.-...+-+.|+|++|+|||+||+.+++.  ....|     +.+...    
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            35788998888888776320000     000023456789999999999999999984  33333     222110    


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC--------C---h---hhHhHhhCcCC--CCCCC
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE--------N---Y---NDWIDLSRPFQ--DGAPG  333 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~--------~---~---~~~~~l~~~l~--~~~~g  333 (475)
                      ++    .....+     .....+...+.....+.+.+|+||++...        +   .   .....++..+.  ....+
T Consensus       252 eL----~~k~~G-----e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~  322 (438)
T PTZ00361        252 EL----IQKYLG-----DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGD  322 (438)
T ss_pred             hh----hhhhcc-----hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCC
Confidence            11    111100     11111222223333456789999997321        0   0   01112222221  11235


Q ss_pred             cEEEEecCChHHHHh--cC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          334 SKIIITTRNADAALI--MG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       334 s~ilvTtR~~~v~~~--~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      ..||.||...+....  ..   -...+.+...+.++..++|..+.....- ...-.+..    ++..+.|+--
T Consensus       323 V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l-~~dvdl~~----la~~t~g~sg  390 (438)
T PTZ00361        323 VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTL-AEDVDLEE----FIMAKDELSG  390 (438)
T ss_pred             eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCC-CcCcCHHH----HHHhcCCCCH
Confidence            678888876443322  11   2356889999999999999876533211 11223333    5666666543

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

Probab=97.56  E-value=0.00071  Score=70.12  Aligned_cols=163  Identities=18%  Similarity=0.211  Sum_probs=91.8

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      +.+.+|-++-+++|++.|.-......  -+-++++++||+|+|||+|++.+++  .....|-   -++++.--|..++  
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~--~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkfv---R~sLGGvrDEAEI--  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKK--LKGPILCLVGPPGVGKTSLGKSIAK--ALGRKFV---RISLGGVRDEAEI--  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhcc--CCCcEEEEECCCCCCchhHHHHHHH--HhCCCEE---EEecCccccHHHh--
Confidence            45689999999999998853111111  3337999999999999999999998  3444442   2334443333222  


Q ss_pred             HHHHHhhcCC---CCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh----hhHhHhhCcCCCCC---------------
Q 046770          274 SILRSVAMGI---VDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY----NDWIDLSRPFQDGA---------------  331 (475)
Q Consensus       274 ~il~~l~~~~---~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~---------------  331 (475)
                            .++.   -+... ..+.+.+++. +.++-|++||.++....    +.-..++..|.+..               
T Consensus       393 ------RGHRRTYIGamP-GrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDL  464 (782)
T COG0466         393 ------RGHRRTYIGAMP-GKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDL  464 (782)
T ss_pred             ------ccccccccccCC-hHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccch
Confidence                  1111   01111 2233333332 45678999999954221    11112222222111               


Q ss_pred             CCcEEEEecCChH--HHHhcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          332 PGSKIIITTRNAD--AALIMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       332 ~gs~ilvTtR~~~--v~~~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ....+|.|..+-+  -+..+....++++.+-+++|=.++-+++.
T Consensus       465 S~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         465 SKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             hheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            1123344444322  23344566889999999999888877765

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

Probab=97.54  E-value=0.0015  Score=62.39  Aligned_cols=188  Identities=15%  Similarity=0.133  Sum_probs=102.8

Q ss_pred             cccccchhHHHHHHHHhcCCC-------CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          196 KVYGRSKEREEIVELLLKEDG-------TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~-------~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ++=|-++.+++|.+.+.-+-.       -+-  ..++=|.++|++|.|||-||++|++.  ....|     +.+..    
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI--~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----Irvvg----  218 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGI--DPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVG----  218 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCC--CCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEecc----
Confidence            455778888888776532100       011  34567889999999999999999994  44334     33333    


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC-ceEEEEEECCCCC-----------Ch---hhHhHhhCcCC--CCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG-KRFLLVLDDVWNE-----------NY---NDWIDLSRPFQ--DGA  331 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~-kr~LlVlDdv~~~-----------~~---~~~~~l~~~l~--~~~  331 (475)
                          .++++..-+..      ..+++.+.+..+. .+.+|++|.+..-           +.   -..-+++..+.  +..
T Consensus       219 ----SElVqKYiGEG------aRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         219 ----SELVQKYIGEG------ARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             ----HHHHHHHhccc------hHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence                23333332221      3455555555544 4889999998320           11   11233444443  123


Q ss_pred             CCcEEEEecCChHHHH--hcCC---CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH----H
Q 046770          332 PGSKIIITTRNADAAL--IMGT---VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL----A  402 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL----a  402 (475)
                      ...|||..|...++..  .+.+   .+.+++..-+.+.-.++|+-|+-.- +....-+++.    |++.|.|.--    |
T Consensus       289 ~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM-~l~~dvd~e~----la~~~~g~sGAdlka  363 (406)
T COG1222         289 GNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM-NLADDVDLEL----LARLTEGFSGADLKA  363 (406)
T ss_pred             CCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc-cCccCcCHHH----HHHhcCCCchHHHHH
Confidence            4568999888765532  1222   2456666444555556666554322 2122233444    6677777643    4


Q ss_pred             HHHHHHHhc
Q 046770          403 AKALGCLLH  411 (475)
Q Consensus       403 i~~~~~~L~  411 (475)
                      +.+=|++++
T Consensus       364 ictEAGm~A  372 (406)
T COG1222         364 ICTEAGMFA  372 (406)
T ss_pred             HHHHHhHHH
Confidence            445555544

>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=97.53  E-value=0.00086  Score=58.45  Aligned_cols=139  Identities=17%  Similarity=0.156  Sum_probs=75.5

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc------------------cCcCeEEEE
Q 046770          199 GRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ------------------CHFDLKAWT  260 (475)
Q Consensus       199 GR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------------------~~F~~~~wv  260 (475)
                      |-++..+.|.+.+.. +      .-...+.++|+.|+||+++|..+++..--.                  .......|+
T Consensus         1 gq~~~~~~L~~~~~~-~------~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~   73 (162)
T PF13177_consen    1 GQEEIIELLKNLIKS-G------RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIII   73 (162)
T ss_dssp             S-HHHHHHHHHHHHC-T------C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEE
T ss_pred             CcHHHHHHHHHHHHc-C------CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEE
Confidence            345556667777765 2      223457899999999999998876531111                  111122233


Q ss_pred             EecCC---CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEE
Q 046770          261 YVSQD---FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKII  337 (475)
Q Consensus       261 ~v~~~---~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~il  337 (475)
                      .-...   ..+.++ +.+...+....                ..++.=++||||++..+.+.+..++..+..-..++.+|
T Consensus        74 ~~~~~~~~i~i~~i-r~i~~~~~~~~----------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fi  136 (162)
T PF13177_consen   74 KPDKKKKSIKIDQI-REIIEFLSLSP----------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFI  136 (162)
T ss_dssp             ETTTSSSSBSHHHH-HHHHHHCTSS-----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEE
T ss_pred             ecccccchhhHHHH-HHHHHHHHHHH----------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEE
Confidence            22221   122111 12322222111                12345589999998888888888888887666788998


Q ss_pred             EecCChH--HHHhcCCCceeeCCCCC
Q 046770          338 ITTRNAD--AALIMGTVQAYPLKGLS  361 (475)
Q Consensus       338 vTtR~~~--v~~~~~~~~~~~l~~L~  361 (475)
                      ++|.+..  .....+....+.+.+++
T Consensus       137 L~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  137 LITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EEES-GGGS-HHHHTTSEEEEE----
T ss_pred             EEECChHHChHHHHhhceEEecCCCC
Confidence            8888753  23333444566666654

...

>PRK04132 replication factor C small subunit; Provisional

Probab=97.51  E-value=0.0022  Score=69.47  Aligned_cols=158  Identities=13%  Similarity=-0.014  Sum_probs=99.3

Q ss_pred             cCCCcHHHHHHHHHcCcccccCc-CeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEE
Q 046770          232 MGGLGKTTLAQLVYNDSRVQCHF-DLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLD  310 (475)
Q Consensus       232 ~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlD  310 (475)
                      |.++||||+|..++++.- ...+ ...+-++.++..... .+++++..+....+.              -..+.-++|||
T Consensus       574 Ph~lGKTT~A~ala~~l~-g~~~~~~~lElNASd~rgid-~IR~iIk~~a~~~~~--------------~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALARELF-GENWRHNFLELNASDERGIN-VIREKVKEFARTKPI--------------GGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhhh-cccccCeEEEEeCCCcccHH-HHHHHHHHHHhcCCc--------------CCCCCEEEEEE
Confidence            678999999999998531 1222 234556666544443 444554443321110              01245799999


Q ss_pred             CCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHH
Q 046770          311 DVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEI  388 (475)
Q Consensus       311 dv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~  388 (475)
                      +++..+......++..+..-...+++|++|.+. .+. ...+....+++.+++.++....+...+-..+- ..   ..+.
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi-~i---~~e~  713 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL-EL---TEEG  713 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC-CC---CHHH
Confidence            999888777888888777544567777776653 222 22234578999999999998888765532211 11   1456


Q ss_pred             HHHHHHhcCCchHHHHHHHHH
Q 046770          389 GAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       389 ~~~I~~~c~G~PLai~~~~~~  409 (475)
                      ...|++.|+|.+..+..+...
T Consensus       714 L~~Ia~~s~GDlR~AIn~Lq~  734 (846)
T PRK04132        714 LQAILYIAEGDMRRAINILQA  734 (846)
T ss_pred             HHHHHHHcCCCHHHHHHHHHH
Confidence            778999999988655544443

>PRK12377 putative replication protein; Provisional

Probab=97.49  E-value=0.00016  Score=67.28  Aligned_cols=101  Identities=21%  Similarity=0.088  Sum_probs=55.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|++|+|||+||..+++...  .....+.++++.      +++..+-.....    ......   .+.. + .+.
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~--~~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~~---~l~~-l-~~~  164 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLL--AKGRSVIVVTVP------DVMSRLHESYDN----GQSGEK---FLQE-L-CKV  164 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH--HcCCCeEEEEHH------HHHHHHHHHHhc----cchHHH---HHHH-h-cCC
Confidence            4688999999999999999998542  222334555543      344444333221    111122   2222 2 345


Q ss_pred             EEEEEECCCCCChhhHhH--hhCcCCCC-CCCcEEEEecCC
Q 046770          305 FLLVLDDVWNENYNDWID--LSRPFQDG-APGSKIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~ilvTtR~  342 (475)
                      -||||||+.......|..  +...+... .+.--+|+||..
T Consensus       165 dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        165 DLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            699999996544344543  32222211 223456777765

>PRK08118 topology modulation protein; Reviewed

Probab=97.49  E-value=5.5e-05  Score=66.33  Aligned_cols=34  Identities=35%  Similarity=0.619  Sum_probs=27.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccc-cCcCeEEE
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFDLKAW  259 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~w  259 (475)
                      -|.|+|++|+||||||+.+++..... .+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            57899999999999999999865443 45666665

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.48  E-value=0.0015  Score=72.03  Aligned_cols=140  Identities=16%  Similarity=0.146  Sum_probs=75.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|.+.-++.|...+.....+ ...+....++.++|+.|+|||+||+.+++..-  ..-...+.++++.-.. .    
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~--~~~~~~i~id~se~~~-~----  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMF--DSDDAMVRIDMSEFME-K----  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhh--cCCCcEEEEEhHHhhh-h----
Confidence            35889998888888887641110 00002235788999999999999999986321  1112233344433211 1    


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCc-eEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEecC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGK-RFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITTR  341 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTtR  341 (475)
                      .....+.+..++....+. ...+.+.+..+ .-+|+|||+...+...+..++..+..+           ...+-||+||.
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            112222222222111111 11233333223 359999999877777777776655432           12233788887


Q ss_pred             C
Q 046770          342 N  342 (475)
Q Consensus       342 ~  342 (475)
                      .
T Consensus       720 ~  720 (857)
T PRK10865        720 L  720 (857)
T ss_pred             c
Confidence            5

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.46  E-value=0.0064  Score=59.50  Aligned_cols=94  Identities=12%  Similarity=0.059  Sum_probs=65.9

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      +++=++|||+++..+...-..++..+..-..++.+|++|.+. .+. ...+....+.+.+++.+++.+.+.....     
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~~-----  181 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREVT-----  181 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHccC-----
Confidence            566699999998877777888888887655677777777653 333 3334456789999999999988865421     


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                       .+   .+.+..++..++|.|..+.
T Consensus       182 -~~---~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        182 -MS---QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             -CC---HHHHHHHHHHcCCCHHHHH
Confidence             11   2235568899999997443

>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=97.46  E-value=0.0032  Score=61.64  Aligned_cols=74  Identities=15%  Similarity=0.313  Sum_probs=44.0

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc--cCc---CeEEEEEecCCCCHHHHHHHH
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ--CHF---DLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--~~F---~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      +.-.+.|.+.+.+.+.     ....+|+|.|.=|+||||+.+.+.+..+..  ..+   ..-+|-......-...++..+
T Consensus         2 ~~~a~~la~~I~~~~~-----~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l   76 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDS-----DDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEEL   76 (325)
T ss_pred             hHHHHHHHHHHhccCC-----CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHH
Confidence            3445667777765221     356899999999999999999987754332  111   233444444333334445555


Q ss_pred             HHHh
Q 046770          276 LRSV  279 (475)
Q Consensus       276 l~~l  279 (475)
                      ..++
T Consensus        77 ~~~l   80 (325)
T PF07693_consen   77 FDQL   80 (325)
T ss_pred             HHHH
Confidence            4444

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 [].

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.44  E-value=0.00062  Score=62.66  Aligned_cols=207  Identities=14%  Similarity=0.130  Sum_probs=119.0

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc----ccccCcCeEEEEEecCC-------
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS----RVQCHFDLKAWTYVSQD-------  265 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~----~~~~~F~~~~wv~v~~~-------  265 (475)
                      +.++++....+......        ++.+-+.++|+.|.||-|.+..+.++.    -.+-.-+.+.|.+-+..       
T Consensus        15 l~~~~e~~~~Lksl~~~--------~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistv   86 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSST--------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTV   86 (351)
T ss_pred             cccHHHHHHHHHHhccc--------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEe
Confidence            56667777777776543        456789999999999998876655431    11112234444433322       


Q ss_pred             ---C-----------CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceE-EEEEECCCCCChhhHhHhhCcCCCC
Q 046770          266 ---F-----------DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRF-LLVLDDVWNENYNDWIDLSRPFQDG  330 (475)
Q Consensus       266 ---~-----------~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~~  330 (475)
                         +           ...-+..+++.+......-.            .-..+.| ++||-.+.+...+....++..+..-
T Consensus        87 sS~yHlEitPSDaG~~DRvViQellKevAQt~qie------------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkY  154 (351)
T KOG2035|consen   87 SSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIE------------TQGQRPFKVVVINEADELTRDAQHALRRTMEKY  154 (351)
T ss_pred             cccceEEeChhhcCcccHHHHHHHHHHHHhhcchh------------hccccceEEEEEechHhhhHHHHHHHHHHHHHH
Confidence               1           12233444444433221100            0012344 6677777655555666666666544


Q ss_pred             CCCcEEEEecCCh--HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          331 APGSKIIITTRNA--DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       331 ~~gs~ilvTtR~~--~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      ...+|+|+...+.  -+...-+..-.+++...+++|....+.+.+-..+- .   .-.+++.+|+++++|+---...+..
T Consensus       155 s~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l-~---lp~~~l~rIa~kS~~nLRrAllmlE  230 (351)
T KOG2035|consen  155 SSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGL-Q---LPKELLKRIAEKSNRNLRRALLMLE  230 (351)
T ss_pred             hcCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcc-c---CcHHHHHHHHHHhcccHHHHHHHHH
Confidence            5678888765542  12222223345788999999999999877644321 1   1268899999999998665555554


Q ss_pred             HhcCC---C-------ChhHHHHHHhccc
Q 046770          409 LLHGK---Y-------DPSDWESVLNSRI  427 (475)
Q Consensus       409 ~L~~~---~-------~~~~w~~~l~~~~  427 (475)
                      .++-+   .       ..-+|...+.+..
T Consensus       231 ~~~~~n~~~~a~~~~i~~~dWe~~i~e~a  259 (351)
T KOG2035|consen  231 AVRVNNEPFTANSQVIPKPDWEIYIQEIA  259 (351)
T ss_pred             HHHhccccccccCCCCCCccHHHHHHHHH
Confidence            44432   1       1347887766533

>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=97.43  E-value=0.00024  Score=65.39  Aligned_cols=35  Identities=31%  Similarity=0.332  Sum_probs=28.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV  262 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  262 (475)
                      .++|+|..|+|||||+..+..+  ....|.++.+++-
T Consensus        15 r~viIG~sGSGKT~li~~lL~~--~~~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYY--LRHKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHh--hcccCCEEEEEec
Confidence            5779999999999999999874  5667877766644

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

>PRK08181 transposase; Validated

Probab=97.41  E-value=0.00029  Score=66.48  Aligned_cols=100  Identities=20%  Similarity=0.070  Sum_probs=53.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceE
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRF  305 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~  305 (475)
                      -+.|+|++|+|||.||..+.+..  ......+.|++      ..+++..+....     ...........+     .+.=
T Consensus       108 nlll~Gp~GtGKTHLa~Aia~~a--~~~g~~v~f~~------~~~L~~~l~~a~-----~~~~~~~~l~~l-----~~~d  169 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGLAL--IENGWRVLFTR------TTDLVQKLQVAR-----RELQLESAIAKL-----DKFD  169 (269)
T ss_pred             eEEEEecCCCcHHHHHHHHHHHH--HHcCCceeeee------HHHHHHHHHHHH-----hCCcHHHHHHHH-----hcCC
Confidence            48999999999999999998742  22222344543      234444443221     111222222222     2334


Q ss_pred             EEEEECCCCCChhhHh--HhhCcCCCCCCCcEEEEecCCh
Q 046770          306 LLVLDDVWNENYNDWI--DLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       306 LlVlDdv~~~~~~~~~--~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      ||||||+.......|.  .+...+.....+..+|+||..+
T Consensus       170 LLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        170 LLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             EEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            9999999654333332  2333332211224688888764

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.0018  Score=60.90  Aligned_cols=80  Identities=11%  Similarity=0.149  Sum_probs=49.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccc--cCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQ--CHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      .++|.++||+|.|||+|.+.+++...++  +.|....-+.++.    ..++.+-..+      ...-...+.+++++.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsE------SgKlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSE------SGKLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhh------hhhHHHHHHHHHHHHHh
Confidence            3789999999999999999999875443  3333333333322    2233322222      23345566777888887


Q ss_pred             CceE--EEEEECCC
Q 046770          302 GKRF--LLVLDDVW  313 (475)
Q Consensus       302 ~kr~--LlVlDdv~  313 (475)
                      ++..  ++.+|.|.
T Consensus       247 d~~~lVfvLIDEVE  260 (423)
T KOG0744|consen  247 DRGNLVFVLIDEVE  260 (423)
T ss_pred             CCCcEEEEEeHHHH
Confidence            6643  44569883

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.40  E-value=0.00078  Score=68.01  Aligned_cols=152  Identities=16%  Similarity=0.203  Sum_probs=82.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++||++.++.+...+.. +         .-|.|.|++|+|||+||+.+.........|.... +..+   .+.+++..+
T Consensus        21 ~i~gre~vI~lll~aala-g---------~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~-~~ft---tp~DLfG~l   86 (498)
T PRK13531         21 GLYERSHAIRLCLLAALS-G---------ESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLM-TRFS---TPEEVFGPL   86 (498)
T ss_pred             hccCcHHHHHHHHHHHcc-C---------CCEEEECCCChhHHHHHHHHHHHhcccCcceeee-eeec---CcHHhcCcH
Confidence            589999999999888766 2         2478999999999999999987432222343111 0001   122222211


Q ss_pred             -HHHhhcCCCCCCChHHHHHHHHHHhCC---ceEEEEEECCCCCChhhHhHhhCcCCCC---------CCCcEEEEecCC
Q 046770          276 -LRSVAMGIVDHNDLNLLQWKLKKQLFG---KRFLLVLDDVWNENYNDWIDLSRPFQDG---------APGSKIIITTRN  342 (475)
Q Consensus       276 -l~~l~~~~~~~~~~~~l~~~l~~~l~~---kr~LlVlDdv~~~~~~~~~~l~~~l~~~---------~~gs~ilvTtR~  342 (475)
                       +.....    ..       .+.....|   ..-++++|+++..+......++..+...         ....++++++.+
T Consensus        87 ~i~~~~~----~g-------~f~r~~~G~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN  155 (498)
T PRK13531         87 SIQALKD----EG-------RYQRLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASN  155 (498)
T ss_pred             HHhhhhh----cC-------chhhhcCCccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECC
Confidence             111100    00       01111122   1128999999988776666666655321         112356555555


Q ss_pred             hHH-------HHhcCCCceeeCCCCCH-HHHHHHHhhc
Q 046770          343 ADA-------ALIMGTVQAYPLKGLSN-DDCMCLFTQH  372 (475)
Q Consensus       343 ~~v-------~~~~~~~~~~~l~~L~~-~~~~~lf~~~  372 (475)
                      +-.       +....-.-.+.+.+++. ++-.+++...
T Consensus       156 ~LPE~g~~leAL~DRFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        156 ELPEADSSLEALYDRMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             CCcccCCchHHhHhhEEEEEECCCCCchHHHHHHHHcc
Confidence            321       11111123578899975 4447777653

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.39  E-value=0.00052  Score=71.58  Aligned_cols=44  Identities=27%  Similarity=0.377  Sum_probs=35.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +++|.+..++.+...+..        ....-+.|+|++|+|||++|+.+++.
T Consensus        66 ~iiGqs~~i~~l~~al~~--------~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCG--------PNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HeeCcHHHHHHHHHHHhC--------CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            589999999999887655        22345689999999999999999763

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.39  E-value=0.0011  Score=73.32  Aligned_cols=140  Identities=16%  Similarity=0.151  Sum_probs=77.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCC-CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTS-HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|.+..++.+...+.....+- ..+....++.++|+.|+|||++|+.+....  ...-...+.++.+.......   
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l--~~~~~~~i~~d~s~~~~~~~---  639 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL--FDDEDAMVRIDMSEYMEKHS---  639 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh--cCCCCcEEEEechhhcccch---
Confidence            358999999999988886521110 001234578899999999999999998732  11112233344443222111   


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCc-eEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGK-RFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTR  341 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR  341 (475)
                        ...+.+..++.-..++ ...+.+.+..+ ..+|+||++...+...+..++..|..+.           ..+-||+||.
T Consensus       640 --~~~l~g~~~g~~g~~~-~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn  716 (852)
T TIGR03346       640 --VARLIGAPPGYVGYEE-GGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSN  716 (852)
T ss_pred             --HHHhcCCCCCccCccc-ccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCC
Confidence              1122222111111110 11233333223 3489999998888778887777664331           2344788887


Q ss_pred             C
Q 046770          342 N  342 (475)
Q Consensus       342 ~  342 (475)
                      .
T Consensus       717 ~  717 (852)
T TIGR03346       717 L  717 (852)
T ss_pred             c
Confidence            5

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=97.37  E-value=0.00065  Score=74.62  Aligned_cols=138  Identities=15%  Similarity=0.141  Sum_probs=76.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|-+..++.+.+.+.....+ ........++.++|+.|+|||.||+.+....  -......+-++++.....     
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l--~~~~~~~~~~dmse~~~~-----  638 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL--YGGEQNLITINMSEFQEA-----  638 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH--hCCCcceEEEeHHHhhhh-----
Confidence            46899999999998888541111 0111345688999999999999998887632  111111222222221110     


Q ss_pred             HHHHHhhcCCCC---CCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEe
Q 046770          274 SILRSVAMGIVD---HNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIIT  339 (475)
Q Consensus       274 ~il~~l~~~~~~---~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvT  339 (475)
                      .-...+.+..++   ......+...+++   ...-+|+||++...+...+..++..+..+.           ..+-||+|
T Consensus       639 ~~~~~l~g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       639 HTVSRLKGSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             hhhccccCCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence            111122222211   1111223333332   345699999998777777777766655432           45677888


Q ss_pred             cCC
Q 046770          340 TRN  342 (475)
Q Consensus       340 tR~  342 (475)
                      |..
T Consensus       716 SNl  718 (852)
T TIGR03345       716 SNA  718 (852)
T ss_pred             CCC
Confidence            775

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.36  E-value=0.00088  Score=63.38  Aligned_cols=99  Identities=18%  Similarity=0.231  Sum_probs=52.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.++|..|+|||.||..+++... ..+-..+++++..      +++..+...+          ......+.. + .+-
T Consensus       118 ~~l~l~G~~G~GKThLa~aia~~l~-~~~g~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~~-~-~~~  178 (266)
T PRK06921        118 NSIALLGQPGSGKTHLLTAAANELM-RKKGVPVLYFPFV------EGFGDLKDDF----------DLLEAKLNR-M-KKV  178 (266)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHh-hhcCceEEEEEHH------HHHHHHHHHH----------HHHHHHHHH-h-cCC
Confidence            5688999999999999999998532 2212345565532      2333332221          111122222 2 234


Q ss_pred             EEEEEECCC-----CCChhhHhH--hhCcCCCC-CCCcEEEEecCC
Q 046770          305 FLLVLDDVW-----NENYNDWID--LSRPFQDG-APGSKIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~-----~~~~~~~~~--l~~~l~~~-~~gs~ilvTtR~  342 (475)
                      =||||||+.     .+....|..  +...+... ..+..+|+||..
T Consensus       179 dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        179 EVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             CEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            599999993     222234442  33322211 134567888875

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.34  E-value=0.00093  Score=64.47  Aligned_cols=122  Identities=15%  Similarity=0.183  Sum_probs=69.0

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH
Q 046770          199 GRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS  278 (475)
Q Consensus       199 GR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~  278 (475)
                      +|..-.....+++..-...    ....-+.|+|..|+|||.||..+++... ...+. +.+++++      +++..+-..
T Consensus       135 ~~~~~~~~~~~fi~~~~~~----~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g~~-v~~~~~~------~l~~~lk~~  202 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPG----EKVKGLYLYGDFGVGKSYLLAAIANELA-KKGVS-STLLHFP------EFIRELKNS  202 (306)
T ss_pred             HHHHHHHHHHHHHHHhhcc----CCCCeEEEECCCCCCHHHHHHHHHHHHH-HcCCC-EEEEEHH------HHHHHHHHH
Confidence            4444445555555431110    1335688999999999999999998542 22233 4455443      444554444


Q ss_pred             hhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhH--hhCcCC-CC-CCCcEEEEecCC
Q 046770          279 VAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWID--LSRPFQ-DG-APGSKIIITTRN  342 (475)
Q Consensus       279 l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~~l~-~~-~~gs~ilvTtR~  342 (475)
                      +...     +..   ..+.. + .+-=||||||+..+....|..  ++..+. .. ..+-.+|+||..
T Consensus       203 ~~~~-----~~~---~~l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        203 ISDG-----SVK---EKIDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HhcC-----cHH---HHHHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            3211     122   22322 2 245599999998776667764  444432 11 245678888875

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.32  E-value=0.00022  Score=63.24  Aligned_cols=101  Identities=23%  Similarity=0.280  Sum_probs=50.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .-+.|+|+.|+|||.||..+.+... ...+ .+.|++.      .+    ++..+.... ........   +....  +-
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~-~~g~-~v~f~~~------~~----L~~~l~~~~-~~~~~~~~---~~~l~--~~  109 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAI-RKGY-SVLFITA------SD----LLDELKQSR-SDGSYEEL---LKRLK--RV  109 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH-HTT---EEEEEH------HH----HHHHHHCCH-CCTTHCHH---HHHHH--TS
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhc-cCCc-ceeEeec------Cc----eeccccccc-cccchhhh---cCccc--cc
Confidence            4589999999999999999987432 2222 3455543      23    333333322 12222222   33332  23


Q ss_pred             EEEEEECCCCCChhhHhH--hhCcCCCCCCCcEEEEecCCh
Q 046770          305 FLLVLDDVWNENYNDWID--LSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~--l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      =||||||+.......|..  +...+........+|+||...
T Consensus       110 dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  110 DLLILDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             SCEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             cEecccccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            488899997665445442  111111111123578888753

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.

>PRK06526 transposase; Provisional

Probab=97.32  E-value=0.0003  Score=65.98  Aligned_cols=100  Identities=20%  Similarity=0.166  Sum_probs=51.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .-+.|+|++|+|||+||..+..... ...+. +.|+      +..+++..+.....    . ..   +...+...  .+.
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~-~~g~~-v~f~------t~~~l~~~l~~~~~----~-~~---~~~~l~~l--~~~  160 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRAC-QAGHR-VLFA------TAAQWVARLAAAHH----A-GR---LQAELVKL--GRY  160 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHH-HCCCc-hhhh------hHHHHHHHHHHHHh----c-Cc---HHHHHHHh--ccC
Confidence            4579999999999999999876432 12222 2232      23344444432211    1 11   22233332  234


Q ss_pred             EEEEEECCCCCChhhHh--HhhCcCCC-CCCCcEEEEecCCh
Q 046770          305 FLLVLDDVWNENYNDWI--DLSRPFQD-GAPGSKIIITTRNA  343 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~ilvTtR~~  343 (475)
                      -||||||+.......+.  .+...+.. ...+ .+|+||..+
T Consensus       161 dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~-s~IitSn~~  201 (254)
T PRK06526        161 PLLIVDEVGYIPFEPEAANLFFQLVSSRYERA-SLIVTSNKP  201 (254)
T ss_pred             CEEEEcccccCCCCHHHHHHHHHHHHHHHhcC-CEEEEcCCC
Confidence            58999999754322222  22222221 1123 488888764

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.30  E-value=0.0019  Score=63.05  Aligned_cols=93  Identities=17%  Similarity=0.298  Sum_probs=64.8

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF  379 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  379 (475)
                      ++.=++|||+++..+......++..+..-..++.+|++|.+ ..+. ...+....+.+.+++.++..+.+.....     
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~~-----  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQGV-----  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcCC-----
Confidence            44558899999988888889998888766667766666655 3332 3334457899999999999999976521     


Q ss_pred             CCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          380 SMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       380 ~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                        .+     ...++..++|.|+.+..+
T Consensus       206 --~~-----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 --AD-----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             --Ch-----HHHHHHHcCCCHHHHHHH
Confidence              11     122577789999755433

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.28  E-value=0.0017  Score=63.47  Aligned_cols=146  Identities=13%  Similarity=0.083  Sum_probs=82.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc-------------------CcCe
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC-------------------HFDL  256 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~  256 (475)
                      .++|-+....++..+.....      .....+.++|++|+||||+|..+.+..--..                   ....
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~------~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d   75 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG------RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPD   75 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC------CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCc
Confidence            35667777888888887511      1223589999999999999999887421111                   0112


Q ss_pred             EEEEEecCCCC---HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCC
Q 046770          257 KAWTYVSQDFD---IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPG  333 (475)
Q Consensus       257 ~~wv~v~~~~~---~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  333 (475)
                      ...+.-+....   ..+.++.+.+.......                .++.-+++||++...+.+.-..++..+......
T Consensus        76 ~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~  139 (325)
T COG0470          76 FLELNPSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKN  139 (325)
T ss_pred             eEEecccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCC
Confidence            22222222222   12222222222211100                256679999999777666666777777766677


Q ss_pred             cEEEEecCCh-HHHH-hcCCCceeeCCCCCHH
Q 046770          334 SKIIITTRNA-DAAL-IMGTVQAYPLKGLSND  363 (475)
Q Consensus       334 s~ilvTtR~~-~v~~-~~~~~~~~~l~~L~~~  363 (475)
                      +.+|++|... .+.. .......+++.+.+..
T Consensus       140 ~~~il~~n~~~~il~tI~SRc~~i~f~~~~~~  171 (325)
T COG0470         140 TRFILITNDPSKILPTIRSRCQRIRFKPPSRL  171 (325)
T ss_pred             eEEEEEcCChhhccchhhhcceeeecCCchHH
Confidence            8888888743 2222 2223355667664433

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.26  E-value=0.00061  Score=61.27  Aligned_cols=131  Identities=22%  Similarity=0.234  Sum_probs=63.4

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEec----CC--C---CHH
Q 046770          199 GRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS----QD--F---DII  269 (475)
Q Consensus       199 GR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~----~~--~---~~~  269 (475)
                      .+..+-...++.|.+          ..++.+.|++|.|||.||....-+.-..+.|+..+++.-.    +.  |   +..
T Consensus         4 p~~~~Q~~~~~al~~----------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~   73 (205)
T PF02562_consen    4 PKNEEQKFALDALLN----------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLE   73 (205)
T ss_dssp             --SHHHHHHHHHHHH-----------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS-----
T ss_pred             CCCHHHHHHHHHHHh----------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHH
Confidence            445556666777764          2489999999999999998877654344667766665321    11  0   111


Q ss_pred             H----HHHHHHHHhhcCCCCCCChHHHHHH------HHHHhCCc---eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEE
Q 046770          270 R----VTKSILRSVAMGIVDHNDLNLLQWK------LKKQLFGK---RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKI  336 (475)
Q Consensus       270 ~----~l~~il~~l~~~~~~~~~~~~l~~~------l~~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  336 (475)
                      +    .+.-+...+..-. .....+.+...      --.+++|+   ..+||+|++.+.+..++..++.-   .+.+|++
T Consensus        74 eK~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~ski  149 (205)
T PF02562_consen   74 EKMEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKI  149 (205)
T ss_dssp             ----TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EE
T ss_pred             HHHHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEE
Confidence            1    1111111111111 12222222210      01234555   46999999988877777766544   4578999


Q ss_pred             EEecCCh
Q 046770          337 IITTRNA  343 (475)
Q Consensus       337 lvTtR~~  343 (475)
                      |++--..
T Consensus       150 i~~GD~~  156 (205)
T PF02562_consen  150 IITGDPS  156 (205)
T ss_dssp             EEEE---
T ss_pred             EEecCce
Confidence            9998654

; GO: 0005524 ATP binding; PDB: 3B85_A.

>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=97.25  E-value=9.5e-05  Score=62.72  Aligned_cols=86  Identities=23%  Similarity=0.073  Sum_probs=45.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEE
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFL  306 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~L  306 (475)
                      |.|+|++|+|||+||+.++.-.  .   ....-+.++...+..+++...--. ....  ......+...+     .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~--~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~~--~~~~~~l~~a~-----~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL--G---RPVIRINCSSDTTEEDLIGSYDPS-NGQF--EFKDGPLVRAM-----RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH--T---CEEEEEE-TTTSTHHHHHCEEET--TTTT--CEEE-CCCTTH-----HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHh--h---cceEEEEeccccccccceeeeeec-cccc--ccccccccccc-----cceeE
Confidence            6799999999999999998732  1   123345677777766554322211 0000  00000000001     17889


Q ss_pred             EEEECCCCCChhhHhHhhC
Q 046770          307 LVLDDVWNENYNDWIDLSR  325 (475)
Q Consensus       307 lVlDdv~~~~~~~~~~l~~  325 (475)
                      +|||++...+...+..+..
T Consensus        69 l~lDEin~a~~~v~~~L~~   87 (139)
T PF07728_consen   69 LVLDEINRAPPEVLESLLS   87 (139)
T ss_dssp             EEESSCGG--HHHHHTTHH
T ss_pred             EEECCcccCCHHHHHHHHH
Confidence            9999997555444444433

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.

>PRK09183 transposase/IS protein; Provisional

Probab=97.25  E-value=0.00093  Score=63.00  Aligned_cols=100  Identities=15%  Similarity=0.186  Sum_probs=50.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|++|+|||+||..+..... ...+ .+.+++      ..+++..+-.....     ..   +...++..+ .+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~-~~G~-~v~~~~------~~~l~~~l~~a~~~-----~~---~~~~~~~~~-~~~  165 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV-RAGI-KVRFTT------AADLLLQLSTAQRQ-----GR---YKTTLQRGV-MAP  165 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH-HcCC-eEEEEe------HHHHHHHHHHHHHC-----Cc---HHHHHHHHh-cCC
Confidence            3577999999999999999976321 1222 223332      22333333222111     11   122233322 344


Q ss_pred             EEEEEECCCCCChhhHh--HhhCcCCCC-CCCcEEEEecCC
Q 046770          305 FLLVLDDVWNENYNDWI--DLSRPFQDG-APGSKIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~ilvTtR~  342 (475)
                      -++||||+.......+.  .+...+... ..+ .+|+||..
T Consensus       166 dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~-s~iiTsn~  205 (259)
T PRK09183        166 RLLIIDEIGYLPFSQEEANLFFQVIAKRYEKG-SMILTSNL  205 (259)
T ss_pred             CEEEEcccccCCCChHHHHHHHHHHHHHHhcC-cEEEecCC
Confidence            59999999754322222  233322211 124 47888875

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.24  E-value=0.0016  Score=63.67  Aligned_cols=101  Identities=19%  Similarity=0.195  Sum_probs=63.1

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCe-EEEEEecCC-CCHHHHHHHHHHHhhc
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDL-KAWTYVSQD-FDIIRVTKSILRSVAM  281 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~v~~~-~~~~~~l~~il~~l~~  281 (475)
                      ..++++.+.....      . .-+.|+|.+|+|||||++.+++... ..+-+. ++|+.+.+. ..+.++++.+...+..
T Consensus       120 ~~RvID~l~PiGk------G-QR~LIvG~pGtGKTTLl~~la~~i~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vva  191 (380)
T PRK12608        120 SMRVVDLVAPIGK------G-QRGLIVAPPRAGKTVLLQQIAAAVA-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYA  191 (380)
T ss_pred             hHhhhhheeecCC------C-ceEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEe
Confidence            3558888876322      1 2458999999999999999887431 122233 467666654 4677888888776665


Q ss_pred             CCCCCCChHH-----HHHHHHHHh--CCceEEEEEECC
Q 046770          282 GIVDHNDLNL-----LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       282 ~~~~~~~~~~-----l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ...+......     ....+-+.+  +|++.+||+|++
T Consensus       192 st~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsl  229 (380)
T PRK12608        192 STFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSL  229 (380)
T ss_pred             ecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence            4322222111     111122222  689999999998

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.22  E-value=0.0055  Score=58.20  Aligned_cols=174  Identities=21%  Similarity=0.162  Sum_probs=95.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH-HHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI-IRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~-~~~l~  273 (475)
                      ..++|-.++...+-.|+......    ++...|.|+|+.|.|||+|......+  .+..=+...-|........ .-.++
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~----gEsnsviiigprgsgkT~li~~~Ls~--~q~~~E~~l~v~Lng~~~~dk~al~   97 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILH----GESNSVIIIGPRGSGKTILIDTRLSD--IQENGENFLLVRLNGELQTDKIALK   97 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHh----cCCCceEEEccCCCCceEeeHHHHhh--HHhcCCeEEEEEECccchhhHHHHH
Confidence            35788888888888777541111    23346789999999999999888876  2222233344444443322 23556


Q ss_pred             HHHHHhhcCC----CCCCChHHHHHHHHHHhC------CceEEEEEECCCCCChh----hHhHhhCcCC-CCCCCcEEEE
Q 046770          274 SILRSVAMGI----VDHNDLNLLQWKLKKQLF------GKRFLLVLDDVWNENYN----DWIDLSRPFQ-DGAPGSKIII  338 (475)
Q Consensus       274 ~il~~l~~~~----~~~~~~~~l~~~l~~~l~------~kr~LlVlDdv~~~~~~----~~~~l~~~l~-~~~~gs~ilv  338 (475)
                      .|.+++..+.    ....+..+...+|-..|+      +-++++|+|+++-....    -.-.+...-. ...+-|-|-+
T Consensus        98 ~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~  177 (408)
T KOG2228|consen   98 GITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGV  177 (408)
T ss_pred             HHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEe
Confidence            6666554332    112222222333333332      23688888887432111    1111111111 2234567789


Q ss_pred             ecCChHHH-------HhcCCCceeeCCCCCHHHHHHHHhhccc
Q 046770          339 TTRNADAA-------LIMGTVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       339 TtR~~~v~-------~~~~~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      |||-....       .......++-+..++-++...++++...
T Consensus       178 Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  178 TTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             eccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence            99974322       2222223566677888999999988763

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.21  E-value=0.0011  Score=61.72  Aligned_cols=102  Identities=14%  Similarity=0.140  Sum_probs=56.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.++|.+|+|||+||..+++....  .-..+++++      ..+++..+-.....   .......    +.+.+. +.
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~--~g~~v~~it------~~~l~~~l~~~~~~---~~~~~~~----~l~~l~-~~  163 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLL--RGKSVLIIT------VADIMSAMKDTFSN---SETSEEQ----LLNDLS-NV  163 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEE------HHHHHHHHHHHHhh---ccccHHH----HHHHhc-cC
Confidence            46889999999999999999985322  222344543      34444444333321   1112222    222333 34


Q ss_pred             EEEEEECCCCCChhhHhH--hhCcCCC-CCCCcEEEEecCC
Q 046770          305 FLLVLDDVWNENYNDWID--LSRPFQD-GAPGSKIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~ilvTtR~  342 (475)
                      =||||||+.......|..  +...+.. -...-.+|+||..
T Consensus       164 dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        164 DLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            488999997665555653  2222221 1223467777765

>PRK04296 thymidine kinase; Provisional

Probab=97.20  E-value=0.00061  Score=61.14  Aligned_cols=112  Identities=10%  Similarity=-0.064  Sum_probs=59.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCC--CCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVD--HNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~--~~~~~~l~~~l~~~l~~  302 (475)
                      .++.|+|+.|.||||++..++...  ..+-..+..+.  ..++.......++..++.....  ......+...+.+ ..+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~--~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~   77 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNY--EERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE   77 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH--HHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence            478899999999999998887632  22222223231  1112111122334444322111  1233444555554 334


Q ss_pred             ceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          303 KRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       303 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      +.-+||+|.+.-.+.+...++...+  ...|..||+|.+..
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            4559999999654332233333332  23578999999874

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.0012  Score=70.21  Aligned_cols=125  Identities=17%  Similarity=0.231  Sum_probs=77.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCc---CeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF---DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~v~~~~~~~~  270 (475)
                      ..++|-+..+..+.+.+.....+ ...+..+.+...+||.|+|||-||+.++..     -|   +..+-++.|+...   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~DMSEy~E---  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRIDMSEYME---  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceeechHHHHH---
Confidence            46899999999988887642211 112245677888999999999999998763     13   2233333333211   


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceE-EEEEECCCCCChhhHhHhhCcCCCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRF-LLVLDDVWNENYNDWIDLSRPFQDG  330 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~~  330 (475)
                        +.-+..|-+..++--..++ ...|-+....++| +|.||++....++-+.-++..|.++
T Consensus       563 --kHsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG  620 (786)
T COG0542         563 --KHSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG  620 (786)
T ss_pred             --HHHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence              2223344444443222222 2356666677888 7788999888777777777777644

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.18  E-value=0.0022  Score=58.00  Aligned_cols=122  Identities=21%  Similarity=0.258  Sum_probs=68.9

Q ss_pred             cccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHH
Q 046770          192 VHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       192 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      ++-..++|-+...+.|++-...--.+    ....-|.+||-.|+|||+|++.+.+..  ....--  -|.|...      
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G----~pANnVLLwGaRGtGKSSLVKA~~~e~--~~~glr--LVEV~k~------  122 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEG----LPANNVLLWGARGTGKSSLVKALLNEY--ADEGLR--LVEVDKE------  122 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcC----CcccceEEecCCCCChHHHHHHHHHHH--HhcCCe--EEEEcHH------
Confidence            44457899998888887654321111    233468899999999999999998843  222211  2222220      


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCC-CCChhhHhHhhCcCCCC---CCCcEEEEecCC
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVW-NENYNDWIDLSRPFQDG---APGSKIIITTRN  342 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~-~~~~~~~~~l~~~l~~~---~~gs~ilvTtR~  342 (475)
                                   +..++..+...|+.  ...||+|..||+- +.....+..+...|..+   .+...++..|.+
T Consensus       123 -------------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSN  182 (287)
T COG2607         123 -------------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSN  182 (287)
T ss_pred             -------------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecC
Confidence                         11111222222222  3578999999983 22334677777666532   233344544544

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.16  E-value=0.00041  Score=67.48  Aligned_cols=52  Identities=15%  Similarity=0.253  Sum_probs=41.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+++|-++.++++++++.....+..  ..-+++.|+|++|+||||||+.+.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~--~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLE--ERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCC--CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3799999999999999976332212  345889999999999999999998743

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

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.16  E-value=0.0013  Score=60.10  Aligned_cols=86  Identities=15%  Similarity=0.131  Sum_probs=51.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh----hcCC--CCCCChH---HHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV----AMGI--VDHNDLN---LLQ  293 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l----~~~~--~~~~~~~---~l~  293 (475)
                      .-+++.|+|++|+|||+++.+++.+.  ...-..++|++... ++...+.+. ....    ..+.  ....+..   ...
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~--~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~   86 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA--ARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVAI   86 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHHH
Confidence            34799999999999999999987642  23346789998876 665554432 2221    1110  0111222   234


Q ss_pred             HHHHHHhCC-ceEEEEEECC
Q 046770          294 WKLKKQLFG-KRFLLVLDDV  312 (475)
Q Consensus       294 ~~l~~~l~~-kr~LlVlDdv  312 (475)
                      ..+.+.+.. +.-+||+|.+
T Consensus        87 ~~l~~~~~~~~~~lvVIDSi  106 (209)
T TIGR02237        87 QKTSKFIDRDSASLVVVDSF  106 (209)
T ss_pred             HHHHHHHhhcCccEEEEeCc
Confidence            444444533 4568999998

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

>PRK07261 topology modulation protein; Provisional

Probab=97.15  E-value=0.0012  Score=58.18  Aligned_cols=22  Identities=41%  Similarity=0.643  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|+|++|+||||||+.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998764

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.14  E-value=0.00057  Score=66.50  Aligned_cols=102  Identities=18%  Similarity=0.203  Sum_probs=53.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.++|..|+|||.||..+++... ... ..++++++..      ++..+...-. .  ...+...   .+.. +. .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~-~~g-~~V~y~t~~~------l~~~l~~~~~-~--~~~~~~~---~~~~-l~-~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELL-DRG-KSVIYRTADE------LIEILREIRF-N--NDKELEE---VYDL-LI-NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH-HCC-CeEEEEEHHH------HHHHHHHHHh-c--cchhHHH---HHHH-hc-cC
Confidence            4689999999999999999988532 222 2455554432      3333322111 1  1111111   1222 22 22


Q ss_pred             EEEEEECCCCCChhhHhH--hhCcCCCC-CCCcEEEEecCC
Q 046770          305 FLLVLDDVWNENYNDWID--LSRPFQDG-APGSKIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~ilvTtR~  342 (475)
                      =||||||+.......|..  +...+... ..+..+||||..
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            489999997654334432  33333211 234568888875

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.13  E-value=0.0038  Score=57.10  Aligned_cols=178  Identities=15%  Similarity=0.128  Sum_probs=94.2

Q ss_pred             ccccccchhHH---HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHH
Q 046770          195 AKVYGRSKERE---EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       195 ~~~vGR~~e~~---~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      .+++|.+..+.   -|++.|.+...-+.  .-++-|..+|++|.|||.+|+.+++..++  .|     +.+..    .++
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~--WAPknVLFyGppGTGKTm~Akalane~kv--p~-----l~vka----t~l  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGD--WAPKNVLFYGPPGTGKTMMAKALANEAKV--PL-----LLVKA----TEL  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcc--cCcceeEEECCCCccHHHHHHHHhcccCC--ce-----EEech----HHH
Confidence            46888776543   35667766332233  45678999999999999999999995432  22     22211    111


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC------------hhhHhHhhCcCC--CCCCCcEEE
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN------------YNDWIDLSRPFQ--DGAPGSKII  337 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~------------~~~~~~l~~~l~--~~~~gs~il  337 (475)
                         |-+..+      +...+..+...+.-+.-+|++.||.+.-..            .+....++..+.  ..+.|...|
T Consensus       188 ---iGehVG------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         188 ---IGEHVG------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             ---HHHHhh------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence               111111      111222222223334568999999983210            011223333332  234576777


Q ss_pred             EecCChHHHHhc---CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc
Q 046770          338 ITTRNADAALIM---GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL  399 (475)
Q Consensus       338 vTtR~~~v~~~~---~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~  399 (475)
                      -.|...+.....   .-...++.+--+.++-..++...+-.-.-     ....-.+.++++.+|+
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Pl-----pv~~~~~~~~~~t~g~  318 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPL-----PVDADLRYLAAKTKGM  318 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCC-----ccccCHHHHHHHhCCC
Confidence            777766544321   11244666666778888888776532211     1111134466666665

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.0038  Score=61.37  Aligned_cols=90  Identities=11%  Similarity=0.130  Sum_probs=48.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHh
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL  300 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l  300 (475)
                      +.++|+|+|++|+||||++..++.... ...+ .+..++.. ++.  ..+-+....+.++.......+...+...+...-
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~-~~Gk-kVglI~aD-t~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk  316 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKK-TVGFITTD-HSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFK  316 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH-HcCC-cEEEEecC-CcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHH
Confidence            457999999999999999999876332 1112 23334332 232  222333333333322222345555555555443


Q ss_pred             CC-ceEEEEEECCCCC
Q 046770          301 FG-KRFLLVLDDVWNE  315 (475)
Q Consensus       301 ~~-kr~LlVlDdv~~~  315 (475)
                      .. +.=+|++|-....
T Consensus       317 ~~~~~DvVLIDTaGRs  332 (436)
T PRK11889        317 EEARVDYILIDTAGKN  332 (436)
T ss_pred             hccCCCEEEEeCcccc
Confidence            21 2237778877543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.12  E-value=0.007  Score=66.08  Aligned_cols=182  Identities=15%  Similarity=0.100  Sum_probs=93.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|.+..++.|.+.+.-.-..     .-.....+-+.++|++|+|||+||+.+++..  ...|     +.+..    .
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~--~~~f-----i~v~~----~  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES--GANF-----IAVRG----P  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE-----EEEeh----H
Confidence            34678777777776654310000     0000223457899999999999999999843  2222     22221    1


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC--------Ch----hhHhHhhCcCCC--CCCCcE
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE--------NY----NDWIDLSRPFQD--GAPGSK  335 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~--------~~----~~~~~l~~~l~~--~~~gs~  335 (475)
                          +++...     .......+...+...-...+.+|+||++...        ..    ....+++..+..  ...+.-
T Consensus       522 ----~l~~~~-----vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~  592 (733)
T TIGR01243       522 ----EILSKW-----VGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVV  592 (733)
T ss_pred             ----HHhhcc-----cCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEE
Confidence                111111     1111222222333333456799999998421        00    011223333321  223456


Q ss_pred             EEEecCChHHHH--hc---CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          336 IIITTRNADAAL--IM---GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       336 ilvTtR~~~v~~--~~---~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      ||.||..++...  ..   .-...+.+...+.++-.++|+.+..... .....++    ..+++.|.|.--
T Consensus       593 vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~-~~~~~~l----~~la~~t~g~sg  658 (733)
T TIGR01243       593 VIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMP-LAEDVDL----EELAEMTEGYTG  658 (733)
T ss_pred             EEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCC-CCccCCH----HHHHHHcCCCCH
Confidence            677776654321  11   1235677888888888888876543221 1112223    347777877643

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.10  E-value=0.0027  Score=70.03  Aligned_cols=137  Identities=15%  Similarity=0.145  Sum_probs=75.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|-+.-++.|...+.....+ ...+.....+.++|+.|+|||+||+.+++..  -..-...+-++.++-.+...+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l--~~~~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF--FGSEDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh--cCCccceEEEEchhccccccH--
Confidence            45889888888888877531110 0111234567799999999999999987631  111112233333332221111  


Q ss_pred             HHHHHhhcCCCC---CCChHHHHHHHHHHhCCce-EEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEE
Q 046770          274 SILRSVAMGIVD---HNDLNLLQWKLKKQLFGKR-FLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIII  338 (475)
Q Consensus       274 ~il~~l~~~~~~---~~~~~~l~~~l~~~l~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilv  338 (475)
                         ..+.+..++   .....    .|.+.+..++ -+++||++...+...+..++..+..+           ...+-||+
T Consensus       585 ---~~l~g~~~gyvg~~~~~----~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~  657 (821)
T CHL00095        585 ---SKLIGSPPGYVGYNEGG----QLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIM  657 (821)
T ss_pred             ---HHhcCCCCcccCcCccc----hHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEE
Confidence               111111111   11212    2344444454 48889999888777777777766543           23456777


Q ss_pred             ecCC
Q 046770          339 TTRN  342 (475)
Q Consensus       339 TtR~  342 (475)
                      ||..
T Consensus       658 Tsn~  661 (821)
T CHL00095        658 TSNL  661 (821)
T ss_pred             eCCc
Confidence            7775

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.0043  Score=66.07  Aligned_cols=156  Identities=19%  Similarity=0.173  Sum_probs=83.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc---ccccCc-CeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS---RVQCHF-DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~~~~F-~~~~wv~v~~~~~~~~  270 (475)
                      ..++||++|++++++.|.. ..     .+.+  .++|.+|+|||+++.-++...   .+-... +..++.          
T Consensus       170 DPvIGRd~EI~r~iqIL~R-R~-----KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s----------  231 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSR-RT-----KNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS----------  231 (786)
T ss_pred             CCCcChHHHHHHHHHHHhc-cC-----CCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE----------
Confidence            3589999999999999976 22     1222  478999999999987666521   111110 111111          


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC----C----hhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE----N----YNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~----~----~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                        -++..-+.+......-.+.+...+.+.-+..+.+|++|.++..    .    ..+-..++.+....+.--.|-.||-+
T Consensus       232 --LD~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~  309 (786)
T COG0542         232 --LDLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLD  309 (786)
T ss_pred             --ecHHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHH
Confidence              1111122222222222233333344443455899999999642    0    01122333333222222244455544


Q ss_pred             hHHHH-------hcCCCceeeCCCCCHHHHHHHHhh
Q 046770          343 ADAAL-------IMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       343 ~~v~~-------~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      + .-.       ....++.+.+..-+.+++..+++.
T Consensus       310 E-YRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         310 E-YRKYIEKDAALERRFQKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             H-HHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHH
Confidence            3 221       123567788999999999888874

>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=97.10  E-value=0.0013  Score=57.64  Aligned_cols=129  Identities=18%  Similarity=0.096  Sum_probs=65.8

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHH
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSIL  276 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il  276 (475)
                      ++|....+.++.+.+.....     .. .-|.|+|..|+||+.+|+.+.+.....  -..-+-|+++.- +...    +-
T Consensus         1 liG~s~~m~~~~~~~~~~a~-----~~-~pVlI~GE~GtGK~~lA~~IH~~s~r~--~~pfi~vnc~~~-~~~~----~e   67 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS-----SD-LPVLITGETGTGKELLARAIHNNSPRK--NGPFISVNCAAL-PEEL----LE   67 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT-----ST-S-EEEECSTTSSHHHHHHHHHHCSTTT--TS-EEEEETTTS--HHH----HH
T ss_pred             CEeCCHHHHHHHHHHHHHhC-----CC-CCEEEEcCCCCcHHHHHHHHHHhhhcc--cCCeEEEehhhh-hcch----hh
Confidence            46777888888887765221     22 346699999999999999999843211  112233444432 2222    22


Q ss_pred             HHhhcCCCC----CCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCC------CC-----CCcEEEEecC
Q 046770          277 RSVAMGIVD----HNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQD------GA-----PGSKIIITTR  341 (475)
Q Consensus       277 ~~l~~~~~~----~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~------~~-----~gs~ilvTtR  341 (475)
                      ..+.+...+    .....  .-.+...   ..=-|+||++..........+...+..      +.     ..+|||.||.
T Consensus        68 ~~LFG~~~~~~~~~~~~~--~G~l~~A---~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~  142 (168)
T PF00158_consen   68 SELFGHEKGAFTGARSDK--KGLLEQA---NGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTS  142 (168)
T ss_dssp             HHHHEBCSSSSTTTSSEB--EHHHHHT---TTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEES
T ss_pred             hhhhcccccccccccccc--CCceeec---cceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecC
Confidence            333333211    11100  0122222   223688999987765555555444331      11     2568899888


Q ss_pred             Ch
Q 046770          342 NA  343 (475)
Q Consensus       342 ~~  343 (475)
                      ..
T Consensus       143 ~~  144 (168)
T PF00158_consen  143 KD  144 (168)
T ss_dssp             S-
T ss_pred             cC
Confidence            63

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 ....

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.06  E-value=0.00057  Score=57.92  Aligned_cols=108  Identities=19%  Similarity=0.138  Sum_probs=61.3

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc-ccCcCeEEEEEecCCCCHHHHHHHHH
Q 046770          198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV-QCHFDLKAWTYVSQDFDIIRVTKSIL  276 (475)
Q Consensus       198 vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~wv~v~~~~~~~~~l~~il  276 (475)
                      ||+...++++.+.+....      ....-|.|+|..|+||+++|+.++..... ...|...   .+... +     .++ 
T Consensus         1 vG~S~~~~~l~~~l~~~a------~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~~-~-----~~~-   64 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA------KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCASL-P-----AEL-   64 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH------CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHCT-C-----HHH-
T ss_pred             CCCCHHHHHHHHHHHHHh------CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhhC-c-----HHH-
Confidence            466666777766665422      12245789999999999999998875322 1122111   11110 0     111 


Q ss_pred             HHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCC-CCCCcEEEEecCCh
Q 046770          277 RSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQD-GAPGSKIIITTRNA  343 (475)
Q Consensus       277 ~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~ilvTtR~~  343 (475)
                                         +..   .+.-.|+|+|+..-+......+...+.. .....|+|.||+.+
T Consensus        65 -------------------l~~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   65 -------------------LEQ---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             -------------------HHH---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             -------------------HHH---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                               111   1344678999987776666666655542 25678999999863

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.04  E-value=0.0018  Score=59.79  Aligned_cols=85  Identities=18%  Similarity=0.132  Sum_probs=50.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH----hhcCC--CCCCChHH---HHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS----VAMGI--VDHNDLNL---LQW  294 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~----l~~~~--~~~~~~~~---l~~  294 (475)
                      -.++.|+|.+|+|||++|.+++.+.  ...-..++|++.. .++...+. ++...    +....  ....+...   ..+
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~--~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   98 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEA--AKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEAIR   98 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHHHH
Confidence            3799999999999999999988643  2233567899887 55554432 23222    11000  01222222   233


Q ss_pred             HHHHHhCCceEEEEEECC
Q 046770          295 KLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv  312 (475)
                      .+...+..+.-++|+|.+
T Consensus        99 ~~~~~~~~~~~lvVIDsi  116 (225)
T PRK09361         99 KAEKLAKENVGLIVLDSA  116 (225)
T ss_pred             HHHHHHHhcccEEEEeCc
Confidence            344444456679999998

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

Probab=97.03  E-value=0.0033  Score=58.09  Aligned_cols=89  Identities=16%  Similarity=0.083  Sum_probs=54.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCCChH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------VDHNDLN  290 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------~~~~~~~  290 (475)
                      -.++.|+|++|+|||+|+.+++.......    .=..++|++....++...+. .+........         ....+.+
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARPYNGE   97 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeCCCHH
Confidence            36899999999999999999876421111    11457899888777765543 3333322110         1223455


Q ss_pred             HHHHHHHHHhC----CceEEEEEECCC
Q 046770          291 LLQWKLKKQLF----GKRFLLVLDDVW  313 (475)
Q Consensus       291 ~l~~~l~~~l~----~kr~LlVlDdv~  313 (475)
                      ++...+.....    .+.-|+|+|.+.
T Consensus        98 ~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          98 QQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             HHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            55555555442    345599999983

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.

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

Probab=97.03  E-value=0.0023  Score=69.11  Aligned_cols=136  Identities=15%  Similarity=0.162  Sum_probs=73.2

Q ss_pred             cccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|-+..++.|.+.+.....+ ...+.....+.++|++|+|||+||+.++...  ..   ..+.+++++.....     
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l--~~---~~i~id~se~~~~~-----  528 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--GI---ELLRFDMSEYMERH-----  528 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh--CC---CcEEeechhhcccc-----
Confidence            4788888888888877631110 0001334578999999999999999998743  21   22333333322111     


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCc-eEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGK-RFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRN  342 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~  342 (475)
                      ....+.+..++....+ ....+.+.+..+ ..+|+||++.....+.+..++..|..+.           .++-||+||..
T Consensus       529 ~~~~LiG~~~gyvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~  607 (758)
T PRK11034        529 TVSRLIGAPPGYVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNA  607 (758)
T ss_pred             cHHHHcCCCCCccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCc
Confidence            1122222221111100 011233333333 4599999998877777777766554321           23447777763

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.02  Score=57.55  Aligned_cols=145  Identities=16%  Similarity=0.142  Sum_probs=82.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHH----
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLK----  297 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~----  297 (475)
                      ..+..|.+.|++|+|||+||..++.+    ..|..+--++-.+.                   -..+...-...++    
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSpe~m-------------------iG~sEsaKc~~i~k~F~  592 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISPEDM-------------------IGLSESAKCAHIKKIFE  592 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeChHHc-------------------cCccHHHHHHHHHHHHH
Confidence            45677889999999999999999873    34654332221110                   0111122222333    


Q ss_pred             HHhCCceEEEEEECCCCCChhhHhH---------------hhCcCCCCCCCcEEEEecCChHHHHhcCC----CceeeCC
Q 046770          298 KQLFGKRFLLVLDDVWNENYNDWID---------------LSRPFQDGAPGSKIIITTRNADAALIMGT----VQAYPLK  358 (475)
Q Consensus       298 ~~l~~kr~LlVlDdv~~~~~~~~~~---------------l~~~l~~~~~gs~ilvTtR~~~v~~~~~~----~~~~~l~  358 (475)
                      ..-++.--.||+||+..  ..+|-.               ++...++.+..--|+-||....+...|+-    ...+.+.
T Consensus       593 DAYkS~lsiivvDdiEr--LiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vp  670 (744)
T KOG0741|consen  593 DAYKSPLSIIVVDDIER--LLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVP  670 (744)
T ss_pred             HhhcCcceEEEEcchhh--hhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecC
Confidence            33355667999999932  223322               22223333334445667777788777662    3568888


Q ss_pred             CCCH-HHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhc
Q 046770          359 GLSN-DDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKC  396 (475)
Q Consensus       359 ~L~~-~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c  396 (475)
                      .++. ++..+.+...-.     -.+.....++.+...+|
T Consensus       671 nl~~~~~~~~vl~~~n~-----fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  671 NLTTGEQLLEVLEELNI-----FSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             ccCchHHHHHHHHHccC-----CCcchhHHHHHHHhccc
Confidence            8887 777777765421     11233455556666655

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.02  E-value=0.00049  Score=56.69  Aligned_cols=22  Identities=41%  Similarity=0.502  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999883

...

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.00  E-value=0.0032  Score=58.50  Aligned_cols=89  Identities=19%  Similarity=0.159  Sum_probs=54.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCChH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDLN  290 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~~  290 (475)
                      -.++.|+|++|+|||+|+.+++........    -..++|++....++..++. ++.+.......         ...+..
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYNSD   97 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCCHH
Confidence            478999999999999999999753222221    3578999988877765443 33333322110         112222


Q ss_pred             ---HHHHHHHHHh-CC-ceEEEEEECCC
Q 046770          291 ---LLQWKLKKQL-FG-KRFLLVLDDVW  313 (475)
Q Consensus       291 ---~l~~~l~~~l-~~-kr~LlVlDdv~  313 (475)
                         .....+...+ +. +.-|||+|.+.
T Consensus        98 ~l~~~l~~l~~~l~~~~~~~liVIDSis  125 (235)
T cd01123          98 HQLQLLEELEAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence               2334444444 33 56799999983

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 .

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.99  E-value=0.0022  Score=60.18  Aligned_cols=80  Identities=24%  Similarity=0.280  Sum_probs=47.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .-+.++|.+|+|||.||..+.+... +..+. +.+++      ..+++.++-......        .....|.+.+ .+-
T Consensus       106 ~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~s-v~f~~------~~el~~~Lk~~~~~~--------~~~~~l~~~l-~~~  168 (254)
T COG1484         106 ENLVLLGPPGVGKTHLAIAIGNELL-KAGIS-VLFIT------APDLLSKLKAAFDEG--------RLEEKLLREL-KKV  168 (254)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH-HcCCe-EEEEE------HHHHHHHHHHHHhcC--------chHHHHHHHh-hcC
Confidence            3578999999999999999998643 33333 34443      344555555444321        1112233322 122


Q ss_pred             EEEEEECCCCCChhhHh
Q 046770          305 FLLVLDDVWNENYNDWI  321 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~  321 (475)
                      =||||||+.......|.
T Consensus       169 dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         169 DLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             CEEEEecccCccCCHHH
Confidence            39999999765544444

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.97  E-value=0.0098  Score=64.93  Aligned_cols=181  Identities=15%  Similarity=0.087  Sum_probs=90.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|.+..+++|.+.+...-..     .-.-...+.+.++|++|+|||+||+.+++..  ...|     +.++..    
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~--~~~~-----i~i~~~----  246 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA--GAYF-----ISINGP----  246 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh--CCeE-----EEEecH----
Confidence            35789999998887776321000     0000223568899999999999999998842  2222     222211    


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-----------hhhHhHhhCcCCCC-CCCcEEE
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-----------YNDWIDLSRPFQDG-APGSKII  337 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~~~-~~gs~il  337 (475)
                      ++.    ...     .......+...+.......+.+|+|||+....           ......+...+... ..+..++
T Consensus       247 ~i~----~~~-----~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~viv  317 (733)
T TIGR01243       247 EIM----SKY-----YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIV  317 (733)
T ss_pred             HHh----ccc-----ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEE
Confidence            111    000     01111223333333445567899999984311           01122233333211 2233344


Q ss_pred             E-ecCChH-HHHhcC----CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          338 I-TTRNAD-AALIMG----TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       338 v-TtR~~~-v~~~~~----~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      + ||.... +...+.    -...+.+...+.++-.+++..+.-...- ....    ....+++.+.|..
T Consensus       318 I~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l-~~d~----~l~~la~~t~G~~  381 (733)
T TIGR01243       318 IGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPL-AEDV----DLDKLAEVTHGFV  381 (733)
T ss_pred             EeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCC-cccc----CHHHHHHhCCCCC
Confidence            4 554432 111111    1245777788888888888754322110 1111    2345777787764

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.96  E-value=0.0067  Score=58.00  Aligned_cols=86  Identities=16%  Similarity=0.190  Sum_probs=45.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccc-cCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ  299 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~  299 (475)
                      ...++.|+|++|+||||++..++...... ..+ .+..++... +.  ..+.+....+.++.......+...+...+...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~-~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~  270 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNK-KVALITTDT-YRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRL  270 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCc-cchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHc
Confidence            45799999999999999998887643222 112 334444332 22  22233333333332222233444555555443


Q ss_pred             hCCceEEEEEECC
Q 046770          300 LFGKRFLLVLDDV  312 (475)
Q Consensus       300 l~~kr~LlVlDdv  312 (475)
                       .+ .=+|++|..
T Consensus       271 -~~-~d~vliDt~  281 (282)
T TIGR03499       271 -RD-KDLILIDTA  281 (282)
T ss_pred             -cC-CCEEEEeCC
Confidence             33 347777754

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.95  E-value=0.012  Score=60.09  Aligned_cols=155  Identities=19%  Similarity=0.204  Sum_probs=87.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      ..-|.++|++|.|||-||++|+|.  .+-.|     ++|..+        +++...-+     .....+....++.=..-
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANE--ag~NF-----isVKGP--------ELlNkYVG-----ESErAVR~vFqRAR~sa  604 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANE--AGANF-----ISVKGP--------ELLNKYVG-----ESERAVRQVFQRARASA  604 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhh--ccCce-----EeecCH--------HHHHHHhh-----hHHHHHHHHHHHhhcCC
Confidence            345789999999999999999995  34444     444442        22222211     12222233333333567


Q ss_pred             eEEEEEECCCCC-----C------hhhHhHhhCcCCC--CCCCcEEEEecCChHHHH--hcCC---CceeeCCCCCHHHH
Q 046770          304 RFLLVLDDVWNE-----N------YNDWIDLSRPFQD--GAPGSKIIITTRNADAAL--IMGT---VQAYPLKGLSNDDC  365 (475)
Q Consensus       304 r~LlVlDdv~~~-----~------~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~--~~~~---~~~~~l~~L~~~~~  365 (475)
                      +++|+||.+...     +      .....+++..+..  ...|.-||-.|..+++..  .+..   ...+-+..-+.+|-
T Consensus       605 PCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR  684 (802)
T KOG0733|consen  605 PCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEER  684 (802)
T ss_pred             CeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHH
Confidence            999999998421     0      1113344444432  235666777776665532  2222   24556667778888


Q ss_pred             HHHHhhcccCCCCC-CCCchHHHHHHHHHHhcCCch
Q 046770          366 MCLFTQHSLETRDF-SMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       366 ~~lf~~~~~~~~~~-~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      .++++...-....+ ..+-.+++|+..  .+|.|..
T Consensus       685 ~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  685 VAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             HHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            88998776532222 223356665543  3566654

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

Probab=96.94  E-value=0.043  Score=57.18  Aligned_cols=202  Identities=12%  Similarity=0.041  Sum_probs=116.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc------cccCcCeEEEEEecCCCCHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR------VQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~------~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .+-+|+.|..+|.+.+...-.. +  ..-+.+-|.|.+|+|||..+..|.+...      ....|+ .+.|+.-.-..+.
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~~-~--~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~  472 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFISD-Q--GLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPR  472 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCC-C--CCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHH
Confidence            4779999999998887652222 1  2335889999999999999999987432      112233 3344444555788


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC-----CceEEEEEECCCCCChhhHhHhhCcCC-CCCCCcEEEEecCCh
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF-----GKRFLLVLDDVWNENYNDWIDLSRPFQ-DGAPGSKIIITTRNA  343 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~-----~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~ilvTtR~~  343 (475)
                      +++..|..++.+....   .......|..++.     .+.+++++|++...-....+-+...|. ....+|+++|-+=..
T Consensus       473 ~~Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaN  549 (767)
T KOG1514|consen  473 EIYEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIAN  549 (767)
T ss_pred             HHHHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEecc
Confidence            9999999999876422   2333444554443     446888889873211111223333443 344677766544211


Q ss_pred             -----------HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          344 -----------DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       344 -----------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                                 .++..+ +...+...|-++++-.++...+..+... ......+-++++++.-.|-.-.|+.+.
T Consensus       550 TmdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL~~~~~-f~~~aielvarkVAavSGDaRraldic  621 (767)
T KOG1514|consen  550 TMDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARLKGLDA-FENKAIELVARKVAAVSGDARRALDIC  621 (767)
T ss_pred             cccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhhcchhh-cchhHHHHHHHHHHhccccHHHHHHHH
Confidence                       111111 3355777888888888888776654422 222333444455554444444444433

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.92  E-value=0.0014  Score=58.08  Aligned_cols=36  Identities=28%  Similarity=0.472  Sum_probs=27.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEE
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWT  260 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv  260 (475)
                      ...+|.+.|+.|+||||+|+.+++.  ....+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~--l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYER--LKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEE
Confidence            4469999999999999999999883  34444445554

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.92  E-value=0.011  Score=57.49  Aligned_cols=71  Identities=13%  Similarity=0.218  Sum_probs=46.0

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-HHH-hcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-AAL-IMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v~~-~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      +++=++|+|++...+...-..++..+.....++.+|++|.+.. +.. ..+....+.+.+++.+++.+.+.+.
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            3444556788877766666666665553334566777777643 332 2223467889999999999888754

>cd01394 radB RadB

Probab=96.91  E-value=0.0028  Score=58.17  Aligned_cols=85  Identities=20%  Similarity=0.097  Sum_probs=48.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh----hcCC--CCCCChHH---HHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV----AMGI--VDHNDLNL---LQW  294 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l----~~~~--~~~~~~~~---l~~  294 (475)
                      -.++.|.|.+|+||||||.+++...  ...-..++|++....+.  +-+.++....    ....  ....+..+   ...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~--~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVET--AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRAIQ   94 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHHHH
Confidence            4789999999999999999988642  22223567887665554  3333433321    1110  01222222   223


Q ss_pred             HHHHHhCCceEEEEEECC
Q 046770          295 KLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv  312 (475)
                      .+...+..+.-++|+|.+
T Consensus        95 ~~~~~~~~~~~lvvIDsi  112 (218)
T cd01394          95 ETETFADEKVDLVVVDSA  112 (218)
T ss_pred             HHHHHHhcCCcEEEEech
Confidence            344444444568888887

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

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.89  E-value=0.004  Score=64.76  Aligned_cols=77  Identities=22%  Similarity=0.208  Sum_probs=55.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      +.-+++.++|++|+||||||+.++.+.    .| -++=|+.|+.-+...+-..|...+..+.....             .
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~avq~~s~l~a-------------d  385 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENAVQNHSVLDA-------------D  385 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHHHhhcccccc-------------C
Confidence            556899999999999999999999842    23 25667888887777777777666554321111             2


Q ss_pred             CceEEEEEECCCCCC
Q 046770          302 GKRFLLVLDDVWNEN  316 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~  316 (475)
                      +++.-||+|.+....
T Consensus       386 srP~CLViDEIDGa~  400 (877)
T KOG1969|consen  386 SRPVCLVIDEIDGAP  400 (877)
T ss_pred             CCcceEEEecccCCc
Confidence            678889999997654

>PTZ00494 tuzin-like protein; Provisional

Probab=96.89  E-value=0.095  Score=52.12  Aligned_cols=169  Identities=12%  Similarity=0.119  Sum_probs=101.5

Q ss_pred             CcccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          191 LVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       191 ~~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      +.....++.|+.|-..+-+.|...+.     ..++++.+.|.-|.||++|.+.......     -..++|.+....|   
T Consensus       367 ~a~~~~~V~R~~eE~~vRqvL~qld~-----aHPRIvV~TG~~GcGKSslcRsAvrkE~-----~paV~VDVRg~ED---  433 (664)
T PTZ00494        367 AAAEAFEVRREDEEALVRSVLTQMAP-----SHPRIVALAGGSGGGRCVPCRRAVRVEG-----VALVHVDVGGTED---  433 (664)
T ss_pred             ccccccccchhhHHHHHHHHHhhccC-----CCCcEEEEecCCCCCchHHHHHHHHHcC-----CCeEEEEecCCcc---
Confidence            33456789999988888887766332     5679999999999999999998876432     2456788777554   


Q ss_pred             HHHHHHHHhhcCCCC--CCChHHHHHHHH---HHhCCceEEEEEECCCCCCh-hhHhHhhCcCCCCCCCcEEEEecCChH
Q 046770          271 VTKSILRSVAMGIVD--HNDLNLLQWKLK---KQLFGKRFLLVLDDVWNENY-NDWIDLSRPFQDGAPGSKIIITTRNAD  344 (475)
Q Consensus       271 ~l~~il~~l~~~~~~--~~~~~~l~~~l~---~~l~~kr~LlVlDdv~~~~~-~~~~~l~~~l~~~~~gs~ilvTtR~~~  344 (475)
                      -++.+++.++....+  .+-++-+.+...   ....|+.-+||+-==...+. ..+.+. ..|.....-|.|++---.+.
T Consensus       434 tLrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~-vaLacDrRlCHvv~EVplES  512 (664)
T PTZ00494        434 TLRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEV-VSLVSDCQACHIVLAVPMKA  512 (664)
T ss_pred             hHHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHH-HHHHccchhheeeeechHhh
Confidence            467788888765432  122233333222   23456666777642211111 112221 12223334567776544433


Q ss_pred             HHHhc---CCCceeeCCCCCHHHHHHHHhhcc
Q 046770          345 AALIM---GTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       345 v~~~~---~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      +....   .....|.+.+++.+++.++..+..
T Consensus       513 LT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        513 LTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            22111   123568889999999998887653

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.84  E-value=0.0043  Score=59.53  Aligned_cols=134  Identities=21%  Similarity=0.230  Sum_probs=72.4

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc-ccccCcCeE-E---EEEecCCC-----
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS-RVQCHFDLK-A---WTYVSQDF-----  266 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~-~---wv~v~~~~-----  266 (475)
                      +-+|..+..--.++|..        +.+..|.+.|.+|.|||.||-...-.. -.+..|.-. +   -+.+.++.     
T Consensus       226 i~prn~eQ~~ALdlLld--------~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG  297 (436)
T COG1875         226 IRPRNAEQRVALDLLLD--------DDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPG  297 (436)
T ss_pred             cCcccHHHHHHHHHhcC--------CCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCC
Confidence            44577777777888887        568899999999999999885542211 112223211 1   12222221     


Q ss_pred             C----HH---HHHHHHHHHhhcCCCCCCChHHHHHHHH---------HHhCCc---eEEEEEECCCCCChhhHhHhhCcC
Q 046770          267 D----II---RVTKSILRSVAMGIVDHNDLNLLQWKLK---------KQLFGK---RFLLVLDDVWNENYNDWIDLSRPF  327 (475)
Q Consensus       267 ~----~~---~~l~~il~~l~~~~~~~~~~~~l~~~l~---------~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l  327 (475)
                      .    +.   .-+.+-++.+......  ....+...+.         .+..|+   .-+||+|.+.+....+...+   +
T Consensus       298 ~eEeKm~PWmq~i~DnLE~L~~~~~~--~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTi---l  372 (436)
T COG1875         298 TEEEKMGPWMQAIFDNLEVLFSPNEP--GDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTI---L  372 (436)
T ss_pred             chhhhccchHHHHHhHHHHHhccccc--chHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHH---H
Confidence            0    00   1122223333322111  1112222211         123455   45999999988765544444   4


Q ss_pred             CCCCCCcEEEEecCCh
Q 046770          328 QDGAPGSKIIITTRNA  343 (475)
Q Consensus       328 ~~~~~gs~ilvTtR~~  343 (475)
                      ...+.||||+.|.-..
T Consensus       373 tR~G~GsKIVl~gd~a  388 (436)
T COG1875         373 TRAGEGSKIVLTGDPA  388 (436)
T ss_pred             HhccCCCEEEEcCCHH
Confidence            4567899999987543

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.84  E-value=0.019  Score=60.90  Aligned_cols=182  Identities=14%  Similarity=0.071  Sum_probs=102.5

Q ss_pred             cccccch---hHHHHHHHHhcCCC---CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          196 KVYGRSK---EREEIVELLLKEDG---TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       196 ~~vGR~~---e~~~l~~~L~~~~~---~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      ++.|-++   |++++++.|.+...   -+.  .-++=+.++|++|+|||-||++++....       +-|++++.     
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGA--KiPkGvLL~GPPGTGKTLLAKAiAGEAg-------VPF~svSG-----  377 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGA--KIPKGVLLVGPPGTGKTLLAKAIAGEAG-------VPFFSVSG-----  377 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCC--cCcCceEEECCCCCcHHHHHHHHhcccC-------Cceeeech-----
Confidence            4667654   56666777766211   011  3346688999999999999999998543       33455554     


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHH-HhCCceEEEEEECCCCC---------------ChhhHhHhhCcCCCC--C
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKK-QLFGKRFLLVLDDVWNE---------------NYNDWIDLSRPFQDG--A  331 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~kr~LlVlDdv~~~---------------~~~~~~~l~~~l~~~--~  331 (475)
                         .+.++.+....      ...++.|-. .=...+++|.+|++...               ....+.+++..+...  .
T Consensus       378 ---SEFvE~~~g~~------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~  448 (774)
T KOG0731|consen  378 ---SEFVEMFVGVG------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETS  448 (774)
T ss_pred             ---HHHHHHhcccc------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCC
Confidence               23333332221      111222222 22345788888887321               112344555444322  2


Q ss_pred             CCcEEEEecCChHHHHh--cC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          332 PGSKIIITTRNADAALI--MG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~~~--~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      .+.-+|-+|+..++...  +.   -.+.+.++.-+.....++|..|+-.-..   ..+..++.+ |+...-|.+=|..
T Consensus       449 ~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~---~~e~~dl~~-~a~~t~gf~gadl  522 (774)
T KOG0731|consen  449 KGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKL---DDEDVDLSK-LASLTPGFSGADL  522 (774)
T ss_pred             CcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCC---CcchhhHHH-HHhcCCCCcHHHH
Confidence            33345556666554321  22   2356778877888888999888744322   234455566 8888888876654

>PRK13695 putative NTPase; Provisional

Probab=96.83  E-value=0.00083  Score=59.37  Aligned_cols=22  Identities=36%  Similarity=0.443  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998774

>PRK06696 uridine kinase; Validated

Probab=96.81  E-value=0.0016  Score=60.06  Aligned_cols=43  Identities=28%  Similarity=0.290  Sum_probs=34.0

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       200 R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.+-+++|.+.+.....     ....+|+|.|.+|+||||||+.+...
T Consensus         3 ~~~~~~~la~~~~~~~~-----~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNL-----TRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCC-----CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            56667788887765221     45789999999999999999999874

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.80  E-value=0.0037  Score=60.37  Aligned_cols=83  Identities=19%  Similarity=0.159  Sum_probs=54.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~  297 (475)
                      .-+++-|+|++|+||||||.+++...  ...-..++|++..+.+++.     .++.++...     ....+.++....+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~--~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~  126 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA--QKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIAD  126 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHH
Confidence            34788999999999999999987632  2233567899887777653     233332211     12334555666665


Q ss_pred             HHhC-CceEEEEEECC
Q 046770          298 KQLF-GKRFLLVLDDV  312 (475)
Q Consensus       298 ~~l~-~kr~LlVlDdv  312 (475)
                      ..+. +..-+||+|.+
T Consensus       127 ~li~s~~~~lIVIDSv  142 (325)
T cd00983         127 SLVRSGAVDLIVVDSV  142 (325)
T ss_pred             HHHhccCCCEEEEcch
Confidence            5553 44569999997

RecA couples ATP hydrolysis to DNA strand exchange.

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.75  E-value=0.019  Score=59.05  Aligned_cols=155  Identities=15%  Similarity=0.073  Sum_probs=79.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      ..+-|.++|++|+|||.+|+.+++..  ...|   +-+..+.      ++        ... .......+...+...-..
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~--~~~~---~~l~~~~------l~--------~~~-vGese~~l~~~f~~A~~~  317 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDW--QLPL---LRLDVGK------LF--------GGI-VGESESRMRQMIRIAEAL  317 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh--CCCE---EEEEhHH------hc--------ccc-cChHHHHHHHHHHHHHhc
Confidence            34668899999999999999999843  2222   1111111      11        000 011112222223222235


Q ss_pred             ceEEEEEECCCCCC--------hhh----HhHhhCcCCCCCCCcEEEEecCChHH-HHh-c---CCCceeeCCCCCHHHH
Q 046770          303 KRFLLVLDDVWNEN--------YND----WIDLSRPFQDGAPGSKIIITTRNADA-ALI-M---GTVQAYPLKGLSNDDC  365 (475)
Q Consensus       303 kr~LlVlDdv~~~~--------~~~----~~~l~~~l~~~~~gs~ilvTtR~~~v-~~~-~---~~~~~~~l~~L~~~~~  365 (475)
                      .+++|+||+++...        ...    ...++..+.....+.-||.||...+. ... .   .-...+.+..-+.++-
T Consensus       318 ~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR  397 (489)
T CHL00195        318 SPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEER  397 (489)
T ss_pred             CCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHH
Confidence            68999999985310        000    11122222223344556677765432 111 1   1235677888888888


Q ss_pred             HHHHhhcccCCCCC-CCCchHHHHHHHHHHhcCCchH
Q 046770          366 MCLFTQHSLETRDF-SMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       366 ~~lf~~~~~~~~~~-~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      .++|..+....... ....+    ...+++.+.|.--
T Consensus       398 ~~Il~~~l~~~~~~~~~~~d----l~~La~~T~GfSG  430 (489)
T CHL00195        398 EKIFKIHLQKFRPKSWKKYD----IKKLSKLSNKFSG  430 (489)
T ss_pred             HHHHHHHHhhcCCCcccccC----HHHHHhhcCCCCH
Confidence            88888776442211 11222    3446667766643

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.75  E-value=0.01  Score=62.38  Aligned_cols=135  Identities=16%  Similarity=0.078  Sum_probs=73.8

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc-cccCcCeEEEEEecCCCCHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR-VQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      ...++|....+.++.+.+.....      .-.-|.|+|..|+|||++|+.+.+... ...   .-+.+++.....  ..+
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~------~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~---pfv~i~c~~~~~--~~~  263 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVAR------SNSTVLLRGESGTGKELIAKAIHYLSPRAKR---PFVKVNCAALSE--TLL  263 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhC------cCCCEEEECCCCccHHHHHHHHHHhCCCCCC---CeEEeecCCCCH--HHH
Confidence            45799999999999888765221      123567999999999999999987432 112   223444444322  222


Q ss_pred             HHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecC
Q 046770          273 KSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTR  341 (475)
Q Consensus       273 ~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR  341 (475)
                      ..   .+.+...+.-... .............-.|+||++..........+...+..+.           ...+||.||.
T Consensus       264 ~~---~lfg~~~~~~~~~-~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~  339 (534)
T TIGR01817       264 ES---ELFGHEKGAFTGA-IAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATN  339 (534)
T ss_pred             HH---HHcCCCCCccCCC-CcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCC
Confidence            22   2222111100000 0000000001223468899998777666666766654321           1358888876


Q ss_pred             Ch
Q 046770          342 NA  343 (475)
Q Consensus       342 ~~  343 (475)
                      ..
T Consensus       340 ~~  341 (534)
T TIGR01817       340 RD  341 (534)
T ss_pred             CC
Confidence            53

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.74  E-value=0.011  Score=52.45  Aligned_cols=23  Identities=39%  Similarity=0.673  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||++.+...
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            47999999999999999999874

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.

>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=0.0035  Score=59.02  Aligned_cols=87  Identities=24%  Similarity=0.236  Sum_probs=52.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCCChHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------VDHNDLNL  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------~~~~~~~~  291 (475)
                      .+.=|+|++|+|||.|+.+++-+.....    .=..++|++....|++.++. +|++......         ....+.++
T Consensus        39 ~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~~  117 (256)
T PF08423_consen   39 SITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLEE  117 (256)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHHH
T ss_pred             cEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHHH
Confidence            5788999999999999988764322221    12368999999999887764 4555433211         01223333


Q ss_pred             HHHH---HHHHh-CCceEEEEEECC
Q 046770          292 LQWK---LKKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~---l~~~l-~~kr~LlVlDdv  312 (475)
                      +...   +...+ +.+--|||+|.+
T Consensus       118 l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  118 LLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHhhccccceEEEEecch
Confidence            3333   33333 344459999998

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 ....

>PRK09354 recA recombinase A; Provisional

Probab=96.70  E-value=0.0056  Score=59.66  Aligned_cols=84  Identities=21%  Similarity=0.159  Sum_probs=55.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~  297 (475)
                      .-+++-|+|++|+||||||.+++...  ...-..++|++....++..     .++.++...     ......++....+.
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~--~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~  131 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA--QKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIAD  131 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34789999999999999999987643  2233567899888877753     233333221     12334555556666


Q ss_pred             HHhC-CceEEEEEECCC
Q 046770          298 KQLF-GKRFLLVLDDVW  313 (475)
Q Consensus       298 ~~l~-~kr~LlVlDdv~  313 (475)
                      ..+. +..-+||+|-+-
T Consensus       132 ~li~s~~~~lIVIDSva  148 (349)
T PRK09354        132 TLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHhhcCCCCEEEEeChh
Confidence            5553 446699999983

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.69  E-value=0.011  Score=61.22  Aligned_cols=59  Identities=20%  Similarity=0.327  Sum_probs=42.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY  261 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~  261 (475)
                      ++.--.+-++++..||.. .-...  ...+++.++|++|+||||.++.++++    ..|+..-|.+
T Consensus        20 eLavhkkKv~eV~~wl~~-~~~~~--~~~~iLlLtGP~G~GKtttv~~La~e----lg~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEE-MFSGS--SPKRILLLTGPSGCGKTTTVKVLAKE----LGFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHH-HhccC--CCcceEEEECCCCCCHHHHHHHHHHH----hCCeeEEecC
Confidence            455456678889999875 22111  34579999999999999999999984    2466666764

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.68  E-value=0.0092  Score=51.52  Aligned_cols=40  Identities=20%  Similarity=0.279  Sum_probs=29.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      ++.|+|++|+||||++..+....  ...-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcchH
Confidence            36799999999999999998743  22334677777766544

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.

>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=96.68  E-value=0.018  Score=51.17  Aligned_cols=119  Identities=15%  Similarity=0.141  Sum_probs=62.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEec--CCCCHHHH------HHHHHHHhhcCC-----CCCCC-hH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS--QDFDIIRV------TKSILRSVAMGI-----VDHND-LN  290 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~--~~~~~~~~------l~~il~~l~~~~-----~~~~~-~~  290 (475)
                      .+++|+|+.|.|||||.+.++...   ......+++.-.  ...+....      +.++++.++...     ...-+ -.
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~  102 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGE  102 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHH
Confidence            489999999999999999998742   123334433211  11122221      111344333221     11111 12


Q ss_pred             HHHHHHHHHhCCceEEEEEECCCC-CChhhHhHhhCcCCCC-CC-CcEEEEecCChHHH
Q 046770          291 LLQWKLKKQLFGKRFLLVLDDVWN-ENYNDWIDLSRPFQDG-AP-GSKIIITTRNADAA  346 (475)
Q Consensus       291 ~l~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-gs~ilvTtR~~~v~  346 (475)
                      ...-.+.+.+-..+-++++|+.-. .+......+...+... .. +..||++|......
T Consensus       103 ~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         103 RQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            222235566667788999999742 2333333444433321 12 66888888876544

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.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.65  E-value=0.0056  Score=57.55  Aligned_cols=85  Identities=16%  Similarity=0.239  Sum_probs=51.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCc-CeEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHF-DLKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      -++|.|..|+|||||++.+++.  ...+| +.++++.+.+... +.+++..+...-....       .+.....     .
T Consensus        71 r~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~  148 (274)
T cd01133          71 KIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVAL  148 (274)
T ss_pred             EEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            5789999999999999999984  33344 4566777776553 4555555544211110       0111111     1


Q ss_pred             HHHHHHHHh--C-CceEEEEEECC
Q 046770          292 LQWKLKKQL--F-GKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~-~kr~LlVlDdv  312 (475)
                      ..-.+.+++  + ++.+||++||+
T Consensus       149 ~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         149 TGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHhcCCeEEEEEeCh
Confidence            112244444  3 89999999998

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.64  E-value=0.0097  Score=58.23  Aligned_cols=127  Identities=18%  Similarity=0.069  Sum_probs=67.0

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc-cccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR-VQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      ++|....+.++.+.+.....      .-.-|.|+|..|+||+++|+.+.+... ....|   +-|++....  ...+...
T Consensus         1 liG~S~~m~~~~~~~~~~a~------~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pf---v~vnc~~~~--~~~l~~~   69 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAP------LDRPVLIIGERGTGKELIAARLHYLSKRWQGPL---VKLNCAALS--ENLLDSE   69 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhC------CCCCEEEECCCCChHHHHHHHHHHhcCccCCCe---EEEeCCCCC--hHHHHHH
Confidence            46777777777776655221      123578999999999999999986432 12222   334444322  1222221


Q ss_pred             HHHhhcCCC----CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEec
Q 046770          276 LRSVAMGIV----DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITT  340 (475)
Q Consensus       276 l~~l~~~~~----~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTt  340 (475)
                         +.+...    +...  .....+.   ....-.|+||++..........+...+..+.           ...+||.||
T Consensus        70 ---lfG~~~g~~~ga~~--~~~G~~~---~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at  141 (329)
T TIGR02974        70 ---LFGHEAGAFTGAQK--RHQGRFE---RADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCAT  141 (329)
T ss_pred             ---HhccccccccCccc--ccCCchh---hCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEec
Confidence               211110    1100  0000011   1223468999998776656666655553221           345888888


Q ss_pred             CC
Q 046770          341 RN  342 (475)
Q Consensus       341 R~  342 (475)
                      ..
T Consensus       142 ~~  143 (329)
T TIGR02974       142 NA  143 (329)
T ss_pred             hh
Confidence            64

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

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.63  E-value=0.0063  Score=60.56  Aligned_cols=24  Identities=33%  Similarity=0.307  Sum_probs=21.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++.++|++|+||||++..++..
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998863

>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=96.63  E-value=0.008  Score=54.10  Aligned_cols=88  Identities=16%  Similarity=0.129  Sum_probs=47.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcCCC---CCCChHH-HHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMGIV---DHNDLNL-LQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~~~---~~~~~~~-l~~~l~~~  299 (475)
                      +++.++|+.|+||||.+-.++.....+  -..+..++... .....+-++...+.++....   ...+... +.+.+...
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~   79 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKF   79 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHH
Confidence            689999999999998877776543322  23355555432 23455666666777665421   2222222 22333333


Q ss_pred             hCCceEEEEEECCCC
Q 046770          300 LFGKRFLLVLDDVWN  314 (475)
Q Consensus       300 l~~kr~LlVlDdv~~  314 (475)
                      -..+.=+|++|-...
T Consensus        80 ~~~~~D~vlIDT~Gr   94 (196)
T PF00448_consen   80 RKKGYDLVLIDTAGR   94 (196)
T ss_dssp             HHTTSSEEEEEE-SS
T ss_pred             hhcCCCEEEEecCCc
Confidence            222223677777643

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 ....

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.63  E-value=0.0031  Score=61.27  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=23.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+..++|+|++|.|||.+|+.+++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999995

>TIGR02012 tigrfam_recA protein RecA

Probab=96.62  E-value=0.0068  Score=58.55  Aligned_cols=84  Identities=20%  Similarity=0.164  Sum_probs=54.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~  297 (475)
                      .-+++-|+|++|+||||||.+++...  ...-..++|++..+.++..     .++.++...     ......++....+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~--~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~  126 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEA--QKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAE  126 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34799999999999999999887643  2223457788877766653     233333221     12344555556665


Q ss_pred             HHhC-CceEEEEEECCC
Q 046770          298 KQLF-GKRFLLVLDDVW  313 (475)
Q Consensus       298 ~~l~-~kr~LlVlDdv~  313 (475)
                      ..++ +..-+||+|.+-
T Consensus       127 ~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       127 TLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHhhccCCcEEEEcchh
Confidence            5553 456699999983

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>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=96.60  E-value=0.021  Score=50.01  Aligned_cols=116  Identities=12%  Similarity=0.026  Sum_probs=57.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccc-cC--cC---eEEEEEecCCCC--HHHHHHHHHHHhhcCCCCCCChHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQ-CH--FD---LKAWTYVSQDFD--IIRVTKSILRSVAMGIVDHNDLNLLQWKL  296 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~--F~---~~~wv~v~~~~~--~~~~l~~il~~l~~~~~~~~~~~~l~~~l  296 (475)
                      .+++|+|+.|.|||||++.+....... +.  ++   ...++  .+...  ...+...+.-.   ....-..-....-.+
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~l  102 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLAF  102 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccccccHHHHhhcc---CCCCCCHHHHHHHHH
Confidence            489999999999999999998743211 11  11   12222  22221  11222222110   111111112223345


Q ss_pred             HHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCCCCCCcEEEEecCChHHHH
Q 046770          297 KKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQDGAPGSKIIITTRNADAAL  347 (475)
Q Consensus       297 ~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~  347 (475)
                      .+.+-.++=++++|+--.. +......+...+...  +..||++|.+.....
T Consensus       103 aral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~  152 (166)
T cd03223         103 ARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK  152 (166)
T ss_pred             HHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence            5566667788899987321 222333333333222  356788887766544

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

>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=96.59  E-value=0.018  Score=49.10  Aligned_cols=103  Identities=17%  Similarity=0.170  Sum_probs=55.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .+++|+|+.|.|||||++.+.....   .....+|+.-..             .+..- ..-..-....-.|.+.+-.++
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~~-------------~i~~~-~~lS~G~~~rv~laral~~~p   89 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGSTV-------------KIGYF-EQLSGGEKMRLALAKLLLENP   89 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCeE-------------EEEEE-ccCCHHHHHHHHHHHHHhcCC
Confidence            4899999999999999999987432   123333331100             00000 001111122223455566677


Q ss_pred             EEEEEECCCC-CChhhHhHhhCcCCCCCCCcEEEEecCChHHH
Q 046770          305 FLLVLDDVWN-ENYNDWIDLSRPFQDGAPGSKIIITTRNADAA  346 (475)
Q Consensus       305 ~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~  346 (475)
                      -++++|+.-. .+......+...+...  +..||++|...+..
T Consensus        90 ~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~  130 (144)
T cd03221          90 NLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFL  130 (144)
T ss_pred             CEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHH
Confidence            8999999743 2333333443333322  24678888775544

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.

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=96.57  E-value=0.048  Score=46.35  Aligned_cols=81  Identities=14%  Similarity=0.163  Sum_probs=55.7

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHhhcc-cchHHHHHHHHHHHhhhhhh
Q 046770           16 KETMSKIVSVSIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQT-REESVKMWLYELQNLAYDVE   94 (475)
Q Consensus        16 ~~m~~~~~s~~~~~l~~~l~~~~~~~~~~~~~v~~~~~~l~~~l~~~~~~l~~a~~~~~-~~~~v~~Wl~~lrd~ayd~e   94 (475)
                      ..++|++++++++.++..+...    .......+.-+++|..+++.|..++.+.+.-.. .|..-+.=++++.+...+++
T Consensus         4 eL~~gaalG~~~~eLlk~v~~~----~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~   79 (147)
T PF05659_consen    4 ELVGGAALGAVFGELLKAVIDA----SKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGK   79 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH----HHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHH
Confidence            3456666666666666655543    333344567889999999999999998876432 22222455788888888888


Q ss_pred             hhhhhH
Q 046770           95 DLLGEF  100 (475)
Q Consensus        95 D~lD~~  100 (475)
                      ++++.|
T Consensus        80 ~LV~k~   85 (147)
T PF05659_consen   80 ELVEKC   85 (147)
T ss_pred             HHHHHh
Confidence            888877

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 [].

>PRK08233 hypothetical protein; Provisional

Probab=96.56  E-value=0.0085  Score=53.13  Aligned_cols=24  Identities=29%  Similarity=0.473  Sum_probs=21.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|+|.|.+|+||||||..+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            368999999999999999999874

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.55  E-value=0.0068  Score=58.70  Aligned_cols=88  Identities=16%  Similarity=0.111  Sum_probs=54.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccc----cCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCChH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQ----CHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDLN  290 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~~  290 (475)
                      -+++-|+|++|+|||+|+.+++-.....    ..=..++|++....|++.++.. +.+.++....         ...+.+
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCCHH
Confidence            3788999999999999998876422211    1123689999999898887653 4555443211         112233


Q ss_pred             HHH---HHHHHHh-CCceEEEEEECC
Q 046770          291 LLQ---WKLKKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       291 ~l~---~~l~~~l-~~kr~LlVlDdv  312 (475)
                      ...   ..+...+ .++--|||+|.+
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSi  200 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSI  200 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcc
Confidence            333   2333333 334458999998

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.

>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=96.55  E-value=0.0092  Score=54.82  Aligned_cols=74  Identities=16%  Similarity=0.017  Sum_probs=40.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccc-cCcCeEEEEEecCCCCHHHHHHHHHHHhh-cCCCCCCChHHHHHHHHHHhC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFDLKAWTYVSQDFDIIRVTKSILRSVA-MGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~v~~~~~~~~~l~~il~~l~-~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      +|+|.|.+|+||||||+.+....... .. ..+..++...-+.....+...- .+. ...+...+.+.+...|.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~~~~~-~~v~vi~~D~f~~~~~~~~~~~-~~~~~g~p~~~d~~~l~~~L~~l~~   76 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSRWPDH-PNVELITTDGFLYPNKELIERG-LMDRKGFPESYDMEALLKFLKDIKS   76 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhhcCCC-CcEEEEecCcccCcHHHHHHhh-hhhcCCCcccCCHHHHHHHHHHHHC
Confidence            58999999999999999998732110 11 1233444444333332222211 111 122355566667666666655

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

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.53  E-value=0.0069  Score=59.21  Aligned_cols=88  Identities=18%  Similarity=0.104  Sum_probs=54.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCccc----ccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCChH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRV----QCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDLN  290 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~~  290 (475)
                      -++.-|+|++|+|||+|+.+++-....    ...-..++|++....|.+.++.. +.+.++....         ...+.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCCHH
Confidence            368889999999999999988642222    11124689999999999887654 4555543321         223334


Q ss_pred             HHHHH---HHHHh-CCceEEEEEECC
Q 046770          291 LLQWK---LKKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       291 ~l~~~---l~~~l-~~kr~LlVlDdv  312 (475)
                      .+...   +...+ ..+--|||+|.+
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSi  230 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSV  230 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCc
Confidence            33322   32233 234458899998

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

Probab=96.53  E-value=0.018  Score=56.67  Aligned_cols=102  Identities=15%  Similarity=0.093  Sum_probs=56.7

Q ss_pred             cEEEEEEccCCCcHH-HHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          224 FSVVSIIGMGGLGKT-TLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       224 ~~vv~I~G~gGiGKT-tLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      -+++.++|+.|+||| |||+..+......+ -..+..|+...- -...+-++...+-++.......+..++...+... +
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l-~  280 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEAL-R  280 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHh-h
Confidence            589999999999998 67776665331122 233555554331 2344555555555655554555666665555443 2


Q ss_pred             CceEEEEEECCCCCC--hhhHhHhhCcCC
Q 046770          302 GKRFLLVLDDVWNEN--YNDWIDLSRPFQ  328 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~--~~~~~~l~~~l~  328 (475)
                      .. =+|.+|-+....  .....++...+.
T Consensus       281 ~~-d~ILVDTaGrs~~D~~~i~el~~~~~  308 (407)
T COG1419         281 DC-DVILVDTAGRSQYDKEKIEELKELID  308 (407)
T ss_pred             cC-CEEEEeCCCCCccCHHHHHHHHHHHh
Confidence            22 356667775442  223344444443

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.51  E-value=0.0092  Score=51.41  Aligned_cols=116  Identities=15%  Similarity=0.108  Sum_probs=58.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC---CCCHHHHHHHHHHHhh-----cCC-CCCCCh------
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ---DFDIIRVTKSILRSVA-----MGI-VDHNDL------  289 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~---~~~~~~~l~~il~~l~-----~~~-~~~~~~------  289 (475)
                      ..|-|++..|.||||+|....-.  ...+=..+.++..-.   ......++..+ ..+.     ... ....+.      
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--ALGHGYRVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            36788888899999999766541  111111223332222   23333333333 0000     000 000111      


Q ss_pred             -HHHHHHHHHHhCCce-EEEEEECCCCC---ChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          290 -NLLQWKLKKQLFGKR-FLLVLDDVWNE---NYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       290 -~~l~~~l~~~l~~kr-~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                       ....+..++.+.... =|+|||++-..   .....+.+...+.....+.-+|+|.|+.
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             112233444444444 49999998321   2233445555555555678999999984

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.51  E-value=0.0097  Score=60.78  Aligned_cols=99  Identities=19%  Similarity=0.222  Sum_probs=59.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCC----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .++=|-++.+.+|.+++.....+    .-.-...+-|.++|++|.|||.||+.++++..+  .     ++.++.      
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v--P-----f~~isA------  256 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV--P-----FLSISA------  256 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC--c-----eEeecc------
Confidence            35667888888877766441110    001134567889999999999999999995322  2     233333      


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVW  313 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~  313 (475)
                        .+|+..+.     ....+.+.+...+.-..-+++++||++.
T Consensus       257 --peivSGvS-----GESEkkiRelF~~A~~~aPcivFiDeID  292 (802)
T KOG0733|consen  257 --PEIVSGVS-----GESEKKIRELFDQAKSNAPCIVFIDEID  292 (802)
T ss_pred             --hhhhcccC-----cccHHHHHHHHHHHhccCCeEEEeeccc
Confidence              22222222     2233334444444456679999999994

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.51  E-value=0.011  Score=64.10  Aligned_cols=133  Identities=17%  Similarity=0.100  Sum_probs=73.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      ..++|+...+..+.+.+.....      .-.-|.|+|..|+|||++|+.+++.....  -...+.+++....  ...+..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~------~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~~--~~~~~~  445 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQ------SDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAMP--AGLLES  445 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhC------CCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccCC--hhHhhh
Confidence            3689999888888776654221      12357899999999999999998743211  1223444444422  122222


Q ss_pred             HHHHhhcCCCCC--CChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEecC
Q 046770          275 ILRSVAMGIVDH--NDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITTR  341 (475)
Q Consensus       275 il~~l~~~~~~~--~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTtR  341 (475)
                         .+.+...+.  .........+.   ....=.|+|||+..........+...+..+           ..+.+||.||.
T Consensus       446 ---~lfg~~~~~~~g~~~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~  519 (686)
T PRK15429        446 ---DLFGHERGAFTGASAQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATN  519 (686)
T ss_pred             ---hhcCcccccccccccchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCC
Confidence               111211110  00000111121   122347999999877766666666555322           13458888887


Q ss_pred             Ch
Q 046770          342 NA  343 (475)
Q Consensus       342 ~~  343 (475)
                      ..
T Consensus       520 ~~  521 (686)
T PRK15429        520 RD  521 (686)
T ss_pred             CC
Confidence            54

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.50  E-value=0.0077  Score=58.92  Aligned_cols=132  Identities=15%  Similarity=0.013  Sum_probs=71.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|+...+.++.+.+.....      .-.-|.|+|..|+||+++|+.+.......  -..-+.+++.... . ..+...
T Consensus         7 ~liG~S~~~~~~~~~i~~~a~------~~~pVlI~GE~GtGK~~lA~~iH~~s~r~--~~pfv~v~c~~~~-~-~~~~~~   76 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLAP------LDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAALN-E-NLLDSE   76 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHhC------CCCCEEEECCCCCcHHHHHHHHHHhCCcc--CCCeEEEeCCCCC-H-HHHHHH
Confidence            588999888888888765321      12357899999999999999998632111  1122344554422 2 222221


Q ss_pred             HHHhhcCCCCC--CChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCC
Q 046770          276 LRSVAMGIVDH--NDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRN  342 (475)
Q Consensus       276 l~~l~~~~~~~--~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~  342 (475)
                         +.+.....  .........+.   ....=.|+|||+..........+...+..+.           ...+||.||..
T Consensus        77 ---lfg~~~~~~~g~~~~~~g~l~---~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~  150 (326)
T PRK11608         77 ---LFGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (326)
T ss_pred             ---HccccccccCCcccccCCchh---ccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCch
Confidence               21111000  00000001111   1222358899998777666666665553221           23688888765


Q ss_pred             h
Q 046770          343 A  343 (475)
Q Consensus       343 ~  343 (475)
                      .
T Consensus       151 ~  151 (326)
T PRK11608        151 D  151 (326)
T ss_pred             h
Confidence            3

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.49  E-value=0.013  Score=56.80  Aligned_cols=89  Identities=15%  Similarity=0.090  Sum_probs=52.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccc---c-CcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCCh
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---C-HFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDL  289 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~-~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~  289 (475)
                      .-.++.|+|.+|+|||+|+..++......   . .-..++|++....+...++ .++.+.++....         ...+.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~~  173 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYNT  173 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCCh
Confidence            34789999999999999999887532211   1 1135689998888887763 334444332210         11223


Q ss_pred             HHHHH---HHHHHhC-CceEEEEEECC
Q 046770          290 NLLQW---KLKKQLF-GKRFLLVLDDV  312 (475)
Q Consensus       290 ~~l~~---~l~~~l~-~kr~LlVlDdv  312 (475)
                      +.+..   .+...+. .+--|||+|.+
T Consensus       174 ~~~~~~l~~~~~~~~~~~~~LvVIDSI  200 (316)
T TIGR02239       174 DHQLQLLQQAAAMMSESRFALLIVDSA  200 (316)
T ss_pred             HHHHHHHHHHHHhhccCCccEEEEECc
Confidence            33322   2333333 34558899987

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).

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.48  E-value=0.011  Score=54.83  Aligned_cols=86  Identities=17%  Similarity=0.125  Sum_probs=52.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------------------
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------------------  283 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------------------  283 (475)
                      .-+++.|+|.+|+|||+|+.++.... .+ .=..++|++..+.  +.++++.+ .+++...                   
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~-~~-~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~   98 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGA-LK-QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGF   98 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH-Hh-CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccccc
Confidence            44789999999999999999986532 11 2346788887654  34444443 2222110                   


Q ss_pred             -CCCCChHHHHHHHHHHhCC-ceEEEEEECCC
Q 046770          284 -VDHNDLNLLQWKLKKQLFG-KRFLLVLDDVW  313 (475)
Q Consensus       284 -~~~~~~~~l~~~l~~~l~~-kr~LlVlDdv~  313 (475)
                       ....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus        99 ~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         99 EWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence             0112335566666666653 55589999974

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

Probab=96.48  E-value=0.0089  Score=53.78  Aligned_cols=81  Identities=21%  Similarity=0.183  Sum_probs=45.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcC---eEEEEEecCCCCHHHHHHHHHHHhh----cCCCCCCChHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFD---LKAWTYVSQDFDIIRVTKSILRSVA----MGIVDHNDLNLLQWKLKK  298 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~---~~~wv~v~~~~~~~~~l~~il~~l~----~~~~~~~~~~~l~~~l~~  298 (475)
                      ||+|.|++|+||||+|+.+...... ....   .....+............. -....    ...+...+.+.+...|..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~-~~~~~~~~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~~p~a~d~~~l~~~l~~   78 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK-RGIPAMEMDIILSLDDFYDDYHLRDR-KGRGENRYNFDHPDAFDFDLLKEDLKA   78 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT-CTTTCCCSEEEEEGGGGBHHHHHHHH-HHHCTTTSSTTSGGGBSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc-cCcCccceeEEEeecccccccchhhH-hhccccccCCCCccccCHHHHHHHHHH
Confidence            6899999999999999999873321 1122   1333333332222222211 11111    111245667778888888


Q ss_pred             HhCCceEEEE
Q 046770          299 QLFGKRFLLV  308 (475)
Q Consensus       299 ~l~~kr~LlV  308 (475)
                      ..+++..-+-
T Consensus        79 L~~g~~i~~p   88 (194)
T PF00485_consen   79 LKNGGSIEIP   88 (194)
T ss_dssp             HHTTSCEEEE
T ss_pred             HhCCCccccc
Confidence            7777765443

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.47  E-value=0.016  Score=53.65  Aligned_cols=119  Identities=18%  Similarity=0.239  Sum_probs=66.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcc-----cc---c---Cc---CeEEEEEecCCC------CH----------------
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSR-----VQ---C---HF---DLKAWTYVSQDF------DI----------------  268 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~-----~~---~---~F---~~~~wv~v~~~~------~~----------------  268 (475)
                      .+++|+|+.|.|||||.+.+..-.+     +.   .   .+   ..+.||.-...+      ++                
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~  110 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR  110 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence            5899999999999999999976211     00   0   01   234555321111      11                


Q ss_pred             ------HHHHHHHHHHhhcCC-----CCCCChHHHH-HHHHHHhCCceEEEEEECCCC----CChhhHhHhhCcCCCCCC
Q 046770          269 ------IRVTKSILRSVAMGI-----VDHNDLNLLQ-WKLKKQLFGKRFLLVLDDVWN----ENYNDWIDLSRPFQDGAP  332 (475)
Q Consensus       269 ------~~~l~~il~~l~~~~-----~~~~~~~~l~-~~l~~~l~~kr~LlVlDdv~~----~~~~~~~~l~~~l~~~~~  332 (475)
                            .+...+.|+.++...     -..-+-.+.+ -.|.+.|..++=|++||+--.    ......-+++..+...  
T Consensus       111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e--  188 (254)
T COG1121         111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE--  188 (254)
T ss_pred             cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC--
Confidence                  133344444443321     1122222333 346778888999999998532    2223333444444433  


Q ss_pred             CcEEEEecCChHH
Q 046770          333 GSKIIITTRNADA  345 (475)
Q Consensus       333 gs~ilvTtR~~~v  345 (475)
                      |+.||++|.+-..
T Consensus       189 g~tIl~vtHDL~~  201 (254)
T COG1121         189 GKTVLMVTHDLGL  201 (254)
T ss_pred             CCEEEEEeCCcHH
Confidence            8899999998543

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.47  E-value=0.011  Score=57.59  Aligned_cols=88  Identities=15%  Similarity=0.161  Sum_probs=53.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCC--
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHND--  288 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~--  288 (475)
                      -.++-|+|++|+|||+|+.+++........    =..++|++....|++.++.. +++.++....         ...+  
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~~~  180 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYNSD  180 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCCHH
Confidence            478899999999999999998754322111    14789999999888776643 3343332110         0111  


Q ss_pred             -hHHHHHHHHHHhCC--ceEEEEEECC
Q 046770          289 -LNLLQWKLKKQLFG--KRFLLVLDDV  312 (475)
Q Consensus       289 -~~~l~~~l~~~l~~--kr~LlVlDdv  312 (475)
                       ...+...+...+..  +--|||+|-+
T Consensus       181 ~~~~~~~~l~~~i~~~~~~~lvVIDSi  207 (317)
T PRK04301        181 HQMLLAEKAEELIKEGENIKLVIVDSL  207 (317)
T ss_pred             HHHHHHHHHHHHHhccCceeEEEEECc
Confidence             12234445555543  3348999987

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.46  E-value=0.0021  Score=65.90  Aligned_cols=49  Identities=22%  Similarity=0.352  Sum_probs=38.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +++|-++.+++|++.|.....+..  ..-+++.++||+|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~--~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLE--EKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcC--CCCceEEEecCCCCCchHHHHHHHH
Confidence            589999999999998833111111  3447999999999999999999876

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.44  E-value=0.0037  Score=56.45  Aligned_cols=111  Identities=14%  Similarity=0.118  Sum_probs=58.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH-HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII-RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~-~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      .++.|+|+.|+||||++..+....  .......++. +.++.... .-...++.+-    ....+.......++..+...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~--~~~~~~~i~t-~e~~~E~~~~~~~~~i~q~----~vg~~~~~~~~~i~~aLr~~   74 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI--NKNKTHHILT-IEDPIEFVHESKRSLINQR----EVGLDTLSFENALKAALRQD   74 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh--hhcCCcEEEE-EcCCccccccCccceeeec----ccCCCccCHHHHHHHHhcCC
Confidence            378999999999999999877632  2222333332 12211100 0000111110    00112233455677777666


Q ss_pred             eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH
Q 046770          304 RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL  347 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~  347 (475)
                      +=+|++|++.+.  +.........   ..|..++.|+...++..
T Consensus        75 pd~ii~gEird~--e~~~~~l~~a---~~G~~v~~t~Ha~~~~~  113 (198)
T cd01131          75 PDVILVGEMRDL--ETIRLALTAA---ETGHLVMSTLHTNSAAK  113 (198)
T ss_pred             cCEEEEcCCCCH--HHHHHHHHHH---HcCCEEEEEecCCcHHH
Confidence            779999999543  3333333222   23556888887765544

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.41  E-value=0.02  Score=53.41  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +..|+|++|+|||+||..++-
T Consensus         3 ~~ll~g~~G~GKS~lal~la~   23 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLAL   23 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHH
Confidence            567999999999999998875

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.41  E-value=0.019  Score=55.19  Aligned_cols=80  Identities=18%  Similarity=0.078  Sum_probs=46.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccC--cCeEEEEEecCCCCHHHHHHHHHHHh-hcCCCCCCChHHHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH--FDLKAWTYVSQDFDIIRVTKSILRSV-AMGIVDHNDLNLLQWKLKK  298 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~v~~~~~~~~~l~~il~~l-~~~~~~~~~~~~l~~~l~~  298 (475)
                      ...-+|+|.|.+|+||||+|+.+..-  ....  -..+.-++...-+.....+..- ..+ ....+..-+.+.+...|..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~--l~~~~~~~~v~vi~~DdFy~~~~~l~~~-~l~~~kg~Pes~D~~~l~~~L~~  160 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQAL--LSRWPEHPKVELVTTDGFLYPNAVLEER-GLMKRKGFPESYDMRALLRFLSD  160 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HHhhCCCCceEEEeccccccCHHHHhhh-hccccCCCcccccHHHHHHHHHH
Confidence            55689999999999999999988762  2211  1123334444433333322211 011 1122455667777777777


Q ss_pred             HhCCce
Q 046770          299 QLFGKR  304 (475)
Q Consensus       299 ~l~~kr  304 (475)
                      ...|+.
T Consensus       161 Lk~G~~  166 (311)
T PRK05439        161 VKSGKP  166 (311)
T ss_pred             HHcCCC
Confidence            777765

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.41  E-value=0.031  Score=57.80  Aligned_cols=135  Identities=13%  Similarity=0.082  Sum_probs=70.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ...+-|.++|++|.|||++|+.+++.  ....|     +++..+        +++....     ......+.+..++.=+
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne--~~~nF-----lsvkgp--------EL~sk~v-----GeSEr~ir~iF~kAR~  525 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANE--AGMNF-----LSVKGP--------ELFSKYV-----GESERAIREVFRKARQ  525 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhh--hcCCe-----eeccCH--------HHHHHhc-----CchHHHHHHHHHHHhh
Confidence            34577899999999999999999994  33334     233221        1111111     1122222223333333


Q ss_pred             CceEEEEEECCCCCC-----------hhhHhHhhCcCCCCC--CCcEEEEecCChHHHH--hcC---CCceeeCCCCCHH
Q 046770          302 GKRFLLVLDDVWNEN-----------YNDWIDLSRPFQDGA--PGSKIIITTRNADAAL--IMG---TVQAYPLKGLSND  363 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~~~~--~gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~  363 (475)
                      --+++|.||.++...           .....+++..+....  .+.-||-.|..++...  .+.   -...+.++.-+.+
T Consensus       526 ~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~  605 (693)
T KOG0730|consen  526 VAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLE  605 (693)
T ss_pred             cCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHH
Confidence            456889999884211           011333444443222  2333444444433321  223   2356667777777


Q ss_pred             HHHHHHhhcccCC
Q 046770          364 DCMCLFTQHSLET  376 (475)
Q Consensus       364 ~~~~lf~~~~~~~  376 (475)
                      .-.++|+.++-..
T Consensus       606 aR~~Ilk~~~kkm  618 (693)
T KOG0730|consen  606 ARLEILKQCAKKM  618 (693)
T ss_pred             HHHHHHHHHHhcC
Confidence            7888998887543

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.40  E-value=0.029  Score=49.27  Aligned_cols=23  Identities=39%  Similarity=0.572  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||.+.++.-
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            48999999999999999999874

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.39  E-value=0.014  Score=54.17  Aligned_cols=123  Identities=13%  Similarity=0.101  Sum_probs=70.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-----CCCHHHHHHHHHHHhhcCCC------CCCChHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-----DFDIIRVTKSILRSVAMGIV------DHNDLNLLQ  293 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-----~~~~~~~l~~il~~l~~~~~------~~~~~~~l~  293 (475)
                      .+++|+|.+|+|||||++.+..=.   ..-...++..-.+     .....+-..++++.++....      ..-+-.+.+
T Consensus        40 e~~glVGESG~GKSTlgr~i~~L~---~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQ  116 (268)
T COG4608          40 ETLGLVGESGCGKSTLGRLILGLE---EPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQ  116 (268)
T ss_pred             CEEEEEecCCCCHHHHHHHHHcCc---CCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhh
Confidence            489999999999999999998732   2222333332111     12233445566666553321      111122222


Q ss_pred             H-HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhcC
Q 046770          294 W-KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       294 ~-~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      + .+.+.|.-++-|||.|+.-+. +...-.+++..+..  ...|...+..|.+-.+...++
T Consensus       117 Ri~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~is  177 (268)
T COG4608         117 RIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYIS  177 (268)
T ss_pred             hHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhc
Confidence            2 466778888999999997432 22222333333331  234677888888877776655

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

Probab=96.38  E-value=0.066  Score=55.98  Aligned_cols=164  Identities=16%  Similarity=0.167  Sum_probs=86.2

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      +.+.+|.++-+++|++.+.-..-.+.  -+-++++.+|++|+|||++|+.++.-  ....|   +-++++.-.|..+|  
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs--~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF---fRfSvGG~tDvAeI--  480 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGS--VQGKILCFVGPPGVGKTSIAKSIARA--LNRKF---FRFSVGGMTDVAEI--  480 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhccc--CCCcEEEEeCCCCCCcccHHHHHHHH--hCCce---EEEeccccccHHhh--
Confidence            45689999999999998753111111  33479999999999999999999873  33223   11344554443332  


Q ss_pred             HHHHHhhcCCC--CCCChHHHHHHHHHHhCCceEEEEEECCCCCCh----hhHhHhhCcCCCC-------------CCCc
Q 046770          274 SILRSVAMGIV--DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY----NDWIDLSRPFQDG-------------APGS  334 (475)
Q Consensus       274 ~il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~-------------~~gs  334 (475)
                            .++..  -..-...+++.|+.. +..+-|+.||.|.....    +.=..++..|.+.             --=|
T Consensus       481 ------kGHRRTYVGAMPGkiIq~LK~v-~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLS  553 (906)
T KOG2004|consen  481 ------KGHRRTYVGAMPGKIIQCLKKV-KTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLS  553 (906)
T ss_pred             ------cccceeeeccCChHHHHHHHhh-CCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchh
Confidence                  11110  011112233333332 34467889999843210    0111122211110             0124


Q ss_pred             EEEE--ecCChH--HHHhcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          335 KIII--TTRNAD--AALIMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       335 ~ilv--TtR~~~--v~~~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      +|++  |...-+  -........+++|.+...+|-..+-.++.
T Consensus       554 kVLFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  554 KVLFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             heEEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence            5543  322211  11222345778888888888777666554

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.37  E-value=0.0063  Score=54.83  Aligned_cols=77  Identities=21%  Similarity=0.172  Sum_probs=43.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH--hhcCCCCCCChHHHHHHHHHHh
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS--VAMGIVDHNDLNLLQWKLKKQL  300 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~--l~~~~~~~~~~~~l~~~l~~~l  300 (475)
                      .+.+|+|.|.+|+||||+|+.++...  ...+  ..-++...-+...+. ......  ..-..+...+.+.+...|...+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~--~~~~--~~~I~~D~YYk~~~~-~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~   81 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL--GVEK--VVVISLDDYYKDQSH-LPFEERNKINYDHPEAFDLDLLIEHLKDLK   81 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh--CcCc--ceEeeccccccchhh-cCHhhcCCcCccChhhhcHHHHHHHHHHHH
Confidence            46799999999999999999999843  3221  111221111110000 000000  1111234566777888888888


Q ss_pred             CCce
Q 046770          301 FGKR  304 (475)
Q Consensus       301 ~~kr  304 (475)
                      +|++
T Consensus        82 ~g~~   85 (218)
T COG0572          82 QGKP   85 (218)
T ss_pred             cCCc
Confidence            8887

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.37  E-value=0.025  Score=57.23  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=22.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ...+|.++|.+|+||||++..++...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L  119 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF  119 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999887643

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.36  E-value=0.013  Score=57.88  Aligned_cols=89  Identities=17%  Similarity=0.150  Sum_probs=48.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      .++.++|+.|+||||++..+............+..++... .....+-+....+.++.......+...+...+.+ +.++
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~-l~~~  216 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAE-LRNK  216 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHH-hcCC
Confidence            6899999999999999999887422121122344454322 1233444555555554433222233333333433 3444


Q ss_pred             eEEEEEECCCCC
Q 046770          304 RFLLVLDDVWNE  315 (475)
Q Consensus       304 r~LlVlDdv~~~  315 (475)
                       =+|++|.....
T Consensus       217 -DlVLIDTaG~~  227 (374)
T PRK14722        217 -HMVLIDTIGMS  227 (374)
T ss_pred             -CEEEEcCCCCC
Confidence             45669998544

>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=96.36  E-value=0.014  Score=51.47  Aligned_cols=113  Identities=25%  Similarity=0.341  Sum_probs=59.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC---cccccC---cC--eEEEEEecCCCCHHHHHHHHHHHhhcCCC----CCCCh---
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND---SRVQCH---FD--LKAWTYVSQDFDIIRVTKSILRSVAMGIV----DHNDL---  289 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~---~~~~~~---F~--~~~wv~v~~~~~~~~~l~~il~~l~~~~~----~~~~~---  289 (475)
                      .+++|+|+.|+|||||.+.+..+   ..+...   |.  ...|+  .+        .+.+..+.....    ....+   
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSgG   91 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSGG   91 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCHH
Confidence            58999999999999999988632   111111   10  12232  22        345555543211    11111   


Q ss_pred             HHHHHHHHHHhCCc--eEEEEEECCCC-CChhhHhHhhCcCCC-CCCCcEEEEecCChHHHH
Q 046770          290 NLLQWKLKKQLFGK--RFLLVLDDVWN-ENYNDWIDLSRPFQD-GAPGSKIIITTRNADAAL  347 (475)
Q Consensus       290 ~~l~~~l~~~l~~k--r~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~ilvTtR~~~v~~  347 (475)
                      ....-.+...+-.+  +=+++||+.-. .+......+...+.. ...|..||++|.+.+...
T Consensus        92 q~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          92 ELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            11222344555556  67888999733 233333334333332 124677888888876654

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.36  E-value=0.018  Score=51.92  Aligned_cols=104  Identities=17%  Similarity=0.206  Sum_probs=52.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHh----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL----  300 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l----  300 (475)
                      +++.|.|++|.||||++..+.......   ...+.+......-.    ..+-+..+...   .+..   ..+....    
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~---g~~v~~~apT~~Aa----~~L~~~~~~~a---~Ti~---~~l~~~~~~~~   85 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAA---GKRVIGLAPTNKAA----KELREKTGIEA---QTIH---SFLYRIPNGDD   85 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHT---T--EEEEESSHHHH----HHHHHHHTS-E---EEHH---HHTTEECCEEC
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhC---CCeEEEECCcHHHH----HHHHHhhCcch---hhHH---HHHhcCCcccc
Confidence            588899999999999999887633222   12333333332222    22222222110   0000   0000000    


Q ss_pred             -----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          301 -----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       301 -----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                           ..+.-+||+|++.-.+...+..+......  .++++|+.--..
T Consensus        86 ~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~  131 (196)
T PF13604_consen   86 EGRPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPN  131 (196)
T ss_dssp             CSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TT
T ss_pred             cccccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcc
Confidence                 12345999999976665667776666554  477888766543

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.34  E-value=0.039  Score=50.30  Aligned_cols=57  Identities=14%  Similarity=0.216  Sum_probs=36.6

Q ss_pred             HHHHHHhCCceEEEEEECCC-CCChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhcC
Q 046770          294 WKLKKQLFGKRFLLVLDDVW-NENYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       294 ~~l~~~l~~kr~LlVlDdv~-~~~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      -.+.+.|-..+-+|+-|+-- +-+...=..+...|..  ...|..||+.|.++.++..+.
T Consensus       151 VAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~d  210 (226)
T COG1136         151 VAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYAD  210 (226)
T ss_pred             HHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhCC
Confidence            35677777888899999852 2222222333333332  235789999999999998654

>PRK07667 uridine kinase; Provisional

Probab=96.34  E-value=0.0052  Score=55.25  Aligned_cols=38  Identities=21%  Similarity=0.369  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.|.+.+.. ..     +...+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~~~~-~~-----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKK-HK-----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHh-cC-----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4566766655 32     33489999999999999999999874

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.31  E-value=0.012  Score=51.35  Aligned_cols=115  Identities=17%  Similarity=0.117  Sum_probs=59.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC--CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD--FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~--~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      .+++|+|+.|.|||||.+.++...   ......+++.-...  .+..+....   .+..- ..-..-+...-.+.+.+-.
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~---~i~~~-~qLS~G~~qrl~laral~~   99 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDARRA---GIAMV-YQLSVGERQMVEIARALAR   99 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHHhc---CeEEE-EecCHHHHHHHHHHHHHhc
Confidence            489999999999999999998742   22334444422111  111111110   11100 0111112222345556667


Q ss_pred             ceEEEEEECCCC-CChhhHhHhhCcCCC-CCCCcEEEEecCChHHH
Q 046770          303 KRFLLVLDDVWN-ENYNDWIDLSRPFQD-GAPGSKIIITTRNADAA  346 (475)
Q Consensus       303 kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~ilvTtR~~~v~  346 (475)
                      ++-++++|+.-. .+......+...+.. ...+..||++|.+....
T Consensus       100 ~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216         100 NARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            778999999743 233333344333332 12366788888886543

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.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.29  E-value=0.018  Score=50.74  Aligned_cols=23  Identities=43%  Similarity=0.644  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||.+.++..
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGL   51 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            48999999999999999999864

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

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.26  E-value=0.047  Score=54.38  Aligned_cols=90  Identities=12%  Similarity=0.117  Sum_probs=50.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCccccc--CcCeEEEEEecCCCCH--HHHHHHHHHHhhcCCCCCCChHHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQC--HFDLKAWTYVSQDFDI--IRVTKSILRSVAMGIVDHNDLNLLQWKLKK  298 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--~F~~~~wv~v~~~~~~--~~~l~~il~~l~~~~~~~~~~~~l~~~l~~  298 (475)
                      ..+++.++|+.|+||||.+..++.......  +-..+..+++. ++..  .+.+....+.++...........+...+.+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~  251 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ  251 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH
Confidence            357999999999999999988876432211  11223334433 3332  223444444444433333444555555544


Q ss_pred             HhCCceEEEEEECCCCC
Q 046770          299 QLFGKRFLLVLDDVWNE  315 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~~~  315 (475)
                      .  .+.=++++|.....
T Consensus       252 ~--~~~DlVLIDTaGr~  266 (388)
T PRK12723        252 S--KDFDLVLVDTIGKS  266 (388)
T ss_pred             h--CCCCEEEEcCCCCC
Confidence            3  33458888988544

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.25  E-value=0.019  Score=55.89  Aligned_cols=55  Identities=13%  Similarity=0.157  Sum_probs=39.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHHHh
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILRSV  279 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~~l  279 (475)
                      -+++-|+|++|+|||+|+.+++.+.....    .=..++||+....|++.++. ++++.+
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~  153 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEAR  153 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHc
Confidence            47889999999999999999876432211    11268999999988877654 344443

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.25  E-value=0.018  Score=54.33  Aligned_cols=89  Identities=22%  Similarity=0.115  Sum_probs=56.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH-hhcCC-CCCCChH---HHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS-VAMGI-VDHNDLN---LLQWKL  296 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~-l~~~~-~~~~~~~---~l~~~l  296 (475)
                      +.-+++=|+|+.|+||||||.+++-+.  +..-...+|++.-..+++..+. ++... +..-. ....+.+   .+...+
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~a--q~~g~~a~fIDtE~~l~p~r~~-~l~~~~~d~l~v~~~~~~e~q~~i~~~~  134 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANA--QKPGGKAAFIDTEHALDPERAK-QLGVDLLDNLLVSQPDTGEQQLEIAEKL  134 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHh--hcCCCeEEEEeCCCCCCHHHHH-HHHHhhhcceeEecCCCHHHHHHHHHHH
Confidence            344788899999999999999987643  3333478999999999987664 33333 21110 1223333   333344


Q ss_pred             HHHhCCceEEEEEECCC
Q 046770          297 KKQLFGKRFLLVLDDVW  313 (475)
Q Consensus       297 ~~~l~~kr~LlVlDdv~  313 (475)
                      ......+--|+|+|.+-
T Consensus       135 ~~~~~~~i~LvVVDSva  151 (279)
T COG0468         135 ARSGAEKIDLLVVDSVA  151 (279)
T ss_pred             HHhccCCCCEEEEecCc
Confidence            44444445699999983

>PHA02244 ATPase-like protein

Probab=96.24  E-value=0.018  Score=56.30  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|++|+|||+||+.++..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999999873

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.23  E-value=0.0097  Score=61.80  Aligned_cols=71  Identities=18%  Similarity=0.197  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      .-|.|.|+.|+|||+||+.+++... +++.-++.+++++.-..  ...+.                 ..+.....+.+..
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQ-----------------k~l~~vfse~~~~  493 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQ-----------------KFLNNVFSEALWY  493 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHH-----------------HHHHHHHHHHHhh
Confidence            5688999999999999999998654 45555666777665221  11111                 1112233445567


Q ss_pred             ceEEEEEECCC
Q 046770          303 KRFLLVLDDVW  313 (475)
Q Consensus       303 kr~LlVlDdv~  313 (475)
                      .+-+|||||++
T Consensus       494 ~PSiIvLDdld  504 (952)
T KOG0735|consen  494 APSIIVLDDLD  504 (952)
T ss_pred             CCcEEEEcchh
Confidence            78999999994

>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=96.23  E-value=0.028  Score=49.66  Aligned_cols=102  Identities=14%  Similarity=0.134  Sum_probs=54.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE------ecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY------VSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK  298 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~------v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~  298 (475)
                      .+++|+|+.|.|||||.+.+..-..   .....+++.      +.+...                  -..-....-.+.+
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~---p~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~lar   84 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLI---PNGDNDEWDGITPVYKPQYID------------------LSGGELQRVAIAA   84 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCC---CCCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHHH
Confidence            4899999999999999999987422   112222221      111111                  1111122223555


Q ss_pred             HhCCceEEEEEECCCCC-ChhhHhHhhCcCCCC-CC-CcEEEEecCChHHHH
Q 046770          299 QLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQDG-AP-GSKIIITTRNADAAL  347 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-gs~ilvTtR~~~v~~  347 (475)
                      .+..++-++++|+--.. +......+...+... .. +..||++|.+.....
T Consensus        85 al~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          85 ALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            56667789999997432 222333333333211 12 356777777755444

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.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.23  E-value=0.0033  Score=52.13  Aligned_cols=21  Identities=38%  Similarity=0.582  Sum_probs=19.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.+...
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            689999999999999999874

...

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.23  E-value=0.043  Score=58.83  Aligned_cols=130  Identities=13%  Similarity=0.113  Sum_probs=69.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +-|.|+|++|+|||++|+.+++..  ...|   +.++.+.      +.    ....     ......+...+.......+
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~--~~~f---~~is~~~------~~----~~~~-----g~~~~~~~~~f~~a~~~~P  245 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSD------FV----EMFV-----GVGASRVRDMFEQAKKAAP  245 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHc--CCCE---EEEehHH------hH----Hhhh-----cccHHHHHHHHHHHHhcCC
Confidence            348899999999999999998743  2222   1222111      11    1110     1111222333333344568


Q ss_pred             EEEEEECCCCCC----------hhhHh----HhhCcCC--CCCCCcEEEEecCChHHHH--hcC---CCceeeCCCCCHH
Q 046770          305 FLLVLDDVWNEN----------YNDWI----DLSRPFQ--DGAPGSKIIITTRNADAAL--IMG---TVQAYPLKGLSND  363 (475)
Q Consensus       305 ~LlVlDdv~~~~----------~~~~~----~l~~~l~--~~~~gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~  363 (475)
                      ++|+||+++...          ...+.    .++..+.  ....+.-+|.||..++...  ...   -...+.+...+.+
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            899999985321          11222    2222222  1223556666777654322  111   2356778888888


Q ss_pred             HHHHHHhhccc
Q 046770          364 DCMCLFTQHSL  374 (475)
Q Consensus       364 ~~~~lf~~~~~  374 (475)
                      +-.+++..+..
T Consensus       326 ~R~~Il~~~~~  336 (644)
T PRK10733        326 GREQILKVHMR  336 (644)
T ss_pred             HHHHHHHHHhh
Confidence            88888877653

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.23  E-value=0.023  Score=54.17  Aligned_cols=80  Identities=19%  Similarity=0.068  Sum_probs=42.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCc-C-eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF-D-LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQ  299 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F-~-~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~  299 (475)
                      ....+|+|.|+.|+||||+|+.+..-  ..... . .+..++...-......+...-..-....+..-+...+...+...
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~l--l~~~~~~g~V~vi~~D~f~~~~~~l~~~g~~~~~g~P~s~D~~~l~~~L~~L  137 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQAL--LSRWPEHRKVELITTDGFLHPNQVLKERNLMKKKGFPESYDMHRLVKFLSDL  137 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH--HhhcCCCCceEEEecccccccHHHHHHcCCccccCCChhccHHHHHHHHHHH
Confidence            45689999999999999999876542  11111 1 23333333322222222211000011223455666677777766


Q ss_pred             hCCc
Q 046770          300 LFGK  303 (475)
Q Consensus       300 l~~k  303 (475)
                      ..|+
T Consensus       138 k~g~  141 (290)
T TIGR00554       138 KSGK  141 (290)
T ss_pred             HCCC
Confidence            6655

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.22  E-value=0.004  Score=52.82  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      --|.|+|++|+|||||++.+.+..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHH
Confidence            457899999999999999998743

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.22  E-value=0.047  Score=51.89  Aligned_cols=52  Identities=17%  Similarity=0.169  Sum_probs=35.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV  279 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l  279 (475)
                      .++.|.|.+|+||||++.+++.+.. ..+=..++|++...  +..++...++..+
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~--~~~~~~~r~~~~~   82 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEE--PVVRTARRLLGQY   82 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEccc--CHHHHHHHHHHHH
Confidence            5888999999999999998876432 22124577887765  3456666665544

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.21  E-value=0.1  Score=54.31  Aligned_cols=134  Identities=16%  Similarity=0.086  Sum_probs=76.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ...+.+.++|++|.|||.||+.+++.  ...+|     +.+...        +++...     -......+........+
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~--~~~~f-----i~v~~~--------~l~sk~-----vGesek~ir~~F~~A~~  333 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALE--SRSRF-----ISVKGS--------ELLSKW-----VGESEKNIRELFEKARK  333 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhh--CCCeE-----EEeeCH--------HHhccc-----cchHHHHHHHHHHHHHc
Confidence            44568999999999999999999993  33333     222221        111111     11122233333444446


Q ss_pred             CceEEEEEECCCCC------C-----hhhHhHhhCcCC--CCCCCcEEEEecCChHHHHh---c--CCCceeeCCCCCHH
Q 046770          302 GKRFLLVLDDVWNE------N-----YNDWIDLSRPFQ--DGAPGSKIIITTRNADAALI---M--GTVQAYPLKGLSND  363 (475)
Q Consensus       302 ~kr~LlVlDdv~~~------~-----~~~~~~l~~~l~--~~~~gs~ilvTtR~~~v~~~---~--~~~~~~~l~~L~~~  363 (475)
                      ..++.|++|++..-      +     .....+++..+.  ....+..+|-||..+.....   .  .-...+.+.+-+.+
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            78999999999421      1     012333444443  22234455666665433221   1  12356888888999


Q ss_pred             HHHHHHhhcccC
Q 046770          364 DCMCLFTQHSLE  375 (475)
Q Consensus       364 ~~~~lf~~~~~~  375 (475)
                      +..+.|..+...
T Consensus       414 ~r~~i~~~~~~~  425 (494)
T COG0464         414 ERLEIFKIHLRD  425 (494)
T ss_pred             HHHHHHHHHhcc
Confidence            999999988753

>PRK06547 hypothetical protein; Provisional

Probab=96.21  E-value=0.0067  Score=53.33  Aligned_cols=26  Identities=38%  Similarity=0.362  Sum_probs=23.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....+|.|.|++|+||||+|+.+.+.
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999874

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.19  E-value=0.023  Score=52.86  Aligned_cols=48  Identities=17%  Similarity=0.216  Sum_probs=33.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .-+++.|.|++|+|||+||.++.... . ..-+..+|++...  ++.++.+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~-~-~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcEEEEEeeC--CHHHHHHH
Confidence            34789999999999999998876532 1 2235678887765  44455554

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.16  E-value=0.018  Score=60.05  Aligned_cols=134  Identities=16%  Similarity=0.129  Sum_probs=75.2

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ...++|+...++++.+.+.....      .-.-|.|+|..|+|||++|+.+.+.....  -...+.|++....+  ..+.
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~------~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~--~~p~v~v~c~~~~~--~~~e  255 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAA------SDLNVLILGETGVGKELVARAIHAASPRA--DKPLVYLNCAALPE--SLAE  255 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhC------CCCcEEEECCCCccHHHHHHHHHHhCCcC--CCCeEEEEcccCCh--HHHH
Confidence            34689999999999888876321      22467899999999999999998743211  11334455554332  2222


Q ss_pred             HHHHHhhcCCCCC--CChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEec
Q 046770          274 SILRSVAMGIVDH--NDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITT  340 (475)
Q Consensus       274 ~il~~l~~~~~~~--~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTt  340 (475)
                      .   .+.+...+.  .........+.   ....=.|+||++..........+...+..+.           ...+||.||
T Consensus       256 ~---~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t  329 (509)
T PRK05022        256 S---ELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAAT  329 (509)
T ss_pred             H---HhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEec
Confidence            1   222211110  00000000111   1122347899998877666667766554321           245888888


Q ss_pred             CCh
Q 046770          341 RNA  343 (475)
Q Consensus       341 R~~  343 (475)
                      ...
T Consensus       330 ~~~  332 (509)
T PRK05022        330 NRD  332 (509)
T ss_pred             CCC
Confidence            753

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.14  E-value=0.017  Score=55.66  Aligned_cols=83  Identities=23%  Similarity=0.215  Sum_probs=51.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~  298 (475)
                      -+++-|+|+.|+||||||..+...  ....-..++|+.....+++.     .++.++....     .....++..+....
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~--~q~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~e~  125 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAE--AQKQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIAEQ  125 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH--HHHTT-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHh--hhcccceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHHHH
Confidence            368999999999999999988874  33334578999998877753     3444443321     23444555666666


Q ss_pred             HhC-CceEEEEEECCC
Q 046770          299 QLF-GKRFLLVLDDVW  313 (475)
Q Consensus       299 ~l~-~kr~LlVlDdv~  313 (475)
                      .++ +.--++|+|-|-
T Consensus       126 lirsg~~~lVVvDSv~  141 (322)
T PF00154_consen  126 LIRSGAVDLVVVDSVA  141 (322)
T ss_dssp             HHHTTSESEEEEE-CT
T ss_pred             HhhcccccEEEEecCc
Confidence            664 344589999983

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 ....

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.13  E-value=0.038  Score=52.21  Aligned_cols=89  Identities=11%  Similarity=0.148  Sum_probs=46.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC-C
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF-G  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~-~  302 (475)
                      .++.++|.+|+||||++..+.....  ..=..+.+++..... ....-+....+.++.......+...+...+...-. +
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~--~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  153 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFH--GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  153 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH--HcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcC
Confidence            5899999999999999998866321  111234455543221 12222222222222222222344555544443322 2


Q ss_pred             ceEEEEEECCCCC
Q 046770          303 KRFLLVLDDVWNE  315 (475)
Q Consensus       303 kr~LlVlDdv~~~  315 (475)
                      +.=++++|.....
T Consensus       154 ~~D~ViIDt~Gr~  166 (270)
T PRK06731        154 RVDYILIDTAGKN  166 (270)
T ss_pred             CCCEEEEECCCCC
Confidence            3458888988554

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.13  E-value=0.027  Score=49.54  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.++|++|+||||++..++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999988764

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.

>PTZ00301 uridine kinase; Provisional

Probab=96.11  E-value=0.0068  Score=55.12  Aligned_cols=23  Identities=30%  Similarity=0.557  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|+|.|.+|+||||||+.+.+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            47999999999999999998875

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=0.036  Score=60.12  Aligned_cols=121  Identities=12%  Similarity=0.087  Sum_probs=69.2

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|-++.+..|-+.+..+..+...........+.|+.|+|||-||+.++..  +-+..+..+-++.++-      ..  
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~--~Fgse~~~IriDmse~------~e--  632 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEY--VFGSEENFIRLDMSEF------QE--  632 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHH--HcCCccceEEechhhh------hh--
Confidence            4677777777777777653322221124567789999999999999998873  2222333343333331      11  


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceE-EEEEECCCCCChhhHhHhhCcC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRF-LLVLDDVWNENYNDWIDLSRPF  327 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l  327 (475)
                      ...+....++--. ..-...|.+.++.++| +|+||||...+......+...+
T Consensus       633 vskligsp~gyvG-~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~l  684 (898)
T KOG1051|consen  633 VSKLIGSPPGYVG-KEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLL  684 (898)
T ss_pred             hhhccCCCccccc-chhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHH
Confidence            2233222221111 1223467778888877 6667999877665555444443

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.10  E-value=0.027  Score=52.16  Aligned_cols=26  Identities=35%  Similarity=0.468  Sum_probs=23.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....+++|.|+.|.|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999998874

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.10  E-value=0.035  Score=50.70  Aligned_cols=23  Identities=26%  Similarity=0.242  Sum_probs=20.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            37899999999999999998863

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

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.015  Score=58.57  Aligned_cols=55  Identities=35%  Similarity=0.389  Sum_probs=37.7

Q ss_pred             cccccc---hhHHHHHHHHhcCCCCCC-CCCccEEEEEEccCCCcHHHHHHHHHcCccc
Q 046770          196 KVYGRS---KEREEIVELLLKEDGTSH-NNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV  250 (475)
Q Consensus       196 ~~vGR~---~e~~~l~~~L~~~~~~~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  250 (475)
                      ++-|-+   .|+++|++.|.++..-.. .+.=++-|.++|++|.|||-||+.++-...+
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~V  363 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGV  363 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCC
Confidence            345544   578888999877321100 0133466889999999999999999986543

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.10  E-value=0.033  Score=51.56  Aligned_cols=48  Identities=19%  Similarity=0.113  Sum_probs=30.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      -.++.|.|++|+||||||.+++... .+.. ...++++...  +..++++.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            3589999999999999986665532 1222 3456666333  445555555

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.10  E-value=0.036  Score=48.83  Aligned_cols=117  Identities=15%  Similarity=0.150  Sum_probs=58.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhc--CC---CCC--------CCh-H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAM--GI---VDH--------NDL-N  290 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~--~~---~~~--------~~~-~  290 (475)
                      .+++|+|+.|.|||||.+.++....   .....+++.-....+..   ..+-..+..  +.   ...        -+. +
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~  100 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGLLK---PDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGGM  100 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC---CCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHHH
Confidence            4899999999999999999987421   12233332111000000   000000000  00   000        111 1


Q ss_pred             HHHHHHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC-CCCCcEEEEecCChHHHH
Q 046770          291 LLQWKLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD-GAPGSKIIITTRNADAAL  347 (475)
Q Consensus       291 ~l~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~ilvTtR~~~v~~  347 (475)
                      ...-.+...+..++=++++|+.-.. +......+...+.. ...|..||++|.+.....
T Consensus       101 ~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230         101 KQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            1222455666778889999997432 23333333333332 123677888888866544

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.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.09  E-value=0.0049  Score=52.29  Aligned_cols=21  Identities=33%  Similarity=0.506  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +|.+.|++|+||||+|+.+..
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            578999999999999999985

...

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.07  E-value=0.027  Score=55.13  Aligned_cols=89  Identities=15%  Similarity=0.085  Sum_probs=54.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccc---c-CcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCCh
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---C-HFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDL  289 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~-~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~  289 (475)
                      .-.++-|.|.+|+|||+|+..++-.....   . .-..++|++....|.+.++ .++++.++....         ...+.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~  200 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNT  200 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCH
Confidence            34788899999999999998877432211   1 1126899999999988776 455555443221         12233


Q ss_pred             HHHHHHHH---HHh-CCceEEEEEECC
Q 046770          290 NLLQWKLK---KQL-FGKRFLLVLDDV  312 (475)
Q Consensus       290 ~~l~~~l~---~~l-~~kr~LlVlDdv  312 (475)
                      +.+...+.   ..+ ..+.-|||+|-+
T Consensus       201 e~~~~ll~~~~~~~~~~~~~LIVIDSI  227 (342)
T PLN03186        201 DHQSELLLEAASMMAETRFALMIVDSA  227 (342)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEeCc
Confidence            33333332   223 344558899987

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.07  E-value=0.0054  Score=55.92  Aligned_cols=26  Identities=35%  Similarity=0.590  Sum_probs=23.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+..+|+|.|++|+|||||++.++..
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35679999999999999999999874

>PRK14974 cell division protein FtsY; Provisional

Probab=96.06  E-value=0.045  Score=53.41  Aligned_cols=90  Identities=13%  Similarity=0.109  Sum_probs=46.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCC---CCCChHH-HHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIV---DHNDLNL-LQWKL  296 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~---~~~~~~~-l~~~l  296 (475)
                      +..++.++|++|+||||++..++.... ...+. ++.+. .+.+.  ..+.+......++....   ...+... ....+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~~-V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGFS-VVIAA-GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCe-EEEec-CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            468999999999999998877775322 12232 23333 22222  23334445555543221   1222222 23333


Q ss_pred             HHHhCCceEEEEEECCCCC
Q 046770          297 KKQLFGKRFLLVLDDVWNE  315 (475)
Q Consensus       297 ~~~l~~kr~LlVlDdv~~~  315 (475)
                      ........=++++|.....
T Consensus       216 ~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHhCCCCEEEEECCCcc
Confidence            3322222238999998654

>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=96.05  E-value=0.0035  Score=55.06  Aligned_cols=40  Identities=25%  Similarity=0.103  Sum_probs=27.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ  264 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~  264 (475)
                      ..++.+.|+.|+|||.||+.+.+...+ +.....+-++.+.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~~~~~~~~~d~s~   42 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-GSERPLIRIDMSE   42 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT--SSCCEEEEEEGGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-CCccchHHHhhhc
Confidence            468899999999999999999873221 2333444444444

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 ....

>TIGR00959 ffh signal recognition particle protein

Probab=96.05  E-value=0.026  Score=56.93  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+.++.++|++|+||||+|..++.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            457999999999999999776655

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.02  E-value=0.054  Score=53.27  Aligned_cols=90  Identities=13%  Similarity=0.101  Sum_probs=52.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ..+++.|+|+.|+||||++..++.....+ . ..+.+++....- ...+-+....+.++.......+...+...+...-.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~-g-~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~  282 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ-N-RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY  282 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-C-CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence            35799999999999999998887643212 1 234555543221 22444455555444332233455666555554431


Q ss_pred             -CceEEEEEECCCC
Q 046770          302 -GKRFLLVLDDVWN  314 (475)
Q Consensus       302 -~kr~LlVlDdv~~  314 (475)
                       +..=+|++|-...
T Consensus       283 ~~~~D~VLIDTAGr  296 (407)
T PRK12726        283 VNCVDHILIDTVGR  296 (407)
T ss_pred             cCCCCEEEEECCCC
Confidence             3345788898854

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.02  E-value=0.54  Score=45.21  Aligned_cols=133  Identities=9%  Similarity=0.055  Sum_probs=77.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc--------ccccCcCeEEEEEe-cCCCCHHHHHHHHHHHhhcCCCCCCChHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS--------RVQCHFDLKAWTYV-SQDFDIIRVTKSILRSVAMGIVDHNDLNLLQW  294 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~--------~~~~~F~~~~wv~v-~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~  294 (475)
                      ..+..++|..|.||+++|..+.+..        ....|-+...++.. .....+.++ +++.+.+....           
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~I-r~l~~~~~~~~-----------   85 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEF-LSAINKLYFSS-----------   85 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHH-HHHHHHhccCC-----------
Confidence            3566799999999999998886632        01111111222211 111121111 12222221110           


Q ss_pred             HHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hHHH-HhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          295 KLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-ADAA-LIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~v~-~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                          .-.+.+=++|+||+...+......++..+..-...+.+|++|.+ ..+. ...+....+++.+++.++....+...
T Consensus        86 ----~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~  161 (299)
T PRK07132         86 ----FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK  161 (299)
T ss_pred             ----cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc
Confidence                00146678899999777666777788888765567777765544 3333 23445678999999999998877754

>PRK10867 signal recognition particle protein; Provisional

Probab=95.99  E-value=0.024  Score=57.22  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=19.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.++|++|+||||++..++.
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            357999999999999997766654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.98  E-value=0.033  Score=57.04  Aligned_cols=88  Identities=17%  Similarity=0.067  Sum_probs=44.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      -.+++|+|++|+||||++..+............+..++.. .+.  ..+.+......++.......+...+...+.+. .
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtD-tyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l-~  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTD-TQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERL-R  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecc-cccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHh-c
Confidence            4789999999999999998887632211111233344332 222  12222222222222222223334444444433 2


Q ss_pred             CceEEEEEECCCC
Q 046770          302 GKRFLLVLDDVWN  314 (475)
Q Consensus       302 ~kr~LlVlDdv~~  314 (475)
                       ..=+|++|....
T Consensus       428 -~~DLVLIDTaG~  439 (559)
T PRK12727        428 -DYKLVLIDTAGM  439 (559)
T ss_pred             -cCCEEEecCCCc
Confidence             234788888753

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.98  E-value=0.13  Score=48.36  Aligned_cols=178  Identities=15%  Similarity=0.106  Sum_probs=89.5

Q ss_pred             cccccchhHHHHHHHHhcCCC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      ++-|-+..++.|.+.+.-.-.    -.+.....+-|.++|++|.|||.||+.|+....  ..     |.+|+..      
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn--ST-----FFSvSSS------  200 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN--ST-----FFSVSSS------  200 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC--Cc-----eEEeehH------
Confidence            456777777766665432100    000013467899999999999999999998532  22     3344441      


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCC-------hhhHh----HhhCcCC---CCCCCcEE
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNEN-------YNDWI----DLSRPFQ---DGAPGSKI  336 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~-------~~~~~----~l~~~l~---~~~~gs~i  336 (475)
                        +++..-.++      .+.++..|.+.. +.|+-+|++|.+....       .+.-.    +++..+.   ....|.-|
T Consensus       201 --DLvSKWmGE------SEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLV  272 (439)
T KOG0739|consen  201 --DLVSKWMGE------SEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLV  272 (439)
T ss_pred             --HHHHHHhcc------HHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEE
Confidence              222221111      133444444443 5788899999984311       01111    2223332   22345566


Q ss_pred             EEecCChHHHHhcC--CC-ceeeCCCCCHHHHHHH-HhhcccCCCCCCCCchHHHHHHHHHHhcCCc
Q 046770          337 IITTRNADAALIMG--TV-QAYPLKGLSNDDCMCL-FTQHSLETRDFSMHQPLKEIGAKIVIKCNGL  399 (475)
Q Consensus       337 lvTtR~~~v~~~~~--~~-~~~~l~~L~~~~~~~l-f~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~  399 (475)
                      |-.|..+-+....-  .. ..+- -||++..+..- |+-+++........+++    +++.++.+|.
T Consensus       273 LgATNiPw~LDsAIRRRFekRIY-IPLPe~~AR~~MF~lhlG~tp~~LT~~d~----~eL~~kTeGy  334 (439)
T KOG0739|consen  273 LGATNIPWVLDSAIRRRFEKRIY-IPLPEAHARARMFKLHLGDTPHVLTEQDF----KELARKTEGY  334 (439)
T ss_pred             EecCCCchhHHHHHHHHhhccee-ccCCcHHHhhhhheeccCCCccccchhhH----HHHHhhcCCC
Confidence            66777654433211  11 1111 25666666544 44444333332333344    4466666665

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=95.97  E-value=0.0052  Score=58.33  Aligned_cols=34  Identities=35%  Similarity=0.516  Sum_probs=25.7

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+++.+..        .+ +-+.++|+.|+|||++++.....
T Consensus        23 ~~ll~~l~~--------~~-~pvLl~G~~GtGKT~li~~~l~~   56 (272)
T PF12775_consen   23 SYLLDLLLS--------NG-RPVLLVGPSGTGKTSLIQNFLSS   56 (272)
T ss_dssp             HHHHHHHHH--------CT-EEEEEESSTTSSHHHHHHHHHHC
T ss_pred             HHHHHHHHH--------cC-CcEEEECCCCCchhHHHHhhhcc
Confidence            445666655        22 45689999999999999998864

>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=95.96  E-value=0.0054  Score=44.96  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.|.|..|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998874

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.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.96  E-value=0.14  Score=51.02  Aligned_cols=154  Identities=11%  Similarity=0.035  Sum_probs=79.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      |--.++||+|.|||++..+++|...    |+..- ...+...+-.+ ++.+|..                      ...+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~----ydIyd-LeLt~v~~n~d-Lr~LL~~----------------------t~~k  287 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN----YDIYD-LELTEVKLDSD-LRHLLLA----------------------TPNK  287 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC----CceEE-eeeccccCcHH-HHHHHHh----------------------CCCC
Confidence            3456999999999999999998532    33111 11111111111 2222221                      2335


Q ss_pred             EEEEEECCCCC------------------ChhhHhHhhCcCC--CCCC-CcEE-EEecCChHHH--HhcCCC---ceeeC
Q 046770          305 FLLVLDDVWNE------------------NYNDWIDLSRPFQ--DGAP-GSKI-IITTRNADAA--LIMGTV---QAYPL  357 (475)
Q Consensus       305 ~LlVlDdv~~~------------------~~~~~~~l~~~l~--~~~~-gs~i-lvTtR~~~v~--~~~~~~---~~~~l  357 (475)
                      -+|||.|++..                  ....+..++..+.  .+++ +-|| |.||...+-.  ..+...   ..+.+
T Consensus       288 SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~m  367 (457)
T KOG0743|consen  288 SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYM  367 (457)
T ss_pred             cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEc
Confidence            67778887421                  0012333444332  1222 2355 5566654322  122222   34667


Q ss_pred             CCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCC
Q 046770          358 KGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGK  413 (475)
Q Consensus       358 ~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~  413 (475)
                      .-=+.+....|+.+......   .+    .++.+|.+...|.-+.=..++..|-.+
T Consensus       368 gyCtf~~fK~La~nYL~~~~---~h----~L~~eie~l~~~~~~tPA~V~e~lm~~  416 (457)
T KOG0743|consen  368 GYCTFEAFKTLASNYLGIEE---DH----RLFDEIERLIEETEVTPAQVAEELMKN  416 (457)
T ss_pred             CCCCHHHHHHHHHHhcCCCC---Cc----chhHHHHHHhhcCccCHHHHHHHHhhc
Confidence            77788888999988875432   12    344445555556655555555555444

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.95  E-value=0.038  Score=48.24  Aligned_cols=116  Identities=17%  Similarity=0.147  Sum_probs=58.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeE--EEEEecCCCCHHHHHHHHHHHhhc-----CC-CCCCC-------h
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLK--AWTYVSQDFDIIRVTKSILRSVAM-----GI-VDHND-------L  289 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~--~wv~v~~~~~~~~~l~~il~~l~~-----~~-~~~~~-------~  289 (475)
                      ..|-|++..|.||||.|--+.-.. ....+...  =|+--........++..+  .+..     .. ....+       .
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra-~~~g~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRA-LGHGKKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH-HHCCCeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHHH
Confidence            578888889999999997665421 11122211  122222223333444332  1110     00 00011       1


Q ss_pred             HHHHHHHHHHhCCceE-EEEEECCCC---CChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          290 NLLQWKLKKQLFGKRF-LLVLDDVWN---ENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       290 ~~l~~~l~~~l~~kr~-LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      .......++.+...+| |+|||.+-.   ......+++...+.....+.-+|+|-|+.
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            1223334455544444 999999831   11223445555555555678999999985

Alternate name: corrinoid adenosyltransferase.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.94  E-value=0.036  Score=52.60  Aligned_cols=87  Identities=16%  Similarity=0.114  Sum_probs=48.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------CCCCChHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------VDHNDLNLLQW  294 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------~~~~~~~~l~~  294 (475)
                      .+..++.|+|.+|+|||||+..+.+..  ..... .+.+ ..+..+..+  ...+...+...       .-..+...+..
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 RKQLVLNLVSSPGSGKTTLLTETLMRL--KDSVP-CAVI-EGDQQTVND--AARIRATGTPAIQVNTGKGCHLDAQMIAD  175 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHh--ccCCC-EEEE-CCCcCcHHH--HHHHHhcCCcEEEecCCCCCcCcHHHHHH
Confidence            567899999999999999999998742  22222 2222 222222221  11233322111       01233344555


Q ss_pred             HHHHHhCCceEEEEEECCCC
Q 046770          295 KLKKQLFGKRFLLVLDDVWN  314 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~  314 (475)
                      .+..+.....=++|++++.+
T Consensus       176 Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        176 AAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             HHHHHhhcCCcEEEEECCCC
Confidence            56655444446888999954

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.93  E-value=0.088  Score=46.25  Aligned_cols=60  Identities=15%  Similarity=0.253  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhCCceEEEEEECCC-CCC-hhhHhHhhCcCC-CCCCCcEEEEecCChHHHHhcC
Q 046770          290 NLLQWKLKKQLFGKRFLLVLDDVW-NEN-YNDWIDLSRPFQ-DGAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       290 ~~l~~~l~~~l~~kr~LlVlDdv~-~~~-~~~~~~l~~~l~-~~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      ++..-.+.+.+-+++-+|+=|+-- +.+ ...|+-+ ..|. -+..|..||++|.+......+.
T Consensus       142 EQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im-~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         142 EQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIM-RLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHH-HHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            333445677777888899988752 222 2345433 3332 3456999999999988776553

>TIGR01069 mutS2 MutS2 family protein

Probab=95.93  E-value=0.029  Score=61.10  Aligned_cols=110  Identities=11%  Similarity=0.116  Sum_probs=55.3

Q ss_pred             CceEEEEEECCCCC-ChhhHhHh----hCcCCCCCCCcEEEEecCChHHHHhcCCCce---eeCCCCCHHHHHHHHhhcc
Q 046770          302 GKRFLLVLDDVWNE-NYNDWIDL----SRPFQDGAPGSKIIITTRNADAALIMGTVQA---YPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       302 ~kr~LlVlDdv~~~-~~~~~~~l----~~~l~~~~~gs~ilvTtR~~~v~~~~~~~~~---~~l~~L~~~~~~~lf~~~~  373 (475)
                      ..+-|++||+.... +......+    +..+.  ..|+.+|+||....+.........   ..+. ++. +... |..+.
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~-~~l~-p~Ykl  475 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVL-FDE-ETLS-PTYKL  475 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcC-CCCc-eEEEE
Confidence            46889999998643 22333333    22332  357899999999877554321111   1110 111 1111 11111


Q ss_pred             cCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHh
Q 046770          374 LETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLN  424 (475)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~  424 (475)
                       ..+.+.     ...+-.|++++ |+|-.|.--|..+... ...++..++.
T Consensus       476 -~~G~~g-----~S~a~~iA~~~-Glp~~ii~~A~~~~~~-~~~~~~~li~  518 (771)
T TIGR01069       476 -LKGIPG-----ESYAFEIAQRY-GIPHFIIEQAKTFYGE-FKEEINVLIE  518 (771)
T ss_pred             -CCCCCC-----CcHHHHHHHHh-CcCHHHHHHHHHHHHh-hHHHHHHHHH
Confidence             111111     23455577665 8888888888777654 3334444443

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.92  E-value=0.048  Score=51.59  Aligned_cols=130  Identities=15%  Similarity=0.056  Sum_probs=65.7

Q ss_pred             hHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEE---ecCCCCHHHHHHHH--HH
Q 046770          203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTY---VSQDFDIIRVTKSI--LR  277 (475)
Q Consensus       203 e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~---v~~~~~~~~~l~~i--l~  277 (475)
                      ..+.+...|.. .      .+..-++|+|+.|.|||||.+.+.....   .....+++.   +.......++...+  +.
T Consensus        97 ~~~~~l~~l~~-~------~~~~~~~i~g~~g~GKttl~~~l~~~~~---~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~  166 (270)
T TIGR02858        97 AADKLLPYLVR-N------NRVLNTLIISPPQCGKTTLLRDLARILS---TGISQLGLRGKKVGIVDERSEIAGCVNGVP  166 (270)
T ss_pred             cHHHHHHHHHh-C------CCeeEEEEEcCCCCCHHHHHHHHhCccC---CCCceEEECCEEeecchhHHHHHHHhcccc
Confidence            34455555544 2      3346789999999999999999987432   122233331   11101112222111  01


Q ss_pred             Hhhc--CCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHh
Q 046770          278 SVAM--GIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALI  348 (475)
Q Consensus       278 ~l~~--~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~  348 (475)
                      +...  .....++... ...+...+ ...+-++++|++..  .+.+..+...+.   .|..+|+||....+...
T Consensus       167 q~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~--~e~~~~l~~~~~---~G~~vI~ttH~~~~~~~  234 (270)
T TIGR02858       167 QHDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGR--EEDVEALLEALH---AGVSIIATAHGRDVEDL  234 (270)
T ss_pred             cccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCc--HHHHHHHHHHHh---CCCEEEEEechhHHHHH
Confidence            1100  0000011111 11122222 24678999999843  344555555542   47889999997666443

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.

>TIGR00235 udk uridine kinase

Probab=95.91  E-value=0.0069  Score=55.16  Aligned_cols=25  Identities=36%  Similarity=0.518  Sum_probs=22.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|+|+|++|+|||||++.+...
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            4479999999999999999999864

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

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.88  E-value=0.23  Score=45.42  Aligned_cols=130  Identities=15%  Similarity=0.155  Sum_probs=70.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHh-C
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL-F  301 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~  301 (475)
                      +++-+.++|++|.|||-||+.|+++       .++.|+.|+..        ++....-++.      ....+.|.-.. .
T Consensus       180 QPKGvlLygppgtGktLlaraVahh-------t~c~firvsgs--------elvqk~igeg------srmvrelfvmare  238 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHH-------TDCTFIRVSGS--------ELVQKYIGEG------SRMVRELFVMARE  238 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhh-------cceEEEEechH--------HHHHHHhhhh------HHHHHHHHHHHHh
Confidence            3466889999999999999999984       34566777762        2222222110      11222222111 2


Q ss_pred             CceEEEEEECCCCC-----------Chh---hHhHhhCcCC--CCCCCcEEEEecCChHHHH--hcCC---CceeeCCCC
Q 046770          302 GKRFLLVLDDVWNE-----------NYN---DWIDLSRPFQ--DGAPGSKIIITTRNADAAL--IMGT---VQAYPLKGL  360 (475)
Q Consensus       302 ~kr~LlVlDdv~~~-----------~~~---~~~~l~~~l~--~~~~gs~ilvTtR~~~v~~--~~~~---~~~~~l~~L  360 (475)
                      .-+-+|+.|++.+.           +.+   ..-+++..+.  ...+.-+||..|..-++..  .+.+   .+.++..+-
T Consensus       239 hapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p  318 (404)
T KOG0728|consen  239 HAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPP  318 (404)
T ss_pred             cCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCC
Confidence            34678888887431           001   1122333332  1234567777776544432  1122   245777777


Q ss_pred             CHHHHHHHHhhcc
Q 046770          361 SNDDCMCLFTQHS  373 (475)
Q Consensus       361 ~~~~~~~lf~~~~  373 (475)
                      +++.-.++++-+.
T Consensus       319 ~e~ar~~ilkihs  331 (404)
T KOG0728|consen  319 NEEARLDILKIHS  331 (404)
T ss_pred             CHHHHHHHHHHhh
Confidence            7777777776443

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.87  E-value=0.014  Score=53.90  Aligned_cols=59  Identities=24%  Similarity=0.245  Sum_probs=36.8

Q ss_pred             hHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       203 e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      +..++++.+....      .+..+|+|+|++|.|||||...+....+.+++--.++-|.-+.+++
T Consensus        14 ~~~~ll~~l~~~~------g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~t   72 (266)
T PF03308_consen   14 EARELLKRLYPHT------GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFT   72 (266)
T ss_dssp             HHHHHHHHHGGGT------T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC
T ss_pred             HHHHHHHHHHhhc------CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCC
Confidence            4556777666522      4568999999999999999988876544333333455555555554

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.

>PTZ00035 Rad51 protein; Provisional

Probab=95.87  E-value=0.056  Score=53.01  Aligned_cols=89  Identities=15%  Similarity=0.095  Sum_probs=52.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccc---c-CcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------CCCCh
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQ---C-HFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------DHNDL  289 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~-~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------~~~~~  289 (475)
                      .-.++.|+|++|+|||+|+..++-.....   . .=..++|++....|++.++ .++.+.++....         ...+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCH
Confidence            34789999999999999999887532211   1 1134679998887877764 344444332210         12233


Q ss_pred             HHHHHHH---HHHh-CCceEEEEEECC
Q 046770          290 NLLQWKL---KKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       290 ~~l~~~l---~~~l-~~kr~LlVlDdv  312 (475)
                      +.+...+   ...+ .++--|||+|.+
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSi  222 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSA  222 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECc
Confidence            3333333   2233 344558999998

>PHA00729 NTP-binding motif containing protein

Probab=95.87  E-value=0.011  Score=53.82  Aligned_cols=25  Identities=44%  Similarity=0.482  Sum_probs=21.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|.|+|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3456889999999999999999873

>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=95.86  E-value=0.026  Score=51.47  Aligned_cols=81  Identities=20%  Similarity=0.341  Sum_probs=49.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-----CCCCC-h-H-------
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-----VDHND-L-N-------  290 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-----~~~~~-~-~-------  290 (475)
                      -++|.|.+|+|||+|+..+.++..    -+..+++.+.+.. .+.+++..+...-....     ...++ . .       
T Consensus        17 r~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~   92 (215)
T PF00006_consen   17 RIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYT   92 (215)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHH
T ss_pred             EEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhcc
Confidence            578999999999999999988542    3445888887654 44555555533211111     01111 1 1       


Q ss_pred             --HHHHHHHHHhCCceEEEEEECC
Q 046770          291 --LLQWKLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       291 --~l~~~l~~~l~~kr~LlVlDdv  312 (475)
                        ...+.++.  +++..|+++||+
T Consensus        93 a~t~AEyfrd--~G~dVlli~Dsl  114 (215)
T PF00006_consen   93 ALTIAEYFRD--QGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHH--TTSEEEEEEETH
T ss_pred             chhhhHHHhh--cCCceeehhhhh
Confidence              12223333  799999999998

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 ....

>PRK06762 hypothetical protein; Provisional

Probab=95.86  E-value=0.007  Score=52.91  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|.|+|++|+||||+|+.+.+.
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999874

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.84  E-value=0.0075  Score=53.78  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.++|.|+|++|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999999986

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.

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

Probab=95.83  E-value=0.013  Score=51.79  Aligned_cols=22  Identities=36%  Similarity=0.520  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|.|++|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999885

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.83  E-value=0.013  Score=53.00  Aligned_cols=119  Identities=13%  Similarity=0.100  Sum_probs=57.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCC---hHHHHHHHHHH--
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHND---LNLLQWKLKKQ--  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~---~~~l~~~l~~~--  299 (475)
                      .++.|+|+.|.||||+.+.+....-. .+  +-.+|....  ....+...++..+.........   ...-...+...  
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~~~~l-a~--~G~~vpa~~--~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~  104 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIALLAIM-AQ--IGCFVPAEY--ATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILD  104 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHH-HH--cCCCcchhh--cCccChhheeEecCCccccchhhhHHHHHHHHHHHHHH
Confidence            68999999999999999887542100 00  001111100  0001122222222221100011   11111112222  


Q ss_pred             hCCceEEEEEECCCCCC-hhh----HhHhhCcCCCCCCCcEEEEecCChHHHHhcC
Q 046770          300 LFGKRFLLVLDDVWNEN-YND----WIDLSRPFQDGAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       300 l~~kr~LlVlDdv~~~~-~~~----~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      +..++-|+++|+..... ..+    ...+...+..  .++.+|++|...+.+..+.
T Consensus       105 ~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         105 YADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence            23567899999984421 212    1123333332  3789999999988877654

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

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.82  E-value=0.04  Score=55.77  Aligned_cols=87  Identities=17%  Similarity=0.166  Sum_probs=45.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH--HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI--IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~--~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      +++.++|++|+||||++..++........-..+..++... +..  .+.+....+.++.......+...+...+.+. . 
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~-~-  298 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL-R-  298 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh-C-
Confidence            5899999999999998888765322011122345555432 221  1222222333332222233344555555443 2 


Q ss_pred             ceEEEEEECCCC
Q 046770          303 KRFLLVLDDVWN  314 (475)
Q Consensus       303 kr~LlVlDdv~~  314 (475)
                      ..=+|++|....
T Consensus       299 ~~DlVlIDt~G~  310 (424)
T PRK05703        299 DCDVILIDTAGR  310 (424)
T ss_pred             CCCEEEEeCCCC
Confidence            245788897744

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=95.78  E-value=0.057  Score=54.48  Aligned_cols=85  Identities=16%  Similarity=0.198  Sum_probs=48.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC------CCCCChH-----HHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI------VDHNDLN-----LLQ  293 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~------~~~~~~~-----~l~  293 (475)
                      ..++|+|..|+|||||++.+.....   ....+++..-....++.++....+.......      .+.....     ...
T Consensus       166 qri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~a  242 (450)
T PRK06002        166 QRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLTA  242 (450)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHHH
Confidence            4789999999999999998886322   2224444433344455555555554432111      1111111     111


Q ss_pred             HHHHHHh--CCceEEEEEECC
Q 046770          294 WKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       294 ~~l~~~l--~~kr~LlVlDdv  312 (475)
                      -.+.+++  +++.+|+++||+
T Consensus       243 ~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        243 TAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHcCCCEEEeccch
Confidence            1233333  589999999998

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=95.75  E-value=0.024  Score=56.96  Aligned_cols=22  Identities=45%  Similarity=0.703  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|++|+||||||+.+.-
T Consensus       363 ~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         363 EALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             ceEEEECCCCccHHHHHHHHHc
Confidence            4799999999999999999854

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=95.74  E-value=0.027  Score=58.81  Aligned_cols=132  Identities=18%  Similarity=0.054  Sum_probs=69.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|....+.++++.+.....     .+ .-|.|+|..|+||++||+.+..... + .-..-+.+++....+  +.+.. 
T Consensus       205 ~~ig~s~~~~~~~~~~~~~A~-----~~-~pvlI~GE~GtGK~~lA~aiH~~s~-r-~~~pfv~inca~~~~--~~~e~-  273 (520)
T PRK10820        205 QIVAVSPKMRQVVEQARKLAM-----LD-APLLITGDTGTGKDLLAYACHLRSP-R-GKKPFLALNCASIPD--DVVES-  273 (520)
T ss_pred             ceeECCHHHHHHHHHHHHHhC-----CC-CCEEEECCCCccHHHHHHHHHHhCC-C-CCCCeEEeccccCCH--HHHHH-
Confidence            588988888888877654221     11 3477999999999999999865321 1 111223455554332  22222 


Q ss_pred             HHHhhcCCCCCCC--hHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCC
Q 046770          276 LRSVAMGIVDHND--LNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRN  342 (475)
Q Consensus       276 l~~l~~~~~~~~~--~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~  342 (475)
                        .+.+...+.-.  .......+.   ....=.|+||+++..+......+...+..+.           ...+||.||..
T Consensus       274 --elFG~~~~~~~~~~~~~~g~~e---~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~  348 (520)
T PRK10820        274 --ELFGHAPGAYPNALEGKKGFFE---QANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQK  348 (520)
T ss_pred             --HhcCCCCCCcCCcccCCCChhh---hcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCC
Confidence              22221111000  000000011   1122357899998776666666655554321           23488888765


Q ss_pred             h
Q 046770          343 A  343 (475)
Q Consensus       343 ~  343 (475)
                      .
T Consensus       349 ~  349 (520)
T PRK10820        349 N  349 (520)
T ss_pred             C
Confidence            4

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

Probab=95.74  E-value=0.014  Score=54.70  Aligned_cols=67  Identities=22%  Similarity=0.216  Sum_probs=46.5

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      .+|+..+.. ..     ++..+|+|+|.||+|||||...+......+.|--.++-|.-|.+++--.++-+=++
T Consensus        38 ~~ll~~l~p-~t-----G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiR  104 (323)
T COG1703          38 RELLRALYP-RT-----GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIR  104 (323)
T ss_pred             HHHHHHHhh-cC-----CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhh
Confidence            456666654 22     56679999999999999999988776555555556667777777765555444333

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=95.73  E-value=0.054  Score=59.17  Aligned_cols=178  Identities=17%  Similarity=0.137  Sum_probs=85.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcc--------------cccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSR--------------VQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHND  288 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~--------------~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~  288 (475)
                      +.+++.|+|+.+.||||+.+.+.-..-              .-..|+ .++..++...++..-+..+...          
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~-~i~~~ig~~~si~~~lStfS~~----------  394 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFK-EIFADIGDEQSIEQSLSTFSGH----------  394 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccc-eEEEecCCccchhhchhHHHHH----------
Confidence            347899999999999999988743200              011122 2233333332222211111111          


Q ss_pred             hHHHHHHHHHHhCCceEEEEEECCCCC-ChhhHhHh----hCcCCCCCCCcEEEEecCChHHHHhcCCCce-eeCCCCCH
Q 046770          289 LNLLQWKLKKQLFGKRFLLVLDDVWNE-NYNDWIDL----SRPFQDGAPGSKIIITTRNADAALIMGTVQA-YPLKGLSN  362 (475)
Q Consensus       289 ~~~l~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l----~~~l~~~~~gs~ilvTtR~~~v~~~~~~~~~-~~l~~L~~  362 (475)
                      .......+...  ..+-|++||+.... +......+    +..+.  ..|+.+|+||...++......... ......-+
T Consensus       395 m~~~~~Il~~~--~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d  470 (782)
T PRK00409        395 MTNIVRILEKA--DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVEFD  470 (782)
T ss_pred             HHHHHHHHHhC--CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEEEe
Confidence            11122222222  46789999998643 22222233    22232  247899999999877765432211 11100001


Q ss_pred             HHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHh
Q 046770          363 DDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLN  424 (475)
Q Consensus       363 ~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~  424 (475)
                      .+...  ..+-+..+.+.     ...|-.|++++ |+|-.+..-|..+... ....+..++.
T Consensus       471 ~~~l~--~~Ykl~~G~~g-----~S~a~~iA~~~-Glp~~ii~~A~~~~~~-~~~~~~~li~  523 (782)
T PRK00409        471 EETLR--PTYRLLIGIPG-----KSNAFEIAKRL-GLPENIIEEAKKLIGE-DKEKLNELIA  523 (782)
T ss_pred             cCcCc--EEEEEeeCCCC-----CcHHHHHHHHh-CcCHHHHHHHHHHHhh-hhhHHHHHHH
Confidence            11111  11111111111     23455577766 8888888888777655 3334444443

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=95.72  E-value=0.016  Score=54.84  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=18.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.|+|.+|+||||+|+.+...
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            57899999999999999999874

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.72  E-value=0.043  Score=51.82  Aligned_cols=41  Identities=17%  Similarity=0.249  Sum_probs=29.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD  265 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~  265 (475)
                      .-+++.|.|++|+|||++|.+++.... + .=..+++++...+
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a-~-~Ge~vlyis~Ee~   75 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA-S-RGNPVLFVTVESP   75 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH-h-CCCcEEEEEecCC
Confidence            347899999999999999999765321 1 2245777877643

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>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=95.68  E-value=0.02  Score=50.75  Aligned_cols=22  Identities=50%  Similarity=0.647  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999874

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

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.67  E-value=0.038  Score=50.78  Aligned_cols=69  Identities=22%  Similarity=0.200  Sum_probs=41.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      ..+-|.++|++|.|||-+|+.|+|  +....|     +.|-.        .++++..-++      -...++.|.+....
T Consensus       210 ppkgvllygppgtgktl~aravan--rtdacf-----irvig--------selvqkyvge------garmvrelf~mart  268 (435)
T KOG0729|consen  210 PPKGVLLYGPPGTGKTLCARAVAN--RTDACF-----IRVIG--------SELVQKYVGE------GARMVRELFEMART  268 (435)
T ss_pred             CCCceEEeCCCCCchhHHHHHHhc--ccCceE-----Eeehh--------HHHHHHHhhh------hHHHHHHHHHHhcc
Confidence            345688999999999999999999  444444     22211        2222222111      12334444444444


Q ss_pred             -ceEEEEEECC
Q 046770          303 -KRFLLVLDDV  312 (475)
Q Consensus       303 -kr~LlVlDdv  312 (475)
                       |-++|+||.+
T Consensus       269 kkaciiffdei  279 (435)
T KOG0729|consen  269 KKACIIFFDEI  279 (435)
T ss_pred             cceEEEEeecc
Confidence             5688888988

>PRK03839 putative kinase; Provisional

Probab=95.65  E-value=0.0085  Score=53.18  Aligned_cols=22  Identities=36%  Similarity=0.723  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|+|++|+||||+++.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999984

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.63  E-value=0.11  Score=47.16  Aligned_cols=59  Identities=12%  Similarity=0.077  Sum_probs=34.6

Q ss_pred             HHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCC-CCCCCcEEEEecCChHHHHhcCCCce
Q 046770          296 LKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQ-DGAPGSKIIITTRNADAALIMGTVQA  354 (475)
Q Consensus       296 l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~-~~~~gs~ilvTtR~~~v~~~~~~~~~  354 (475)
                      +-+.+--++=|.|||..++- +.+....+...+. -...++-+|+.|....+.....+..+
T Consensus       155 ilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~v  215 (251)
T COG0396         155 ILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKV  215 (251)
T ss_pred             HHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEE
Confidence            33444456779999998653 2333333322222 12347788888888888887654443

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=95.60  E-value=0.048  Score=49.26  Aligned_cols=23  Identities=35%  Similarity=0.598  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          27 EVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999875

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.

>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=95.57  E-value=0.038  Score=47.72  Aligned_cols=116  Identities=17%  Similarity=0.171  Sum_probs=60.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC--CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF--DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~--~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      .+++|+|..|.|||||.+.+.....   .....+++......  ....    ....+..-. .-..-+...-.+...+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~---~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~-qlS~G~~~r~~l~~~l~~   97 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK---PTSGEILIDGKDIAKLPLEE----LRRRIGYVP-QLSGGQRQRVALARALLL   97 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC---CCccEEEECCEEcccCCHHH----HHhceEEEe-eCCHHHHHHHHHHHHHhc
Confidence            5899999999999999999987432   23344444322111  1111    111111100 011112222235555566


Q ss_pred             ceEEEEEECCCCC-ChhhHhHhhCcCCC-CCCCcEEEEecCChHHHHh
Q 046770          303 KRFLLVLDDVWNE-NYNDWIDLSRPFQD-GAPGSKIIITTRNADAALI  348 (475)
Q Consensus       303 kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~ilvTtR~~~v~~~  348 (475)
                      .+-++++|+.-.. +......+...+.. ...+..+|++|........
T Consensus        98 ~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          98 NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            6789999998432 23333333333321 1125678888887665544

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.

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.56  E-value=0.1  Score=46.84  Aligned_cols=22  Identities=32%  Similarity=0.613  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||++.++.
T Consensus        34 e~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          34 TLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999986

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=95.55  E-value=0.012  Score=48.36  Aligned_cols=27  Identities=37%  Similarity=0.546  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFD  255 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~  255 (475)
                      |.|+|.+|+||||+|+.++.  .....|.
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            67999999999999999998  4455553

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.55  E-value=0.11  Score=55.75  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -.++.++|+.|+||||++..++..
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~  208 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAAR  208 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhh
Confidence            379999999999999998888764

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=95.55  E-value=0.03  Score=55.65  Aligned_cols=53  Identities=17%  Similarity=0.268  Sum_probs=36.2

Q ss_pred             ccccccchhHHHHHHHHhcC------CCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKE------DGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~------~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.++.++.+.-.+...      ..........+-|.++|++|+|||++|+.+...
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            45788888888876665531      000000123467889999999999999999874

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.54  E-value=0.068  Score=53.06  Aligned_cols=82  Identities=17%  Similarity=0.088  Sum_probs=48.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~  298 (475)
                      -.++.|.|.+|+|||||+.+++...  ...-..++|++..+.  ...+. .-...++....     ...+.+.+...+. 
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~--a~~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~-  155 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARL--AKRGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASIE-  155 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHH-
Confidence            3689999999999999999988643  222245677766543  33322 22233332211     1233444444443 


Q ss_pred             HhCCceEEEEEECCC
Q 046770          299 QLFGKRFLLVLDDVW  313 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~  313 (475)
                        ..+.-+||+|.+.
T Consensus       156 --~~~~~lVVIDSIq  168 (372)
T cd01121         156 --ELKPDLVIIDSIQ  168 (372)
T ss_pred             --hcCCcEEEEcchH
Confidence              2456789999984

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.

>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=95.53  E-value=0.021  Score=49.20  Aligned_cols=36  Identities=28%  Similarity=0.492  Sum_probs=30.1

Q ss_pred             hhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       202 ~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ..+++|.++|.+           +++.++|..|+|||||...+..+.
T Consensus        24 ~g~~~l~~~l~~-----------k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG-----------KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT-----------SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC-----------CEEEEECCCCCCHHHHHHHHHhhc
Confidence            456778888744           688999999999999999999853

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.

>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=95.52  E-value=0.036  Score=52.01  Aligned_cols=53  Identities=13%  Similarity=0.284  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhh-cccchHHHHHHHHHHHhhhhhhhhhhhH
Q 046770           48 IHDYLVQWKKTLEKIKAVIEDAEEK-QTREESVKMWLYELQNLAYDVEDLLGEF  100 (475)
Q Consensus        48 v~~~~~~l~~~l~~~~~~l~~a~~~-~~~~~~v~~Wl~~lrd~ayd~eD~lD~~  100 (475)
                      ++.+++-++.+++.+|.||+..... ....+..+.++.++-..||++|.++|-+
T Consensus       319 lKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaC  372 (402)
T PF12061_consen  319 LKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDAC  372 (402)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehh
Confidence            5789999999999999999987443 3333458999999999999999999986

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.51  E-value=0.038  Score=53.92  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.+.|++|.||||+++.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~   22 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSAT   22 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999998864

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.

>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=95.51  E-value=0.016  Score=55.97  Aligned_cols=51  Identities=24%  Similarity=0.378  Sum_probs=42.7

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...|+|-++.+++|++.|.....+..  ..-+|+.++||.|.|||||+..+-+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~--~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLE--ERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccC--ccceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999976443333  5668999999999999999998876

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.51  E-value=0.04  Score=59.34  Aligned_cols=84  Identities=18%  Similarity=0.111  Sum_probs=55.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~  297 (475)
                      .-+++-|.|++|+|||||+.+++...  ...=..++|+...+.+++.     .++.++....     .....+.....+.
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a--~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i~  131 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  131 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHHH
Confidence            34788999999999999998866532  1222457899888877743     4555544321     2334455666666


Q ss_pred             HHhC-CceEEEEEECCC
Q 046770          298 KQLF-GKRFLLVLDDVW  313 (475)
Q Consensus       298 ~~l~-~kr~LlVlDdv~  313 (475)
                      ..+. ++.-|||+|.+-
T Consensus       132 ~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        132 MLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHhhcCCCeEEEEcchh
Confidence            6664 456689999984

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.50  E-value=0.0086  Score=54.06  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|++|+|||||++.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998763

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.50  E-value=0.045  Score=47.96  Aligned_cols=79  Identities=15%  Similarity=0.099  Sum_probs=44.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC--ce
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG--KR  304 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~--kr  304 (475)
                      +.|.|.+|+|||++|.++...     .....+++...+.++.. ....|....... +......+....|.+.+..  +.
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~e-m~~rI~~H~~~R-~~~w~t~E~~~~l~~~l~~~~~~   74 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDE-MAERIARHRKRR-PAHWRTIETPRDLVSALKELDPG   74 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhC-CCCceEeecHHHHHHHHHhcCCC
Confidence            679999999999999998763     22356777777777643 333333322222 2222222222233333311  23


Q ss_pred             EEEEEECC
Q 046770          305 FLLVLDDV  312 (475)
Q Consensus       305 ~LlVlDdv  312 (475)
                      -.+++|.+
T Consensus        75 ~~VLIDcl   82 (169)
T cd00544          75 DVVLIDCL   82 (169)
T ss_pred             CEEEEEcH
Confidence            37999997

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.48  E-value=0.048  Score=48.35  Aligned_cols=23  Identities=30%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.++|.+|+||||+|+++...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~   24 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKE   24 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHH
Confidence            46889999999999999998763

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

Probab=95.48  E-value=0.0077  Score=48.45  Aligned_cols=21  Identities=43%  Similarity=0.621  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|++|+|||+||+.++.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998874

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

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

Probab=95.48  E-value=0.028  Score=53.12  Aligned_cols=42  Identities=24%  Similarity=0.108  Sum_probs=34.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      .-+++.|+|.+|+|||+++.++..  ........++||+..+..
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~~   63 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEESP   63 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCCH
Confidence            347999999999999999999987  344557889999888753

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

Probab=95.47  E-value=0.011  Score=52.33  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|+|++|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999998774

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=95.46  E-value=0.042  Score=57.11  Aligned_cols=132  Identities=18%  Similarity=0.086  Sum_probs=71.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc-ccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS-RVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      +++|....++++.+.+.....      .-.-|.|.|..|+||+++|+.+++.. +....|   +-+++....  ...+..
T Consensus       213 ~iiG~S~~m~~~~~~i~~~A~------~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pf---v~inC~~l~--e~lles  281 (526)
T TIGR02329       213 DLLGASAPMEQVRALVRLYAR------SDATVLILGESGTGKELVAQAIHQLSGRRDFPF---VAINCGAIA--ESLLEA  281 (526)
T ss_pred             heeeCCHHHHHHHHHHHHHhC------CCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCE---EEeccccCC--hhHHHH
Confidence            589999888888887754221      22467899999999999999998743 112222   233443322  122222


Q ss_pred             HHHHhhcCCCCCCChHH--HHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecC
Q 046770          275 ILRSVAMGIVDHNDLNL--LQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTR  341 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~--l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR  341 (475)
                         .+.+...+.-....  ...-+.+.  ...=.|+||++..........++..+....           ...+||.||.
T Consensus       282 ---eLFG~~~gaftga~~~~~~Gl~e~--A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~  356 (526)
T TIGR02329       282 ---ELFGYEEGAFTGARRGGRTGLIEA--AHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATH  356 (526)
T ss_pred             ---HhcCCcccccccccccccccchhh--cCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccC
Confidence               22222111000000  00000011  122358999998777666666666654321           1347888876


Q ss_pred             Ch
Q 046770          342 NA  343 (475)
Q Consensus       342 ~~  343 (475)
                      ..
T Consensus       357 ~~  358 (526)
T TIGR02329       357 CA  358 (526)
T ss_pred             CC
Confidence            53

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.46  E-value=0.064  Score=50.95  Aligned_cols=90  Identities=16%  Similarity=0.150  Sum_probs=46.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH--HHHHHHHHHHhhcCC---CCCCCh-HHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI--IRVTKSILRSVAMGI---VDHNDL-NLLQWK  295 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~--~~~l~~il~~l~~~~---~~~~~~-~~l~~~  295 (475)
                      .+.+++.++|++|+||||++..++....  ..-..+..++.. .+..  .+-+....+..+...   ....+. ......
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~--~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLK--KQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH--hcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            3457999999999999999988876432  211234444433 2322  222333333333221   111222 222334


Q ss_pred             HHHHhCCceEEEEEECCCC
Q 046770          296 LKKQLFGKRFLLVLDDVWN  314 (475)
Q Consensus       296 l~~~l~~kr~LlVlDdv~~  314 (475)
                      +........=++++|-...
T Consensus       147 l~~~~~~~~D~ViIDT~G~  165 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAGR  165 (272)
T ss_pred             HHHHHHCCCCEEEEeCCCC
Confidence            4444334445788888754

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.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.45  E-value=0.076  Score=50.08  Aligned_cols=79  Identities=13%  Similarity=0.097  Sum_probs=43.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCC--CCHHHHHHHHHH--Hhh--cCC--CCCCChHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQD--FDIIRVTKSILR--SVA--MGI--VDHNDLNLL  292 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~--~~~~~~l~~il~--~l~--~~~--~~~~~~~~l  292 (475)
                      .+..+|+|.|.+|+||||+|+.+.....   +.. ..+.++...-  ++-.+.-..+..  .-+  -..  ++..+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~---~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL   79 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFR---RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL   79 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh---hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence            3457999999999999999998875221   111 1233333221  222222111111  111  112  456677888


Q ss_pred             HHHHHHHhCCc
Q 046770          293 QWKLKKQLFGK  303 (475)
Q Consensus       293 ~~~l~~~l~~k  303 (475)
                      ...++.+.+++
T Consensus        80 ~~~l~~l~~~~   90 (290)
T PRK15453         80 EQLFREYGETG   90 (290)
T ss_pred             HHHHHHHhcCC
Confidence            88888776543

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.43  E-value=0.014  Score=53.88  Aligned_cols=21  Identities=29%  Similarity=0.634  Sum_probs=19.3

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|++|+||||+|+.+.+.
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999873

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.43  E-value=0.06  Score=50.62  Aligned_cols=87  Identities=16%  Similarity=0.188  Sum_probs=53.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCccc--ccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChHH----
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRV--QCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLNL----  291 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~--~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~~----  291 (475)
                      -++|.|..|+|||+|+..+.++...  +.+-+.++++-+.+.. ...+++..+...-....       .+......    
T Consensus        71 R~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~  150 (276)
T cd01135          71 KIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITP  150 (276)
T ss_pred             EEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHH
Confidence            5789999999999999998875431  1234678888887765 44556655554311111       01111111    


Q ss_pred             -HHHHHHHHh---CCceEEEEEECC
Q 046770          292 -LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       292 -l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                       ..-.+.+++   +++++|+++||+
T Consensus       151 ~~a~aiAEyfrd~~g~~VLl~~D~l  175 (276)
T cd01135         151 RMALTTAEYLAYEKGKHVLVILTDM  175 (276)
T ss_pred             HHHHHHHHHHHhccCCeEEEEEcCh
Confidence             112244444   378999999998

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.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.42  E-value=0.062  Score=53.97  Aligned_cols=84  Identities=17%  Similarity=0.220  Sum_probs=50.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCChHH-----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDLNL-----  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~~~-----  291 (475)
                      ..++|+|..|+|||||++.+.+..    ..+..+.+-+.+... +.+++..++..-....       .+......     
T Consensus       163 qrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~  238 (444)
T PRK08972        163 QRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCE  238 (444)
T ss_pred             CEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHH
Confidence            468999999999999999998732    224556666666543 3455555544321111       01111111     


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+++||++||+
T Consensus       239 ~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        239 TATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHcCCCEEEEEcCh
Confidence            111233444  689999999998

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.42  E-value=0.085  Score=47.19  Aligned_cols=42  Identities=24%  Similarity=0.187  Sum_probs=27.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCc--------CeEEEEEecCCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHF--------DLKAWTYVSQDF  266 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F--------~~~~wv~v~~~~  266 (475)
                      .++.|.|++|+||||++..+.........|        ..++|++.....
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            478899999999999998887643322222        257777766653

>PRK04040 adenylate kinase; Provisional

Probab=95.41  E-value=0.012  Score=52.49  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|.|+|++|+||||+++.+.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            58999999999999999999873

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.41  E-value=0.011  Score=52.77  Aligned_cols=25  Identities=44%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ..+|+|-||-|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999854

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.41  E-value=0.067  Score=51.96  Aligned_cols=26  Identities=35%  Similarity=0.466  Sum_probs=22.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ..+-|.++|++|.|||-||+.|+...
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            34678999999999999999999853

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.39  E-value=0.024  Score=46.48  Aligned_cols=26  Identities=27%  Similarity=0.382  Sum_probs=22.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++-|++.+|.+|+|||.+++.++++
T Consensus        51 ~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   51 RKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             CCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            67789999999999999988887764

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

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.38  E-value=0.01  Score=52.82  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999873

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.

>PRK04328 hypothetical protein; Provisional

Probab=95.37  E-value=0.051  Score=50.96  Aligned_cols=40  Identities=18%  Similarity=0.189  Sum_probs=29.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD  265 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~  265 (475)
                      -+++.|.|.+|+|||+|+.++.... . ..-+..+|++..+.
T Consensus        23 gs~ili~G~pGsGKT~l~~~fl~~~-~-~~ge~~lyis~ee~   62 (249)
T PRK04328         23 RNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGVYVALEEH   62 (249)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH-H-hcCCcEEEEEeeCC
Confidence            3789999999999999999876532 1 22355788887664

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=95.37  E-value=0.053  Score=56.42  Aligned_cols=47  Identities=26%  Similarity=0.324  Sum_probs=36.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|....++++.+.+.....      .-.-|.|.|..|+||+++|+.+++.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A~------s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYAR------SSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHhC------CCCcEEEECCCCCCHHHHHHHHHHh
Confidence            3589999888888887754221      2246789999999999999999874

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.36  E-value=0.12  Score=47.44  Aligned_cols=112  Identities=14%  Similarity=0.065  Sum_probs=57.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccc--ccCc----------CeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRV--QCHF----------DLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLL  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~--~~~F----------~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l  292 (475)
                      +++.|.|+.|.||||+.+.+....-.  .+.|          -..++.......++..-.....          .+..++
T Consensus        32 ~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~----------~e~~~~  101 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQHGMSTFM----------VELSET  101 (222)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCccccccccchHH----------HHHHHH
Confidence            57899999999999999888652100  0111          1122222222222111100010          011222


Q ss_pred             HHHHHHHhCCceEEEEEECCCCCC--hh--h-HhHhhCcCCCCCCCcEEEEecCChHHHHhc
Q 046770          293 QWKLKKQLFGKRFLLVLDDVWNEN--YN--D-WIDLSRPFQDGAPGSKIIITTRNADAALIM  349 (475)
Q Consensus       293 ~~~l~~~l~~kr~LlVlDdv~~~~--~~--~-~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~  349 (475)
                      ...++.  ..++-|++||+.....  .+  . -..+...+... .++.+|++|...+++...
T Consensus       102 ~~il~~--~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         102 SHILSN--CTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             HHHHHh--CCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence            222222  2568999999984321  11  1 11233333322 578999999998877654

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

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.36  E-value=0.048  Score=55.37  Aligned_cols=87  Identities=16%  Similarity=0.172  Sum_probs=53.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      .-++|.|.+|+|||||+..+.++... .+-+.++++-+.+.. .+.+++..++..-....       .+.....     .
T Consensus       144 QR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~  222 (461)
T PRK12597        144 GKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVL  222 (461)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHH
Confidence            35899999999999999888875432 256778888777654 34555555554311111       0111111     1


Q ss_pred             HHHHHHHHh---CCceEEEEEECC
Q 046770          292 LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      ..-.+.+++   +++++|+++||+
T Consensus       223 ~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        223 TGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHhcCCceEEEeccc
Confidence            122344555   389999999999

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.36  E-value=0.13  Score=53.61  Aligned_cols=182  Identities=16%  Similarity=0.141  Sum_probs=90.0

Q ss_pred             cccccccchhH---HHHHHHHhcCCCC---CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          194 EAKVYGRSKER---EEIVELLLKEDGT---SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       194 ~~~~vGR~~e~---~~l~~~L~~~~~~---~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      -.++-|.++.+   .++++.|.+...-   +.  .-++-|.++|++|.|||.||+.++....+-  |     .+.|.   
T Consensus       149 F~DVAG~dEakeel~EiVdfLk~p~ky~~lGa--kiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSG---  216 (596)
T COG0465         149 FADVAGVDEAKEELSELVDFLKNPKKYQALGA--KIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISG---  216 (596)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHhCchhhHhccc--ccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccc---
Confidence            34677877655   5556666552110   11  335668899999999999999999965443  2     11121   


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC----------ChhhHhH----hhCcCCCCC--
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE----------NYNDWID----LSRPFQDGA--  331 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~----------~~~~~~~----l~~~l~~~~--  331 (475)
                           .+.++.+-+-     .-....+...+..+.-+++|++|.+..-          ..+++++    ++.......  
T Consensus       217 -----S~FVemfVGv-----GAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         217 -----SDFVEMFVGV-----GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             -----hhhhhhhcCC-----CcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence                 1111221111     1122223333444455799999987321          1233444    333333222  


Q ss_pred             CCcEEEEecCChHHHH--hcCC---CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          332 PGSKIIITTRNADAAL--IMGT---VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      .|--|+..|..++|..  .+..   .+.+.++.-+-..-.++++.++-...- ...-++..    |++.+-|.-.|
T Consensus       287 ~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l-~~~Vdl~~----iAr~tpGfsGA  357 (596)
T COG0465         287 EGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPL-AEDVDLKK----IARGTPGFSGA  357 (596)
T ss_pred             CceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCC-CCcCCHHH----HhhhCCCcccc
Confidence            3444555555555542  1222   234555555555566666655432211 11112222    77777777543

>PRK08149 ATP synthase SpaL; Validated

Probab=95.34  E-value=0.065  Score=53.88  Aligned_cols=84  Identities=20%  Similarity=0.327  Sum_probs=49.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      ..++|+|..|+|||||+..+++...    -+..+...+... .++.++....+.......       .+.....     .
T Consensus       152 q~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~  227 (428)
T PRK08149        152 QRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAAL  227 (428)
T ss_pred             CEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHH
Confidence            4789999999999999999987432    233333444333 345566666665432211       1111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+++||++||+
T Consensus       228 ~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        228 VATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHcCCCEEEEccch
Confidence            112233333  689999999998

>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=95.33  E-value=0.023  Score=48.79  Aligned_cols=23  Identities=39%  Similarity=0.544  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|-|+|.+|+||||||+.+...
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~   25 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERR   25 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999884

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 ....

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.33  E-value=0.086  Score=52.91  Aligned_cols=53  Identities=25%  Similarity=0.276  Sum_probs=34.7

Q ss_pred             cccccccchhHHHHHHHHhc----C----CCCCC--CCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          194 EAKVYGRSKEREEIVELLLK----E----DGTSH--NNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~----~----~~~~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...++|.++-++.+...+..    .    .....  -......+.++|++|+|||+||+.+..
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~  138 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLAR  138 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHH
Confidence            34578988888877655511    0    00000  001125789999999999999999986

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.32  E-value=0.013  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.483  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...|.|+|++|+||||+|+.++..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            358899999999999999999884

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.32  E-value=0.094  Score=48.88  Aligned_cols=56  Identities=14%  Similarity=0.242  Sum_probs=33.4

Q ss_pred             HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhcC
Q 046770          295 KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      .+...|..+.=+|+||+--+. +.....++...+..  ...|..||+++.+.+.|...+
T Consensus       148 ~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDlN~A~rya  206 (258)
T COG1120         148 LIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDLNLAARYA  206 (258)
T ss_pred             HHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHHHHhC
Confidence            456677777888999986221 11122222222221  235778999999988876544

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.31  E-value=0.013  Score=51.80  Aligned_cols=23  Identities=17%  Similarity=0.339  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            48999999999999999999874

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

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.29  E-value=0.047  Score=53.57  Aligned_cols=81  Identities=21%  Similarity=0.185  Sum_probs=49.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~~  299 (475)
                      +++.|-|.+|+|||||.-++....  ...- .+.+|+--+..  .++ +--...++....     ...+.+.....+.+ 
T Consensus        94 s~iLIgGdPGIGKSTLLLQva~~l--A~~~-~vLYVsGEES~--~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~-  166 (456)
T COG1066          94 SVILIGGDPGIGKSTLLLQVAARL--AKRG-KVLYVSGEESL--QQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ-  166 (456)
T ss_pred             cEEEEccCCCCCHHHHHHHHHHHH--HhcC-cEEEEeCCcCH--HHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh-
Confidence            689999999999999999998843  3222 56777655533  222 122233332221     23444544444443 


Q ss_pred             hCCceEEEEEECCCC
Q 046770          300 LFGKRFLLVLDDVWN  314 (475)
Q Consensus       300 l~~kr~LlVlDdv~~  314 (475)
                        .++-|+|+|-+..
T Consensus       167 --~~p~lvVIDSIQT  179 (456)
T COG1066         167 --EKPDLVVIDSIQT  179 (456)
T ss_pred             --cCCCEEEEeccce
Confidence              6788999999853

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

Probab=95.29  E-value=0.012  Score=50.44  Aligned_cols=22  Identities=23%  Similarity=0.614  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.|+|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999874

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

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.29  E-value=0.21  Score=48.43  Aligned_cols=49  Identities=14%  Similarity=0.104  Sum_probs=32.6

Q ss_pred             eeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHH
Q 046770          354 AYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAA  403 (475)
Q Consensus       354 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai  403 (475)
                      ++++.+++.+|+..++....-..-- ......+...+++.-..+|+|.-+
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            7899999999999998866533221 111233445566777779998644

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).

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.28  E-value=0.014  Score=51.66  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++++|+|+.|+|||||++.+++.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            47899999999999999999983

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.28  E-value=0.027  Score=47.03  Aligned_cols=24  Identities=42%  Similarity=0.407  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+|.+.|.-|.||||+++.+++..
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998853

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.

>PRK00625 shikimate kinase; Provisional

Probab=95.27  E-value=0.013  Score=51.56  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|+|++|+||||+++.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999999873

>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=95.26  E-value=0.028  Score=55.52  Aligned_cols=100  Identities=19%  Similarity=0.238  Sum_probs=56.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCccc----ccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRV----QCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK  298 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~  298 (475)
                      ..+=+-|+|..|.|||.|+..+|+...+    +-||.              ....++-+.+..-......+.    .+.+
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~~~~~l~----~va~  122 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRGQDDPLP----QVAD  122 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhCCCccHH----HHHH
Confidence            4567899999999999999999986433    23332              333333333332222222233    3344


Q ss_pred             HhCCceEEEEEECCCCCChhh---HhHhhCcCCCCCCCcEEEEecCC
Q 046770          299 QLFGKRFLLVLDDVWNENYND---WIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~~~~~~~---~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      .+.++..||.||++.-.+..+   ...+...+-  ..|..+|.||..
T Consensus       123 ~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN~  167 (362)
T PF03969_consen  123 ELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSNR  167 (362)
T ss_pred             HHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCCC
Confidence            455666799999986554322   222333332  246555555553

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

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=95.25  E-value=0.25  Score=44.78  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|.|..|.|||||++.+..-
T Consensus        35 ~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          35 EKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            48999999999999999999753

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.22  E-value=0.1  Score=52.42  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=20.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+++++|+.|+||||++..+..
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36999999999999999987765

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.21  E-value=0.02  Score=50.08  Aligned_cols=26  Identities=27%  Similarity=0.393  Sum_probs=22.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++++|+|..|+|||||+..+...
T Consensus         4 ~~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          4 TMIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CCceEEEEECCCCChHHHHHHHHHHH
Confidence            34679999999999999999999874

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

Probab=95.20  E-value=0.013  Score=52.26  Aligned_cols=22  Identities=45%  Similarity=0.573  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999874

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PF13479 AAA_24: AAA domain

Probab=95.19  E-value=0.059  Score=49.26  Aligned_cols=20  Identities=45%  Similarity=0.478  Sum_probs=17.9

Q ss_pred             EEEEEEccCCCcHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLV  244 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v  244 (475)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            35789999999999999987

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.18  E-value=0.019  Score=50.68  Aligned_cols=25  Identities=32%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++.|+|++|+||||+|+.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3469999999999999999999874

>COG4240 Predicted kinase [General function prediction only]

Probab=95.18  E-value=0.069  Score=48.07  Aligned_cols=83  Identities=20%  Similarity=0.116  Sum_probs=56.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh-----cCCCCCCChHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA-----MGIVDHNDLNLLQWKL  296 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~-----~~~~~~~~~~~l~~~l  296 (475)
                      ++.-+++|.|+-|+||||++..+++....+.. +.++..++.+-+-...-...+.++..     ...++..+..-+..-|
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnVL  126 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNVL  126 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHHH
Confidence            45789999999999999999999885433332 35566666555444444455555542     2335677778788888


Q ss_pred             HHHhCCceE
Q 046770          297 KKQLFGKRF  305 (475)
Q Consensus       297 ~~~l~~kr~  305 (475)
                      ....+++.-
T Consensus       127 nai~~g~~~  135 (300)
T COG4240         127 NAIARGGPT  135 (300)
T ss_pred             HHHhcCCCC
Confidence            888877744

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.17  E-value=0.021  Score=52.76  Aligned_cols=85  Identities=25%  Similarity=0.222  Sum_probs=50.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcC---------------CCC---
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMG---------------IVD---  285 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~---------------~~~---  285 (475)
                      -+++.|.|++|+|||+|+.++.... .+..=+.++|++..++.  .++.+.+- .++..               ...   
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~-~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNG-LKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH-HHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGST
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHh-hhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccccc
Confidence            3689999999999999998876432 11102456788776543  34444332 22110               001   


Q ss_pred             --CCChHHHHHHHHHHhCC-ceEEEEEECC
Q 046770          286 --HNDLNLLQWKLKKQLFG-KRFLLVLDDV  312 (475)
Q Consensus       286 --~~~~~~l~~~l~~~l~~-kr~LlVlDdv  312 (475)
                        ..+...+...+.+.++. +...+|+|.+
T Consensus        95 ~~~~~~~~l~~~i~~~i~~~~~~~vVIDsl  124 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIEELKPDRVVIDSL  124 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHHHHTSSEEEEETH
T ss_pred             ccccCHHHHHHHHHHHHHhcCCCEEEEECH
Confidence              34667777777776643 3479999987

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 ....

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.17  E-value=0.14  Score=52.30  Aligned_cols=87  Identities=20%  Similarity=0.224  Sum_probs=51.0

Q ss_pred             EEEEEccCCCcHHHHH-HHHHcCccc-----ccCcCeEEEEEecCCCCHHHHHHHHHHHhhc-CCC-----CCCC--hHH
Q 046770          226 VVSIIGMGGLGKTTLA-QLVYNDSRV-----QCHFDLKAWTYVSQDFDIIRVTKSILRSVAM-GIV-----DHND--LNL  291 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA-~~v~~~~~~-----~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~-~~~-----~~~~--~~~  291 (475)
                      -++|.|..|+|||+|| ..+.+...+     ..+-+.++++.+.+......-+.+.+++-+. ...     ..++  ..+
T Consensus       191 R~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r  270 (574)
T PTZ00185        191 RELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQ  270 (574)
T ss_pred             EEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHHH
Confidence            5789999999999997 556665322     1234577888888876544334444444331 110     1111  110


Q ss_pred             -----HHHHHHHHh--CCceEEEEEECC
Q 046770          292 -----LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 -----l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                           ..-.+.+++  +++..|||+||+
T Consensus       271 ~~Apy~a~tiAEYFrd~GkdVLiv~DDL  298 (574)
T PTZ00185        271 YLAPYSGVTMGEYFMNRGRHCLCVYDDL  298 (574)
T ss_pred             HHHHHHHHHHHHHHHHcCCCEEEEEcCc
Confidence                 111233333  589999999999

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.16  E-value=0.16  Score=51.88  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|++++|+.|+||||++..++..
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~  279 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAAR  279 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHH
Confidence            69999999999999999998864

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.16  E-value=0.029  Score=49.04  Aligned_cols=24  Identities=29%  Similarity=0.582  Sum_probs=21.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .++.|.|++|+|||||++.++.+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            578899999999999999999853

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.15  E-value=0.071  Score=56.19  Aligned_cols=100  Identities=17%  Similarity=0.139  Sum_probs=59.1

Q ss_pred             ccccccchhHHHHHHHHhcCCC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .++=|-++-+.+|.+-+.-.-.    -+.+-.+.+=|.++|++|.|||-||++|+.+..       ..|++|..+     
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcs-------L~FlSVKGP-----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECS-------LNFLSVKGP-----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhce-------eeEEeecCH-----
Confidence            3456777777777765532100    000112345688999999999999999998532       234566552     


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWN  314 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~  314 (475)
                         +++...-++     .++.+.+...+.=..++|+|.||++++
T Consensus       740 ---ELLNMYVGq-----SE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 ---ELLNMYVGQ-----SEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             ---HHHHHHhcc-----hHHHHHHHHHHhhccCCeEEEeccccc
Confidence               233332222     223333334444467899999999954

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.14  E-value=0.078  Score=53.71  Aligned_cols=87  Identities=17%  Similarity=0.233  Sum_probs=52.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChHH-----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLNL-----  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~~-----  291 (475)
                      .-++|.|..|+|||||+..+..+.... +=+.++++-+.+.. .+.+++..++..-....       .+......     
T Consensus       145 QR~gIfa~~GvGKt~Ll~~i~~~~~~~-~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~  223 (463)
T PRK09280        145 GKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVAL  223 (463)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            357999999999999999886643221 12457777776654 44566666654321111       01111111     


Q ss_pred             HHHHHHHHh---CCceEEEEEECC
Q 046770          292 LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      ..-.+.+++   +|+++||++|++
T Consensus       224 ~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        224 TGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHhcCCceEEEecch
Confidence            122344555   789999999998

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=95.14  E-value=0.22  Score=43.67  Aligned_cols=50  Identities=18%  Similarity=0.256  Sum_probs=30.5

Q ss_pred             HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCC-CCCCCcEEEEecCChH
Q 046770          295 KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQ-DGAPGSKIIITTRNAD  344 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~-~~~~gs~ilvTtR~~~  344 (475)
                      .|.+..-.++-|-+||+.... +...-..+...+. ....|..||.||..+-
T Consensus       140 AlArL~ls~~pLWiLDEP~taLDk~g~a~l~~l~~~H~~~GGiVllttHq~l  191 (209)
T COG4133         140 ALARLWLSPAPLWILDEPFTALDKEGVALLTALMAAHAAQGGIVLLTTHQPL  191 (209)
T ss_pred             HHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Confidence            455666788899999998543 2222222222222 3456889999998653

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=95.13  E-value=0.17  Score=48.86  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||.+.+...
T Consensus        29 ei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        29 RIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999764

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.

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

Probab=95.13  E-value=0.024  Score=50.50  Aligned_cols=36  Identities=22%  Similarity=0.297  Sum_probs=27.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV  262 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v  262 (475)
                      +++.|+|+.|+|||||++.+..  .....|...++.+.
T Consensus         3 r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT   38 (183)
T PF00625_consen    3 RPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT   38 (183)
T ss_dssp             SEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence            6889999999999999999988  34455654444443

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 ....

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=95.13  E-value=0.055  Score=48.88  Aligned_cols=21  Identities=29%  Similarity=0.254  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +++.|+|+.|.|||||.+.+.
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            689999999999999999987

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 also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.13  E-value=0.055  Score=58.23  Aligned_cols=130  Identities=17%  Similarity=0.081  Sum_probs=69.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|....+.++.+.+.....     .. .-|.|+|..|+||+++|+.+.+.....  -..-+.|++..... ..+-..+
T Consensus       326 ~l~g~s~~~~~~~~~~~~~a~-----~~-~pvli~Ge~GtGK~~~A~~ih~~s~r~--~~pfv~vnc~~~~~-~~~~~el  396 (638)
T PRK11388        326 HMPQDSPQMRRLIHFGRQAAK-----SS-FPVLLCGEEGVGKALLAQAIHNESERA--AGPYIAVNCQLYPD-EALAEEF  396 (638)
T ss_pred             ceEECCHHHHHHHHHHHHHhC-----cC-CCEEEECCCCcCHHHHHHHHHHhCCcc--CCCeEEEECCCCCh-HHHHHHh
Confidence            578988888888777765221     22 247899999999999999998743111  11223344444321 1222222


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRN  342 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~  342 (475)
                          .+....... ......+.   ....=.|+||++..........++..+..+.           ...+||.||..
T Consensus       397 ----fg~~~~~~~-~~~~g~~~---~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~  466 (638)
T PRK11388        397 ----LGSDRTDSE-NGRLSKFE---LAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA  466 (638)
T ss_pred             ----cCCCCcCcc-CCCCCcee---ECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccC
Confidence                221111000 00000000   1123468999998777666666766554321           13578887765

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=95.12  E-value=0.16  Score=45.27  Aligned_cols=21  Identities=38%  Similarity=0.224  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++.|+|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999873

>PRK06217 hypothetical protein; Validated

Probab=95.12  E-value=0.015  Score=51.77  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .|.|.|.+|+||||||+.+....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998743

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.09  E-value=0.12  Score=47.71  Aligned_cols=40  Identities=18%  Similarity=0.092  Sum_probs=28.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD  265 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~  265 (475)
                      -.++.|.|.+|+|||+|+.++.....  ..-...+|++....
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~--~~g~~~~~is~e~~   59 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGL--RDGDPVIYVTTEES   59 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHH--hcCCeEEEEEccCC
Confidence            37899999999999999998765321  12346778876443

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.07  E-value=0.051  Score=53.56  Aligned_cols=111  Identities=14%  Similarity=0.105  Sum_probs=59.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|.|+.|+||||+.+.+.+.  ...+....++. +.++...  ..... ..+........+.......++..+...+
T Consensus       123 g~ili~G~tGSGKTT~l~al~~~--i~~~~~~~i~t-iEdp~E~--~~~~~-~~~i~q~evg~~~~~~~~~l~~~lr~~p  196 (343)
T TIGR01420       123 GLILVTGPTGSGKSTTLASMIDY--INKNAAGHIIT-IEDPIEY--VHRNK-RSLINQREVGLDTLSFANALRAALREDP  196 (343)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh--hCcCCCCEEEE-EcCChhh--hccCc-cceEEccccCCCCcCHHHHHHHhhccCC
Confidence            57999999999999999998763  23333344433 2222110  00000 0000000011112234566777888888


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHH
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAA  346 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~  346 (475)
                      =.|++|++.+  .+.+......   ...|..++.|....+..
T Consensus       197 d~i~vgEird--~~~~~~~l~a---a~tGh~v~~T~Ha~~~~  233 (343)
T TIGR01420       197 DVILIGEMRD--LETVELALTA---AETGHLVFGTLHTNSAA  233 (343)
T ss_pred             CEEEEeCCCC--HHHHHHHHHH---HHcCCcEEEEEcCCCHH
Confidence            8999999954  3444433222   23455677777664444

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=95.06  E-value=0.69  Score=43.66  Aligned_cols=96  Identities=20%  Similarity=0.192  Sum_probs=65.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +.+.++|..|+|||+-++.+++..      ....-+..+..++...++..+........  ..........+...+.+..
T Consensus        95 ~l~~vyg~~g~gKt~a~~~y~~s~------p~~~l~~~~p~~~a~~~i~~i~~~~~~~~--~~~~~d~~~~~~~~l~~~~  166 (297)
T COG2842          95 SLVVVYGYAGLGKTQAAKNYAPSN------PNALLIEADPSYTALVLILIICAAAFGAT--DGTINDLTERLMIRLRDTV  166 (297)
T ss_pred             ceEEEeccccchhHHHHHhhcccC------ccceeecCChhhHHHHHHHHHHHHHhccc--chhHHHHHHHHHHHHccCc
Confidence            378899999999999999998842      22333455666677777776666655542  2333445555666668888


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCC
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQ  328 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~  328 (475)
                      =+|+.|+........++.++....
T Consensus       167 ~~iivDEA~~L~~~ale~lr~i~d  190 (297)
T COG2842         167 RLIIVDEADRLPYRALEELRRIHD  190 (297)
T ss_pred             ceeeeehhhccChHHHHHHHHHHH
Confidence            899999987776667777665543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.05  E-value=0.015  Score=49.52  Aligned_cols=22  Identities=41%  Similarity=0.623  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|.|++|+||||+|+.+.++
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~   23 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEH   23 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHH
Confidence            6889999999999999999984

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.04  E-value=0.066  Score=47.51  Aligned_cols=117  Identities=17%  Similarity=0.056  Sum_probs=58.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC---CCCHHHHHHHHH--HHh--hcCC-CCCCC-------h
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ---DFDIIRVTKSIL--RSV--AMGI-VDHND-------L  289 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~---~~~~~~~l~~il--~~l--~~~~-~~~~~-------~  289 (475)
                      ..|.|+|..|-||||.|.-+.-.. ....+. +..+..-.   ......++..+-  .-.  +... ....+       .
T Consensus        23 g~v~v~~g~GkGKtt~a~g~a~ra-~g~G~~-V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~  100 (191)
T PRK05986         23 GLLIVHTGNGKGKSTAAFGMALRA-VGHGKK-VGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAA  100 (191)
T ss_pred             CeEEEECCCCCChHHHHHHHHHHH-HHCCCe-EEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHH
Confidence            578899999999999997664421 111111 22222211   223333333310  000  0000 00011       1


Q ss_pred             HHHHHHHHHHhCCce-EEEEEECCCC---CChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          290 NLLQWKLKKQLFGKR-FLLVLDDVWN---ENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       290 ~~l~~~l~~~l~~kr-~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      .......++.+.... =|+|||++-.   ......+++...+.....+.-||+|-|+.
T Consensus       101 ~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        101 REGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            122333445554444 4999999822   11233455666565555678999999984

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=95.03  E-value=0.02  Score=46.72  Aligned_cols=22  Identities=27%  Similarity=0.587  Sum_probs=19.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcCc
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      |.|+|..|+|||||.+.+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            6899999999999999998754

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.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=95.02  E-value=0.11  Score=52.44  Aligned_cols=84  Identities=18%  Similarity=0.261  Sum_probs=49.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCChHH-----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDLNL-----  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~~~-----  291 (475)
                      ..++|+|..|+|||||++.+++...    .+..+++.+.+... +.+++...+..-....       .+......     
T Consensus       159 qri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~  234 (442)
T PRK08927        159 QRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAY  234 (442)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHH
Confidence            4789999999999999999987432    24455566666543 3355544444321111       01111111     


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+.+|+++||+
T Consensus       235 ~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        235 LTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHCCCcEEEEEeCc
Confidence            111233444  689999999999

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=95.02  E-value=0.017  Score=50.53  Aligned_cols=21  Identities=43%  Similarity=0.604  Sum_probs=18.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|+|.+|+|||||++.+++.
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            689999999999999999874

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.01  E-value=0.089  Score=52.87  Aligned_cols=85  Identities=18%  Similarity=0.185  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------CCCCChHH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------VDHNDLNL-----L  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------~~~~~~~~-----l  292 (475)
                      ..++|.|..|+|||||++.+.....   ....++...-...-.+.+++...+..-....       .+......     .
T Consensus       141 q~i~I~G~sG~GKTtLl~~I~~~~~---~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~  217 (418)
T TIGR03498       141 QRLGIFAGSGVGKSTLLSMLARNTD---ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYT  217 (418)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCC---CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHH
Confidence            4789999999999999998887432   1122222222223344555555444321111       01111111     1


Q ss_pred             HHHHHHHh--CCceEEEEEECC
Q 046770          293 QWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       293 ~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .-.+.+++  +++.+||++||+
T Consensus       218 a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       218 ATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHcCCCEEEeccch
Confidence            11234444  688999999998

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=95.01  E-value=0.14  Score=47.76  Aligned_cols=50  Identities=12%  Similarity=0.124  Sum_probs=32.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      .++.|.|.+|+|||+++.+++.+.... +=..++|++...  +..++...++.
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~-~g~~vly~s~E~--~~~~~~~r~~~   63 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAKK-QGKPVLFFSLEM--SKEQLLQRLLA   63 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCceEEEeCCC--CHHHHHHHHHH
Confidence            588999999999999999887643222 123466666554  34455555543

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.

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

Probab=95.00  E-value=0.02  Score=48.50  Aligned_cols=39  Identities=23%  Similarity=0.365  Sum_probs=27.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ  264 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~  264 (475)
                      ++|.|+|+.|+|||||++.+.+... +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEEccC
Confidence            4799999999999999999998532 24455555555554

>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=94.99  E-value=0.016  Score=49.27  Aligned_cols=22  Identities=36%  Similarity=0.623  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|.|++|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999873

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=94.95  E-value=0.11  Score=52.31  Aligned_cols=84  Identities=20%  Similarity=0.281  Sum_probs=48.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHHHHHHHHhhcCC-------CCCCChHHH----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVTKSILRSVAMGI-------VDHNDLNLL----  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l~~il~~l~~~~-------~~~~~~~~l----  292 (475)
                      ..++|+|..|+|||||++.+.+..    +.+..++..+.+. ..+.+++.+.+..-....       .+.......    
T Consensus       156 qrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~~  231 (433)
T PRK07594        156 QRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALF  231 (433)
T ss_pred             CEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHHH
Confidence            478999999999999999998743    2344555555553 334455555432110000       011111111    


Q ss_pred             -HHHHHHHh--CCceEEEEEECC
Q 046770          293 -QWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       293 -~~~l~~~l--~~kr~LlVlDdv  312 (475)
                       .-.+.+++  +|+++||++||+
T Consensus       232 ~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        232 VATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHCCCcEEEEEeCH
Confidence             11233444  688999999999

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.95  E-value=0.021  Score=51.02  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            37899999999999999999874

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=94.93  E-value=0.074  Score=49.98  Aligned_cols=52  Identities=21%  Similarity=0.333  Sum_probs=35.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .++|-.--++.++..+.+ -..+....++-+++.+|.+|+||..+++.++++.
T Consensus        83 ~lfGQHla~~~Vv~alk~-~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~  134 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKS-HWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENL  134 (344)
T ss_pred             HhhchHHHHHHHHHHHHH-HhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHH
Confidence            466655555555555543 2222222678899999999999999999888753

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=94.90  E-value=0.15  Score=45.76  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|.|+.|.|||||.+.+..-
T Consensus        36 e~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          36 ELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=94.90  E-value=0.041  Score=56.64  Aligned_cols=96  Identities=21%  Similarity=0.255  Sum_probs=51.9

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEE-EEEecCCCCHHHHHHHHHHHhhc---
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKA-WTYVSQDFDIIRVTKSILRSVAM---  281 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-wv~v~~~~~~~~~l~~il~~l~~---  281 (475)
                      .++++|.....+       .-.+|+|++|+|||||++.+.+... ..+-++.+ .+-|.+.....   .++-+.+..   
T Consensus       405 RvIDll~PIGkG-------QR~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEV---tdm~rsVkgeVV  473 (672)
T PRK12678        405 RVIDLIMPIGKG-------QRGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEV---TDMQRSVKGEVI  473 (672)
T ss_pred             eeeeeecccccC-------CEeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhH---HHHHHhccceEE
Confidence            467777663221       3578999999999999999988421 22333333 44555543322   222222211   


Q ss_pred             -CCCCCCC-----hHHHHHHHHHHh--CCceEEEEEECC
Q 046770          282 -GIVDHND-----LNLLQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       282 -~~~~~~~-----~~~l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                       ...+...     ...+.-.+.+++  .++.+||++|++
T Consensus       474 asT~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        474 ASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCc
Confidence             1111111     111222233444  689999999998

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=94.90  E-value=0.092  Score=52.02  Aligned_cols=42  Identities=21%  Similarity=0.173  Sum_probs=31.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      .++.|.|.+|+|||.||-.++.............+++.+...
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l   43 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPL   43 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchH
Confidence            588999999999999999998854113445566677666643

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.89  E-value=0.02  Score=51.92  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|++|+|||||++.++..
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999999874

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=94.89  E-value=0.19  Score=48.95  Aligned_cols=59  Identities=19%  Similarity=0.210  Sum_probs=40.8

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSI  275 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~i  275 (475)
                      ++++.|.....+       ..++|.|..|+|||+|++++.+..    +-+.++++-+.+..+ +.+++.++
T Consensus       146 rvID~l~Pi~kG-------qr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef  205 (369)
T cd01134         146 RVLDTLFPVVKG-------GTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEF  205 (369)
T ss_pred             hhhhccccccCC-------CEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHH
Confidence            456666552221       368999999999999999999853    335788888877543 44555554

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.

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.86  E-value=0.12  Score=51.97  Aligned_cols=84  Identities=19%  Similarity=0.287  Sum_probs=50.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcCCC-----CCCC--hHH-----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMGIV-----DHND--LNL-----  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~~~-----~~~~--~~~-----  291 (475)
                      ..++|.|..|+|||||.+.+++...    -+.++++.+.+... +.+++...+..-.....     ..++  ...     
T Consensus       163 q~~~I~G~sG~GKStLl~~Ia~~~~----~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~  238 (439)
T PRK06936        163 QRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGF  238 (439)
T ss_pred             CEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHH
Confidence            4789999999999999999998532    35677777776543 44444443332111110     1111  111     


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+++|+++||+
T Consensus       239 ~a~tiAEyfrd~G~~Vll~~Dsl  261 (439)
T PRK06936        239 VATSIAEYFRDQGKRVLLLMDSV  261 (439)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            111233343  689999999998

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.86  E-value=0.02  Score=48.35  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=19.4

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|+|+.|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999884

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.84  E-value=0.026  Score=50.89  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +...++.|+|.+|+||||||+.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999999987

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=94.84  E-value=0.26  Score=45.29  Aligned_cols=175  Identities=11%  Similarity=0.091  Sum_probs=78.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC---CCCChHHHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV---DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---~~~~~~~l~~~l~~~  299 (475)
                      +.+++.|+|+.|.||||+.+.+.... +-  +..-.+|.....  .......++..++....   .......-...+...
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~~-~l--a~~g~~vpa~~~--~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~i  103 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVIV-LM--AQIGCFVPCDSA--DIPIVDCILARVGASDSQLKGVSTFMAEMLETAAI  103 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH-HH--HHhCCCcCcccE--EEeccceeEeeeccccchhcCcChHHHHHHHHHHH
Confidence            34789999999999999998875321 00  000001111110  00011122222211110   111112112223333


Q ss_pred             h--CCceEEEEEECCCCC----Ch--hhHhHhhCcCCCCCCCcEEEEecCChHHHHhcCCCc---eeeCCCCCHH--HHH
Q 046770          300 L--FGKRFLLVLDDVWNE----NY--NDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQ---AYPLKGLSND--DCM  366 (475)
Q Consensus       300 l--~~kr~LlVlDdv~~~----~~--~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~~~~---~~~l~~L~~~--~~~  366 (475)
                      +  -..+-|++||+....    +.  ..|. +...+.. ..++.+|+||...++...+....   ..++.....+  +..
T Consensus       104 l~~~~~~sLvLLDEp~~gT~~lD~~~~~~~-il~~l~~-~~~~~vlisTH~~el~~~~~~~~~i~~g~~~~~~~~~~~~~  181 (222)
T cd03285         104 LKSATENSLIIIDELGRGTSTYDGFGLAWA-IAEYIAT-QIKCFCLFATHFHELTALADEVPNVKNLHVTALTDDASRTL  181 (222)
T ss_pred             HHhCCCCeEEEEecCcCCCChHHHHHHHHH-HHHHHHh-cCCCeEEEEechHHHHHHhhcCCCeEEEEEEEEEeCCCCcE
Confidence            3  356789999999422    11  1122 1122322 24788999999877766554221   1222111111  111


Q ss_pred             HHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcC
Q 046770          367 CLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHG  412 (475)
Q Consensus       367 ~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~  412 (475)
                       .|..+.. .+.  ..   ...+-.+++++ |+|-.+.--|..+..
T Consensus       182 -~~~Y~l~-~G~--~~---~s~a~~~a~~~-g~p~~vi~~A~~~~~  219 (222)
T cd03285         182 -TMLYKVE-KGA--CD---QSFGIHVAELA-NFPKEVIEMAKQKAL  219 (222)
T ss_pred             -eEEEEEe-eCC--CC---CcHHHHHHHHh-CcCHHHHHHHHHHHH
Confidence             1111111 111  01   23455566665 899888877776654

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

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

Probab=94.83  E-value=0.022  Score=49.09  Aligned_cols=20  Identities=40%  Similarity=0.747  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~  245 (475)
                      .|+|+|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            57899999999999999887

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=94.82  E-value=0.12  Score=46.65  Aligned_cols=22  Identities=23%  Similarity=0.146  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            5899999999999999999973

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK14737 gmk guanylate kinase; Provisional

Probab=94.78  E-value=0.03  Score=49.95  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=22.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|.|+|++|+|||||++.+...
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3478999999999999999999874

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=94.78  E-value=0.07  Score=56.66  Aligned_cols=43  Identities=28%  Similarity=0.346  Sum_probs=34.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|.++.++.+...+..        .  +.+.++|++|+||||+|+.+.+.
T Consensus        18 ~~viG~~~a~~~l~~a~~~--------~--~~~ll~G~pG~GKT~la~~la~~   60 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQ--------K--RNVLLIGEPGVGKSMLAKAMAEL   60 (608)
T ss_pred             hhccCHHHHHHHHHHHHHc--------C--CCEEEECCCCCCHHHHHHHHHHH
Confidence            4688988877777776654        2  24559999999999999999874

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

>PRK13947 shikimate kinase; Provisional

Probab=94.77  E-value=0.021  Score=50.08  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|++|+||||+|+.+.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999999873

>PRK14530 adenylate kinase; Provisional

Probab=94.75  E-value=0.022  Score=52.17  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|+|++|+||||+|+.+...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999863

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=94.75  E-value=0.092  Score=54.26  Aligned_cols=46  Identities=17%  Similarity=0.281  Sum_probs=35.2

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|+...+.++...+....      ..-..|.|+|.+|+|||++|+.+...
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            58898888888777665422      12245789999999999999999874

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=94.72  E-value=0.053  Score=49.89  Aligned_cols=52  Identities=15%  Similarity=0.125  Sum_probs=29.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcc-----cccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSR-----VQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~-----~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      +..|.|++|.|||+++..+.....     ....-...+-++...+..+..++..+..
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            688999999999977666655320     1123344455555555555555555544

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=94.72  E-value=0.19  Score=54.81  Aligned_cols=144  Identities=16%  Similarity=0.172  Sum_probs=78.1

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA  280 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~  280 (475)
                      ...+.+|.+.+..          ..|+.|.|..|.||||-.-+++-+.-.  .....+-+.-........+...+.++++
T Consensus        52 ~~~~~~i~~ai~~----------~~vvii~getGsGKTTqlP~~lle~g~--~~~g~I~~tQPRRlAArsvA~RvAeel~  119 (845)
T COG1643          52 TAVRDEILKAIEQ----------NQVVIIVGETGSGKTTQLPQFLLEEGL--GIAGKIGCTQPRRLAARSVAERVAEELG  119 (845)
T ss_pred             HHHHHHHHHHHHh----------CCEEEEeCCCCCChHHHHHHHHHhhhc--ccCCeEEecCchHHHHHHHHHHHHHHhC
Confidence            4556778888755          368999999999999988777653211  1123343333333455667777888777


Q ss_pred             cCCC----------C---------CCChHHHHHHHH-HHhCCceEEEEEECCCCCChhh---HhHhhCcCCCCCCCcEEE
Q 046770          281 MGIV----------D---------HNDLNLLQWKLK-KQLFGKRFLLVLDDVWNENYND---WIDLSRPFQDGAPGSKII  337 (475)
Q Consensus       281 ~~~~----------~---------~~~~~~l~~~l~-~~l~~kr~LlVlDdv~~~~~~~---~~~l~~~l~~~~~gs~il  337 (475)
                      ....          +         -.+...+.+.++ +.+-.+=-.||+|.+++-+...   ..-+...+......-|||
T Consensus       120 ~~~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiI  199 (845)
T COG1643         120 EKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLI  199 (845)
T ss_pred             CCcCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEE
Confidence            6431          0         111233333333 2222333488999998754211   111111122222248999


Q ss_pred             EecCCh---HHHHhcCCCceee
Q 046770          338 ITTRNA---DAALIMGTVQAYP  356 (475)
Q Consensus       338 vTtR~~---~v~~~~~~~~~~~  356 (475)
                      |+|=.-   .++..++...+++
T Consensus       200 imSATld~~rfs~~f~~apvi~  221 (845)
T COG1643         200 IMSATLDAERFSAYFGNAPVIE  221 (845)
T ss_pred             EEecccCHHHHHHHcCCCCEEE
Confidence            998763   3444444333333

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=94.71  E-value=0.19  Score=54.09  Aligned_cols=22  Identities=41%  Similarity=0.670  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..|+|+|..|+|||||++.+..
T Consensus       500 e~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         500 EKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4799999999999999999855

>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=94.70  E-value=0.03  Score=44.74  Aligned_cols=21  Identities=43%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      ..++|+|+.|+|||||+..+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            578999999999999999976

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

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=94.70  E-value=0.18  Score=53.08  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|+|+.|+|||||++.+..-
T Consensus       362 ~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       362 ERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999753

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.

>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=94.70  E-value=0.1  Score=48.85  Aligned_cols=77  Identities=16%  Similarity=0.120  Sum_probs=42.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC--CCHHHHHHHHHHHh----hcCC--CCCCChHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD--FDIIRVTKSILRSV----AMGI--VDHNDLNLLQWKLK  297 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~--~~~~~~l~~il~~l----~~~~--~~~~~~~~l~~~l~  297 (475)
                      +|+|.|.+|+||||+++.+.......+  .....++...-  ++-...-..+....    +-..  ++..+.+.+.+.++
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~g--~~v~vI~~D~yyr~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~   78 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAREG--IHPAVVEGDSFHRYERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR   78 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcC--CceEEEeccccccCCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence            589999999999999998876322111  11233332221  12112212222221    1111  45667788888888


Q ss_pred             HHhCCce
Q 046770          298 KQLFGKR  304 (475)
Q Consensus       298 ~~l~~kr  304 (475)
                      .+.+++.
T Consensus        79 ~L~~g~~   85 (277)
T cd02029          79 TYGETGR   85 (277)
T ss_pred             HHHcCCC
Confidence            8877653

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.

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

Probab=94.68  E-value=0.046  Score=49.01  Aligned_cols=22  Identities=45%  Similarity=0.614  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|++|+|++|+|||||.+.+..
T Consensus        29 evv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            4899999999999999999865

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.66  E-value=0.12  Score=48.67  Aligned_cols=83  Identities=22%  Similarity=0.245  Sum_probs=46.6

Q ss_pred             EEEEEccCCCcHHHHH-HHHHcCcccccCcCeE-EEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChHH----
Q 046770          226 VVSIIGMGGLGKTTLA-QLVYNDSRVQCHFDLK-AWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLNL----  291 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~~-~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~~----  291 (475)
                      -++|.|..|+|||+|| ..+.+..    +-+.. +++-+.+.. ...+++..+...-....       .+......    
T Consensus        71 r~~Ifg~~g~GKt~L~l~~i~~~~----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~  146 (274)
T cd01132          71 RELIIGDRQTGKTAIAIDTIINQK----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAP  146 (274)
T ss_pred             EEEeeCCCCCCccHHHHHHHHHhc----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHH
Confidence            5789999999999996 6565531    22333 667776654 34555555553211110       01111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEECC
Q 046770          292 -LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 -l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                       ..-.+.+++  +|+.+|+++||+
T Consensus       147 ~~a~aiAE~fr~~G~~Vlvl~Dsl  170 (274)
T cd01132         147 YTGCAMGEYFMDNGKHALIIYDDL  170 (274)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEcCh
Confidence             111223333  589999999999

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.

>PRK13949 shikimate kinase; Provisional

Probab=94.66  E-value=0.024  Score=49.75  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|++|+||||+++.+++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999884

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.66  E-value=0.032  Score=50.68  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+.+.|+|++|+|||||++.+.+.
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            45578999999999999999999763

>PF13245 AAA_19: Part of AAA domain

Probab=94.66  E-value=0.051  Score=40.57  Aligned_cols=22  Identities=27%  Similarity=0.336  Sum_probs=16.4

Q ss_pred             EEEEEEccCCCcHHHHH-HHHHc
Q 046770          225 SVVSIIGMGGLGKTTLA-QLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA-~~v~~  246 (475)
                      +++.|.|++|.|||+++ ..+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57888999999999544 44444

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.64  E-value=0.021  Score=49.76  Aligned_cols=21  Identities=29%  Similarity=0.574  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|+|++|+||||+|+.+.+.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999874

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=94.63  E-value=0.13  Score=52.43  Aligned_cols=82  Identities=20%  Similarity=0.163  Sum_probs=48.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~~  298 (475)
                      -.++.|.|.+|+|||||+.+++.+..  ..-..++|++..+.+  ..+... .+.++...     ....+.+.+...+.+
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees~--~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEESA--SQIKLR-AERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccccH--HHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            36899999999999999999887432  122356777765433  333222 33333211     122344444444432


Q ss_pred             HhCCceEEEEEECCC
Q 046770          299 QLFGKRFLLVLDDVW  313 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~  313 (475)
                         .+.-++|+|.+.
T Consensus       155 ---~~~~lVVIDSIq  166 (446)
T PRK11823        155 ---EKPDLVVIDSIQ  166 (446)
T ss_pred             ---hCCCEEEEechh
Confidence               355689999984

>PRK09099 type III secretion system ATPase; Provisional

Probab=94.62  E-value=0.11  Score=52.66  Aligned_cols=85  Identities=18%  Similarity=0.231  Sum_probs=47.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------CCCCChHH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------VDHNDLNL-----L  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------~~~~~~~~-----l  292 (475)
                      ..++|.|..|+|||||++.+.......   ..+++..-.+...+.++...+...-....       .+......     .
T Consensus       164 q~~~I~G~sG~GKTtLl~~ia~~~~~d---~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~  240 (441)
T PRK09099        164 QRMGIFAPAGVGKSTLMGMFARGTQCD---VNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYV  240 (441)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCC---eEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHH
Confidence            478999999999999999998753221   23333333333445555555543311111       01111111     1


Q ss_pred             HHHHHHHh--CCceEEEEEECC
Q 046770          293 QWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       293 ~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .-.+.+++  +|+.+|+++||+
T Consensus       241 a~tiAEyfrd~G~~VLl~~Dsl  262 (441)
T PRK09099        241 ATAIAEYFRDRGLRVLLMMDSL  262 (441)
T ss_pred             HHHHHHHHHHcCCCEEEeccch
Confidence            11233444  589999999998

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=94.62  E-value=0.064  Score=52.61  Aligned_cols=107  Identities=18%  Similarity=0.072  Sum_probs=63.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|++..+..+...+.. .         +-+.+.|++|+|||+||+.++..  ..   -...+|.+.....+.+++-..
T Consensus        25 ~~~g~~~~~~~~l~a~~~-~---------~~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          25 VVVGDEEVIELALLALLA-G---------GHVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeeccHHHHHHHHHHHHc-C---------CCEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcCch
Confidence            378888877777766655 2         35789999999999999999983  22   233566667666666654433


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhC-----CceEEEEEECCCCCChhhHhHhhCcC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLF-----GKRFLLVLDDVWNENYNDWIDLSRPF  327 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~-----~kr~LlVlDdv~~~~~~~~~~l~~~l  327 (475)
                      .-.......          .-..+..     .-+.++++|.++.........++..+
T Consensus        90 ~~~~~~~~~----------~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l  136 (329)
T COG0714          90 AYAALLLEP----------GEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEAL  136 (329)
T ss_pred             hHhhhhccC----------CeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHH
Confidence            322211000          0000000     11158999999876654444444433

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

Probab=94.61  E-value=0.028  Score=51.23  Aligned_cols=56  Identities=13%  Similarity=0.153  Sum_probs=33.8

Q ss_pred             HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhcC
Q 046770          295 KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      .+.+.|.-++=+||+|+.-+. +.....+++..|..  ...+-.+|+.|.+-.+...++
T Consensus       151 aIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~l~~~~~lt~l~IsHdl~~v~~~c  209 (252)
T COG1124         151 AIARALIPEPKLLILDEPTSALDVSVQAQILNLLLELKKERGLTYLFISHDLALVEHMC  209 (252)
T ss_pred             HHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHHHHHhcCceEEEEeCcHHHHHHHh
Confidence            466777778889999997332 22222333333332  234667888888876665554

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

Probab=94.60  E-value=0.025  Score=48.53  Aligned_cols=22  Identities=32%  Similarity=0.599  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998874

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

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.60  E-value=0.031  Score=50.31  Aligned_cols=24  Identities=25%  Similarity=0.427  Sum_probs=21.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999999884

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=94.59  E-value=0.49  Score=45.08  Aligned_cols=59  Identities=8%  Similarity=0.062  Sum_probs=38.9

Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC-hHHH-HhcCCCceeeCCCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN-ADAA-LIMGTVQAYPLKGL  360 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~-~~v~-~~~~~~~~~~l~~L  360 (475)
                      ++.=++|+|++...+.+.+..++..+..-..++.+|++|.+ ..+. ...+....+.+.++
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            45558899999888888899998888765566666666665 3332 22333345555543

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=94.59  E-value=0.036  Score=61.28  Aligned_cols=140  Identities=14%  Similarity=0.079  Sum_probs=74.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccc--cCcCeEEEEEecCCC----CHHH-HHHHHHHHhhcCCCCCCChHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQ--CHFDLKAWTYVSQDF----DIIR-VTKSILRSVAMGIVDHNDLNLLQWK  295 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~wv~v~~~~----~~~~-~l~~il~~l~~~~~~~~~~~~l~~~  295 (475)
                      ...-+.|+|.+|.||||+.+.++-....+  ..=+..+++.+....    .... .+...+.......   .........
T Consensus       221 ~~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~---~~~~~~~~~  297 (824)
T COG5635         221 KYAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQ---GIAKQLIEA  297 (824)
T ss_pred             hhhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhcc---CCcchhhHH
Confidence            34578999999999999998876432111  112344454443111    1111 1222222222111   111222233


Q ss_pred             HHHHhCCceEEEEEECCCCCChhh----HhHhhCcCCCCCCCcEEEEecCChHHHHhcCCCceeeCCCCCHHHHH
Q 046770          296 LKKQLFGKRFLLVLDDVWNENYND----WIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCM  366 (475)
Q Consensus       296 l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~~~~gs~ilvTtR~~~v~~~~~~~~~~~l~~L~~~~~~  366 (475)
                      ..+.++..++|+++|.+.......    ... ...+...-+.+.+|+|+|....-........+++..+.++...
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~-i~~f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~  371 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIRE-INKFLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQIN  371 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHH-HHHHhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHH
Confidence            367888899999999985432211    111 1222233457899999987655444444555666666665544

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

Probab=94.57  E-value=0.1  Score=52.02  Aligned_cols=53  Identities=17%  Similarity=0.241  Sum_probs=36.6

Q ss_pred             ccccccchhHHHHHHHHhcC------CCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKE------DGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~------~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.+..++.+..++...      ............+.++|++|+|||+||+.+...
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            45889888888887777430      000000012367899999999999999999874

>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=94.57  E-value=0.026  Score=48.44  Aligned_cols=21  Identities=43%  Similarity=0.705  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|++|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            689999999999999999873

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.

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=94.57  E-value=0.12  Score=47.22  Aligned_cols=21  Identities=29%  Similarity=0.319  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +++.|+|+.|.||||+.+.+.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~   51 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVA   51 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            789999999999999999985

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 clam

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=94.55  E-value=0.037  Score=50.35  Aligned_cols=26  Identities=27%  Similarity=0.455  Sum_probs=23.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++++|+++|+.|+|||||..++...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999998874

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

>PRK15115 response regulator GlrR; Provisional

Probab=94.53  E-value=0.11  Score=53.32  Aligned_cols=133  Identities=19%  Similarity=0.015  Sum_probs=67.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|....+.++.+......      ..-..|.|.|.+|+|||++|+.+.+......  ..-+.+++...  ....+...
T Consensus       135 ~lig~s~~~~~~~~~~~~~a------~~~~~vli~Ge~GtGk~~lA~~ih~~s~r~~--~~f~~i~c~~~--~~~~~~~~  204 (444)
T PRK15115        135 AIVTRSPLMLRLLEQARMVA------QSDVSVLINGQSGTGKEILAQAIHNASPRAS--KPFIAINCGAL--PEQLLESE  204 (444)
T ss_pred             cccccCHHHHHHHHHHHhhc------cCCCeEEEEcCCcchHHHHHHHHHHhcCCCC--CCeEEEeCCCC--CHHHHHHH
Confidence            46777777766666554311      1123567999999999999999987432111  12233333332  12222222


Q ss_pred             HHHhhcCCCCCCC-hHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCCh
Q 046770          276 LRSVAMGIVDHND-LNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRNA  343 (475)
Q Consensus       276 l~~l~~~~~~~~~-~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~~  343 (475)
                         +.+...+... ......-+  ......-.|+||++..........+...+..+.           ...+||.||...
T Consensus       205 ---lfg~~~~~~~~~~~~~~g~--~~~a~~gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~  279 (444)
T PRK15115        205 ---LFGHARGAFTGAVSNREGL--FQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD  279 (444)
T ss_pred             ---hcCCCcCCCCCCccCCCCc--EEECCCCEEEEEccccCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC
Confidence               1111110000 00000000  001123379999998777666666666554321           145888888754

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.50  E-value=0.21  Score=48.46  Aligned_cols=84  Identities=18%  Similarity=0.281  Sum_probs=47.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      ..++|+|..|.|||||.+.+.+...    -+......+.. ..++.++....+..-....       .+.....     .
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~  145 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAY  145 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHH
Confidence            4689999999999999999987432    13333344443 3345555555544321111       1111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +++.+||++||+
T Consensus       146 ~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         146 TATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHcCCCeEEEeccc
Confidence            111233333  689999999998

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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=94.50  E-value=0.22  Score=51.32  Aligned_cols=160  Identities=18%  Similarity=0.080  Sum_probs=80.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|......++...+.....     .. ..+.|.|..|+||+++|+.+......  .....+-+++...  ..+.+...
T Consensus       135 ~lig~s~~~~~v~~~i~~~a~-----~~-~~vli~Ge~GtGK~~~A~~ih~~~~~--~~~~~~~~~c~~~--~~~~~~~~  204 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLSR-----SD-ITVLINGESGTGKELVARALHRHSPR--ANGPFIALNMAAI--PKDLIESE  204 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHhC-----cC-CeEEEECCCCCCHHHHHHHHHHhCCC--CCCCeEEEeCCCC--CHHHHHHH
Confidence            477777767777666544111     22 35689999999999999999874321  1112223333332  22333333


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCChH
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRNAD  344 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~~~  344 (475)
                      +   .+...+.-... .............-.|+||++..........+...+..+.           .+.+||+||...-
T Consensus       205 l---fg~~~~~~~~~-~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l  280 (463)
T TIGR01818       205 L---FGHEKGAFTGA-NTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNL  280 (463)
T ss_pred             h---cCCCCCCCCCc-ccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCH
Confidence            2   11111100000 0000000111223458899998877666667765554321           2458888887542


Q ss_pred             HHHh---------c--CCCceeeCCCCC--HHHHHHHH
Q 046770          345 AALI---------M--GTVQAYPLKGLS--NDDCMCLF  369 (475)
Q Consensus       345 v~~~---------~--~~~~~~~l~~L~--~~~~~~lf  369 (475)
                      ....         .  -....+.+.||.  .+|.-.|+
T Consensus       281 ~~~~~~~~f~~~L~~rl~~~~i~lPpLr~R~~Di~~l~  318 (463)
T TIGR01818       281 EALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLA  318 (463)
T ss_pred             HHHHHcCCcHHHHHHHhCcceecCCCcccchhhHHHHH
Confidence            1100         0  012467778887  44544443

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.

>PRK05922 type III secretion system ATPase; Validated

Probab=94.49  E-value=0.19  Score=50.70  Aligned_cols=84  Identities=12%  Similarity=0.220  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHHHHHHHHhhcCCC-----CCC--ChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVTKSILRSVAMGIV-----DHN--DLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l~~il~~l~~~~~-----~~~--~~~-----~  291 (475)
                      ..++|+|..|+|||||.+.+.+...    .+....+.+.+. ....+.+.+..........     ..+  ...     .
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~  233 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR  233 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence            4689999999999999999987431    233333334332 2334444444433222211     111  111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+++|+++||+
T Consensus       234 ~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        234 AAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEeccch
Confidence            112234444  589999999999

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=94.45  E-value=0.034  Score=47.56  Aligned_cols=24  Identities=38%  Similarity=0.617  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++.|+|.+|+||||+.+.+...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            579999999999999999888763

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.45  E-value=0.15  Score=51.33  Aligned_cols=24  Identities=29%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.++|+.|+||||++..++.
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988764

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.44  E-value=0.044  Score=53.68  Aligned_cols=46  Identities=17%  Similarity=0.263  Sum_probs=37.0

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      =+.++|-++-+..|...+.+        +.+.-|.|.|..|+||||+|+.+++-
T Consensus        16 f~~ivGq~~~k~al~~~~~~--------p~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         16 FTAIVGQEEMKLALILNVID--------PKIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             HHHHhChHHHHHHHHHhccC--------CCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            35789999888888877766        34556779999999999999998653

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.43  E-value=0.13  Score=52.02  Aligned_cols=87  Identities=11%  Similarity=0.170  Sum_probs=53.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      .-++|.|.+|+|||+|+..+..+.. +.+-+.++++-+.+... ..+++..+...-....       .+.....     .
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~  217 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGH  217 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHH
Confidence            3578999999999999999877532 23346788888877653 4555555554311111       0111111     1


Q ss_pred             HHHHHHHHh---CCceEEEEEECC
Q 046770          292 LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      ..-.+.+++   +|+++|+++||+
T Consensus       218 ~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       218 TALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHHHHHHHHHHhcCCceEEEecCh
Confidence            122344454   478999999998

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK14527 adenylate kinase; Provisional

Probab=94.40  E-value=0.034  Score=49.89  Aligned_cols=25  Identities=32%  Similarity=0.387  Sum_probs=21.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++.|+|++|+||||+|+.+.+.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~   29 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQE   29 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999863

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=94.40  E-value=0.041  Score=48.93  Aligned_cols=44  Identities=16%  Similarity=0.105  Sum_probs=29.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      +.|.|++|+|||+|+.++..... +. =..+.|++...+  ..++...
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~-~~-g~~v~~~s~e~~--~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL-AR-GEPGLYVTLEES--PEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH-HC-CCcEEEEECCCC--HHHHHHH
Confidence            67999999999999998866421 11 245677776553  4444433

A related protein is found in archaea.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=94.39  E-value=0.18  Score=50.74  Aligned_cols=84  Identities=19%  Similarity=0.297  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      ..++|+|..|.|||||++.+.+...    .+..+...+.+.. .+.++...++..-....       .+.....     .
T Consensus       138 q~~~I~G~sG~GKTtLl~~I~~~~~----~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~  213 (411)
T TIGR03496       138 QRMGIFAGSGVGKSTLLGMMARYTE----ADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAF  213 (411)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC----CCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHH
Confidence            4689999999999999998887432    2333444555533 34444444433211110       1111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +++++||++||+
T Consensus       214 ~a~tiAEyfr~~G~~Vll~~Dsl  236 (411)
T TIGR03496       214 YATAIAEYFRDQGKDVLLLMDSL  236 (411)
T ss_pred             HHHHHHHHHHHCCCCEEEEEeCh
Confidence            111233343  689999999998

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.

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=94.39  E-value=0.3  Score=45.48  Aligned_cols=75  Identities=17%  Similarity=0.182  Sum_probs=44.7

Q ss_pred             HHHHhCCceEEEEEECCC-CCChhhHhHhhCcCC--CCCCCcEEEEecCC-hHHHHhcCCCceeeCCCCCHHHHHHHHh
Q 046770          296 LKKQLFGKRFLLVLDDVW-NENYNDWIDLSRPFQ--DGAPGSKIIITTRN-ADAALIMGTVQAYPLKGLSNDDCMCLFT  370 (475)
Q Consensus       296 l~~~l~~kr~LlVlDdv~-~~~~~~~~~l~~~l~--~~~~gs~ilvTtR~-~~v~~~~~~~~~~~l~~L~~~~~~~lf~  370 (475)
                      |...|-.++-++.||+.- ..+...-..++.++.  +...++.|++||.+ .+++.+|...-.+....+=.+....=|.
T Consensus       167 LaaaLLh~p~VLfLDEpTvgLDV~aq~~ir~Flke~n~~~~aTVllTTH~~~di~~lc~rv~~I~~Gqlv~dg~l~~l~  245 (325)
T COG4586         167 LAAALLHPPKVLFLDEPTVGLDVNAQANIREFLKEYNEERQATVLLTTHIFDDIATLCDRVLLIDQGQLVFDGTLAQLQ  245 (325)
T ss_pred             HHHHhcCCCcEEEecCCccCcchhHHHHHHHHHHHHHHhhCceEEEEecchhhHHHhhhheEEeeCCcEeecccHHHHH
Confidence            444444667788999872 122334445555554  33468999999998 6777776655555555554443333333

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=94.39  E-value=0.084  Score=47.30  Aligned_cols=22  Identities=36%  Similarity=0.591  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|+.|+||||+++.+.+.
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).

>TIGR00416 sms DNA repair protein RadA

Probab=94.38  E-value=0.2  Score=51.22  Aligned_cols=82  Identities=13%  Similarity=0.103  Sum_probs=47.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~~  298 (475)
                      -.++.|.|.+|+|||||+.++..+....  -..++|++..+.  ...+... ...++...     ....+.+.+...+.+
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EEs--~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~~~i~~  168 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEES--LQQIKMR-AIRLGLPEPNLYVLSETNWEQICANIEE  168 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcCC--HHHHHHH-HHHcCCChHHeEEcCCCCHHHHHHHHHh
Confidence            3789999999999999999987643211  134677776543  3333221 12222111     123344444444432


Q ss_pred             HhCCceEEEEEECCC
Q 046770          299 QLFGKRFLLVLDDVW  313 (475)
Q Consensus       299 ~l~~kr~LlVlDdv~  313 (475)
                         .+.-++|+|.+.
T Consensus       169 ---~~~~~vVIDSIq  180 (454)
T TIGR00416       169 ---ENPQACVIDSIQ  180 (454)
T ss_pred             ---cCCcEEEEecch
Confidence               345689999984

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)).

>PRK13975 thymidylate kinase; Provisional

Probab=94.37  E-value=0.034  Score=50.00  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+|.|.|+.|+||||+|+.+.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999843

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=94.37  E-value=0.1  Score=45.75  Aligned_cols=80  Identities=15%  Similarity=0.081  Sum_probs=43.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCC---CCChHHHHHHHHHHhCC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVD---HNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~---~~~~~~l~~~l~~~l~~  302 (475)
                      ++.|.|.+|+||||+|..+.....     ....++.....++. +....+-.........   -.....+...+.....+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~-----~~~~~iat~~~~~~-e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~   76 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG-----LQVLYIATAQPFDD-EMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAP   76 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC-----CCcEeCcCCCCChH-HHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCC
Confidence            689999999999999999876321     12344444444433 4444444333322211   11112344444443332


Q ss_pred             ceEEEEEECC
Q 046770          303 KRFLLVLDDV  312 (475)
Q Consensus       303 kr~LlVlDdv  312 (475)
                       .-++++|.+
T Consensus        77 -~~~VlID~L   85 (170)
T PRK05800         77 -GRCVLVDCL   85 (170)
T ss_pred             -CCEEEehhH
Confidence             237888887

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=94.34  E-value=0.067  Score=56.74  Aligned_cols=74  Identities=16%  Similarity=0.070  Sum_probs=51.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      ..++|.++.++.|...+..        .  +.+.++|++|+||||+|+.+.+.. ...+++..+|..- ...+...+++.
T Consensus        31 ~~vigq~~a~~~L~~~~~~--------~--~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~n-p~~~~~~~~~~   98 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQ--------R--RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPN-PEDPNNPKIRT   98 (637)
T ss_pred             HHcCChHHHHHHHHHHHHh--------C--CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeC-CCcchHHHHHH
Confidence            4688988888888776654        2  368899999999999999998742 2334567777654 33455566666


Q ss_pred             HHHHhh
Q 046770          275 ILRSVA  280 (475)
Q Consensus       275 il~~l~  280 (475)
                      +..+++
T Consensus        99 v~~~~G  104 (637)
T PRK13765         99 VPAGKG  104 (637)
T ss_pred             HHHhcC
Confidence            665443

>PLN02796 D-glycerate 3-kinase

Probab=94.33  E-value=0.22  Score=48.50  Aligned_cols=25  Identities=32%  Similarity=0.198  Sum_probs=22.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-+|+|.|..|+|||||++.+...
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~l  123 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYL  123 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            4578999999999999999999874

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.32  E-value=0.36  Score=56.46  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=22.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+-|.++|++|+|||.||++++.+.
T Consensus      1630 PKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1630 SRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCceEEECCCCCCHHHHHHHHHHhc
Confidence            4568899999999999999999864

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=94.31  E-value=1  Score=41.53  Aligned_cols=51  Identities=25%  Similarity=0.234  Sum_probs=37.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCC------CCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTS------HNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~------~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +++=|-++.+++|++.+.- +...      -.-..++-|..+|++|.|||-+|+..+.
T Consensus       171 sDiGGldkQIqELvEAiVL-pmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAa  227 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVL-PMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAA  227 (424)
T ss_pred             cccccHHHHHHHHHHHhcc-ccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHH
Confidence            3577889999999987743 1100      0013346688999999999999999887

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.30  E-value=0.035  Score=48.90  Aligned_cols=23  Identities=22%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|+|+.|.|||||++.+.+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            46899999999999999999874

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=94.28  E-value=0.18  Score=50.83  Aligned_cols=86  Identities=19%  Similarity=0.207  Sum_probs=49.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------CCCCChH-----HH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------VDHNDLN-----LL  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------~~~~~~~-----~l  292 (475)
                      ..++|+|..|.|||||++.++.....   ....+...-.+...+.+++...+..-+...       .+.....     ..
T Consensus       157 qri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~~  233 (432)
T PRK06793        157 QKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAKL  233 (432)
T ss_pred             cEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHHH
Confidence            47799999999999999999875422   122332222333566666665555422111       1111111     11


Q ss_pred             HHHHHHHh--CCceEEEEEECCC
Q 046770          293 QWKLKKQL--FGKRFLLVLDDVW  313 (475)
Q Consensus       293 ~~~l~~~l--~~kr~LlVlDdv~  313 (475)
                      ...+.+++  ++++.||++||+-
T Consensus       234 a~~iAEyfr~~G~~VLlilDslT  256 (432)
T PRK06793        234 ATSIAEYFRDQGNNVLLMMDSVT  256 (432)
T ss_pred             HHHHHHHHHHcCCcEEEEecchH
Confidence            12233333  5899999999983

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=94.28  E-value=0.29  Score=50.90  Aligned_cols=124  Identities=25%  Similarity=0.330  Sum_probs=66.2

Q ss_pred             EEEEEEccCCCcHHH-HHHHHHcCcccccCcCeEEEEEecCCCC--HHHHHHHHHHHhhcCCC----------CC-----
Q 046770          225 SVVSIIGMGGLGKTT-LAQLVYNDSRVQCHFDLKAWTYVSQDFD--IIRVTKSILRSVAMGIV----------DH-----  286 (475)
Q Consensus       225 ~vv~I~G~gGiGKTt-LA~~v~~~~~~~~~F~~~~wv~v~~~~~--~~~~l~~il~~l~~~~~----------~~-----  286 (475)
                      .||.|+|..|+|||| |++.+|.+-     |...--|.+.++--  ...+.+.+.++++....          +.     
T Consensus       372 ~vvvivgETGSGKTTQl~QyL~edG-----Y~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~T  446 (1042)
T KOG0924|consen  372 QVVVIVGETGSGKTTQLAQYLYEDG-----YADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDT  446 (1042)
T ss_pred             cEEEEEecCCCCchhhhHHHHHhcc-----cccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeeecCCCce
Confidence            699999999999985 777777742     22222344555443  34556666666644321          11     


Q ss_pred             -----CChHHHHHHHHHHhCCceEEEEEECCCCCCh--hhHhHhhCcCCCCCCCcEEEEecCC---hHHHHhcCCCc
Q 046770          287 -----NDLNLLQWKLKKQLFGKRFLLVLDDVWNENY--NDWIDLSRPFQDGAPGSKIIITTRN---ADAALIMGTVQ  353 (475)
Q Consensus       287 -----~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~--~~~~~l~~~l~~~~~gs~ilvTtR~---~~v~~~~~~~~  353 (475)
                           .+--.+.+.|.+..-.|=-.||+|.+++.+.  +-.-.++.........-++||||-.   ...+...+...
T Consensus       447 ~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~larRrdlKliVtSATm~a~kf~nfFgn~p  523 (1042)
T KOG0924|consen  447 KIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLARRRDLKLIVTSATMDAQKFSNFFGNCP  523 (1042)
T ss_pred             eEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHhhccceEEEeeccccHHHHHHHhCCCc
Confidence                 1111222333333333445889999976432  1122222222223357799999875   34445555333

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

Probab=94.27  E-value=0.036  Score=51.23  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=23.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ++..+|.++||+|+||||..+.++.+.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH
Confidence            455678899999999999999998854

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.25  E-value=0.033  Score=46.65  Aligned_cols=22  Identities=32%  Similarity=0.480  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +-|.|.|.+|+|||||+..++.
T Consensus         8 PNILvtGTPG~GKstl~~~lae   29 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAE   29 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHH
Confidence            4578999999999999999986

>PRK06761 hypothetical protein; Provisional

Probab=94.24  E-value=0.072  Score=50.53  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ++|.|.|++|+||||+++.+++..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999854

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.23  E-value=0.039  Score=50.65  Aligned_cols=22  Identities=41%  Similarity=0.677  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.|+|+|++|+|||||.+.++-
T Consensus        30 EfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999965

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.19  E-value=0.032  Score=48.52  Aligned_cols=20  Identities=35%  Similarity=0.400  Sum_probs=16.9

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |+|+|..|+|||||++.+..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999987

>PLN02200 adenylate kinase family protein

Probab=94.19  E-value=0.041  Score=51.02  Aligned_cols=24  Identities=21%  Similarity=0.250  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.|.|++|+||||+|+.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999886

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

Probab=94.18  E-value=0.068  Score=48.49  Aligned_cols=42  Identities=26%  Similarity=0.408  Sum_probs=26.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .|+|+|-||+||||+|..+......+..|+ +.-|....++++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCCh
Confidence            589999999999999988544322222233 444555555553

>PRK13948 shikimate kinase; Provisional

Probab=94.18  E-value=0.042  Score=48.72  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+.|.++|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4467899999999999999999873

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=94.18  E-value=0.19  Score=51.01  Aligned_cols=85  Identities=16%  Similarity=0.159  Sum_probs=45.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-------CCCCChH-----HH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-------VDHNDLN-----LL  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------~~~~~~~-----~l  292 (475)
                      ..++|+|..|+|||||++.+......   -...+++.--...++.++....+..-....       .+.....     ..
T Consensus       159 q~i~I~G~sG~GKStLl~~I~~~~~~---~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~~~  235 (438)
T PRK07721        159 QRVGIFAGSGVGKSTLMGMIARNTSA---DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAYT  235 (438)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcccCC---CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHHHH
Confidence            58899999999999999988874322   123333332333344444443222111100       0111111     11


Q ss_pred             HHHHHHHh--CCceEEEEEECC
Q 046770          293 QWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       293 ~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .-.+.+++  +|+++||++||+
T Consensus       236 a~~iAEyfr~~g~~Vll~~Dsl  257 (438)
T PRK07721        236 ATAIAEYFRDQGLNVMLMMDSV  257 (438)
T ss_pred             HHHHHHHHHHCCCcEEEEEeCh
Confidence            11233444  689999999998

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.17  E-value=0.039  Score=48.79  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|+|+.|.|||||++.++..
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~   26 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAAL   26 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            47899999999999999999874

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.16  E-value=0.22  Score=50.72  Aligned_cols=46  Identities=17%  Similarity=0.234  Sum_probs=32.3

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+-+.++..||..... ...+.+.+++.|+|++|+||||.++.+...
T Consensus        88 kkKI~eVk~WL~~~~~-~~~~l~~~iLLltGPsGcGKSTtvkvLske  133 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAE-FTPKLGSRILLLTGPSGCGKSTTVKVLSKE  133 (634)
T ss_pred             HHhHHHHHHHHHHHHH-hccCCCceEEEEeCCCCCCchhHHHHHHHh
Confidence            4457788888871110 011145579999999999999999998863

>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=94.15  E-value=0.04  Score=46.22  Aligned_cols=23  Identities=35%  Similarity=0.535  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|..|+|||||.+.++..
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~   34 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGL   34 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEEccCCCccccceeeeccc
Confidence            48999999999999999998774

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 ....

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.15  E-value=0.11  Score=46.63  Aligned_cols=24  Identities=38%  Similarity=0.437  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+|+|.|..|+||||+++.+.+..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998743

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.

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=94.15  E-value=0.25  Score=52.35  Aligned_cols=115  Identities=17%  Similarity=0.113  Sum_probs=57.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccc-ccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-CC--CCChHHHHHHHHHHh
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRV-QCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-VD--HNDLNLLQWKLKKQL  300 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-~~--~~~~~~l~~~l~~~l  300 (475)
                      ++..|.|.+|.||||++..+...... ...-...+.+.....--...+...+-..+..-. .+  ..........+.+.|
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlL  247 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLL  247 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHh
Confidence            58899999999999999888763211 111123455544444333344333332221100 00  000000112233333


Q ss_pred             C------------Cce---EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          301 F------------GKR---FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       301 ~------------~kr---~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      .            +.+   =++|+|++--.+......+...++   .++++|+---.
T Consensus       248 g~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~---~~~rlIlvGD~  301 (615)
T PRK10875        248 GAQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDALP---PHARVIFLGDR  301 (615)
T ss_pred             CcCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhcc---cCCEEEEecch
Confidence            1            111   289999984444444555666654   46788876554

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=94.14  E-value=0.05  Score=47.11  Aligned_cols=26  Identities=27%  Similarity=0.438  Sum_probs=22.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++..+|-++|.+|.||||+|..++..
T Consensus        21 ~~~~viW~TGLSGsGKSTiA~ale~~   46 (197)
T COG0529          21 QKGAVIWFTGLSGSGKSTIANALEEK   46 (197)
T ss_pred             CCCeEEEeecCCCCCHHHHHHHHHHH
Confidence            44579999999999999999999873

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=94.12  E-value=0.44  Score=49.26  Aligned_cols=23  Identities=43%  Similarity=0.745  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||++.++..
T Consensus        51 EivgIiGpNGSGKSTLLkiLaGL   73 (549)
T PRK13545         51 EIVGIIGLNGSGKSTLSNLIAGV   73 (549)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCC
Confidence            48999999999999999999874

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=94.10  E-value=0.054  Score=52.87  Aligned_cols=45  Identities=18%  Similarity=0.268  Sum_probs=33.9

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -..++|.+..++.+.-.+..        .+..-+.+.|.+|+||||+|+.+..
T Consensus         7 f~~i~Gq~~~~~~l~~~~~~--------~~~~~vLl~G~pG~gKT~lar~la~   51 (334)
T PRK13407          7 FSAIVGQEEMKQAMVLTAID--------PGIGGVLVFGDRGTGKSTAVRALAA   51 (334)
T ss_pred             HHHhCCHHHHHHHHHHHHhc--------cCCCcEEEEcCCCCCHHHHHHHHHH
Confidence            34689998888877755443        1123488999999999999999865

>PRK04182 cytidylate kinase; Provisional

Probab=94.07  E-value=0.041  Score=48.56  Aligned_cols=22  Identities=41%  Similarity=0.644  Sum_probs=20.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|.|+.|+||||+|+.+.+.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~   23 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999874

>PLN02348 phosphoribulokinase

Probab=94.05  E-value=0.065  Score=52.93  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=23.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +..-+|+|.|.+|+||||+|+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999873

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=94.05  E-value=0.069  Score=55.30  Aligned_cols=86  Identities=14%  Similarity=0.127  Sum_probs=52.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------------CCCC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------------VDHN  287 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------------~~~~  287 (475)
                      .-+++.|.|++|+|||||+.++....  ...=+.+++++..+  +..++...+ +.++...               +...
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~--~~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~~  336 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENA--CANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPESA  336 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEcccccC
Confidence            34789999999999999999987743  22224566766555  344444443 2332111               1122


Q ss_pred             ChHHHHHHHHHHhCC-ceEEEEEECCC
Q 046770          288 DLNLLQWKLKKQLFG-KRFLLVLDDVW  313 (475)
Q Consensus       288 ~~~~l~~~l~~~l~~-kr~LlVlDdv~  313 (475)
                      ..+.....+.+.+.. +.-++|+|.+.
T Consensus       337 ~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       337 GLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             ChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            335555666666533 45589999983

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.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=94.05  E-value=0.042  Score=48.06  Aligned_cols=22  Identities=36%  Similarity=0.626  Sum_probs=20.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|.|+.|+||||+|+.+.+.
T Consensus         2 iI~i~G~~GSGKstia~~la~~   23 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEK   23 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999873

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=94.03  E-value=0.25  Score=46.30  Aligned_cols=50  Identities=28%  Similarity=0.203  Sum_probs=35.8

Q ss_pred             cccccchhHHHHHHHHhcCC-------CCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKED-------GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~-------~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++=|-+..+++|.+...-.-       +.+-  ..++-|.++|.+|.|||-||++|+|.
T Consensus       186 diGGle~QiQEiKEsvELPLthPE~YeemGi--kpPKGVIlyG~PGTGKTLLAKAVANq  242 (440)
T KOG0726|consen  186 DIGGLESQIQEIKESVELPLTHPEYYEEMGI--KPPKGVILYGEPGTGKTLLAKAVANQ  242 (440)
T ss_pred             ccccHHHHHHHHHHhhcCCCCCHHHHHHcCC--CCCCeeEEeCCCCCchhHHHHHHhcc
Confidence            46678888888887653210       0111  33456789999999999999999994

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=94.02  E-value=0.16  Score=51.14  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|+|..|+|||||++.+...
T Consensus       156 Q~igI~G~sGaGKSTLl~~I~g~  178 (434)
T PRK07196        156 QRVGLMAGSGVGKSVLLGMITRY  178 (434)
T ss_pred             eEEEEECCCCCCccHHHHHHhcc
Confidence            57899999999999999998874

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=94.02  E-value=0.21  Score=50.56  Aligned_cols=84  Identities=17%  Similarity=0.247  Sum_probs=47.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChHH-----
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLNL-----  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~~-----  291 (475)
                      ..++|+|..|+|||||++.+....    ..+..+...+.... ...++...++..-....       .+......     
T Consensus       169 qrigI~G~sG~GKSTLl~~I~g~~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~  244 (451)
T PRK05688        169 QRLGLFAGTGVGKSVLLGMMTRFT----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAM  244 (451)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHH
Confidence            468999999999999999998742    12333444444433 34444444443321111       11111111     


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +|+++||++||+
T Consensus       245 ~a~aiAEyfrd~G~~VLl~~Dsl  267 (451)
T PRK05688        245 YCTRIAEYFRDKGKNVLLLMDSL  267 (451)
T ss_pred             HHHHHHHHHHHCCCCEEEEecch
Confidence            111233444  689999999998

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.01  E-value=0.037  Score=47.75  Aligned_cols=23  Identities=35%  Similarity=0.443  Sum_probs=20.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      |+.|+|+.|+|||||+..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998843

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.00  E-value=0.073  Score=52.08  Aligned_cols=44  Identities=16%  Similarity=0.300  Sum_probs=34.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|-+..+..|.-.+.+        +...-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~--------~~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVID--------PKIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcC--------CCCCeEEEEcCCCCCHHHHHHHHHH
Confidence            3578988888887666655        2334577999999999999999975

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK13946 shikimate kinase; Provisional

Probab=93.99  E-value=0.042  Score=48.97  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.++|++|+||||+++.+.+.
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999983

>PRK14532 adenylate kinase; Provisional

Probab=93.98  E-value=0.04  Score=49.18  Aligned_cols=21  Identities=24%  Similarity=0.339  Sum_probs=19.0

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.+...
T Consensus         3 i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999873

>PRK08356 hypothetical protein; Provisional

Probab=93.96  E-value=0.055  Score=48.69  Aligned_cols=21  Identities=33%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      .+|+|+|++|+||||+|+.+.
T Consensus         6 ~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          6 MIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            578999999999999999994

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=93.93  E-value=0.23  Score=49.97  Aligned_cols=84  Identities=20%  Similarity=0.321  Sum_probs=46.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcCC-------CCCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMGI-------VDHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~~-------~~~~~~~-----~  291 (475)
                      ..++|+|..|+|||||++.+.+....    +..+...+.+.. ...+++...+.+-....       .+.....     .
T Consensus       138 qri~I~G~sG~GKTtLl~~i~~~~~~----~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~~  213 (413)
T TIGR03497       138 QRVGIFAGSGVGKSTLLGMIARNAKA----DINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAAF  213 (413)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC----CeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHH
Confidence            57899999999999999988874321    222223344333 34445444443311110       0111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  +++.+||++||+
T Consensus       214 ~a~tiAEyfr~~G~~Vll~~Dsl  236 (413)
T TIGR03497       214 TATAIAEYFRDQGKDVLLMMDSV  236 (413)
T ss_pred             HHHHHHHHHHHCCCCEEEEEcCc
Confidence            112233444  589999999998

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.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=93.93  E-value=0.18  Score=50.82  Aligned_cols=87  Identities=16%  Similarity=0.237  Sum_probs=53.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCccccc--CcC---------eEEEEEecCCCCHHHHHHHHHHHhh-cCC-------CCC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQC--HFD---------LKAWTYVSQDFDIIRVTKSILRSVA-MGI-------VDH  286 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~--~F~---------~~~wv~v~~~~~~~~~l~~il~~l~-~~~-------~~~  286 (475)
                      -++|.|..|+|||||+..+.++.....  ..|         .++++.+.+.....+.+...+..-+ ...       .+.
T Consensus       143 RigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd~  222 (466)
T TIGR01040       143 KIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAND  222 (466)
T ss_pred             eeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCCC
Confidence            578999999999999999887543100  012         5677778877666666666665543 111       011


Q ss_pred             CChHH-----HHHHHHHHh---CCceEEEEEECC
Q 046770          287 NDLNL-----LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       287 ~~~~~-----l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      .....     ..-.+.+++   +|+++|+++||+
T Consensus       223 p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~Dsl  256 (466)
T TIGR01040       223 PTIERIITPRLALTTAEYLAYQCEKHVLVILTDM  256 (466)
T ss_pred             CHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccCh
Confidence            11111     111244444   478999999999

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=93.93  E-value=0.041  Score=49.29  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=19.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.+...
T Consensus         2 I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999873

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=93.92  E-value=0.44  Score=51.88  Aligned_cols=22  Identities=45%  Similarity=0.610  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|+|..|+|||||++.+..
T Consensus       492 ~~iaIvG~sGsGKSTLlklL~g  513 (694)
T TIGR03375       492 EKVAIIGRIGSGKSTLLKLLLG  513 (694)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999865

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=93.92  E-value=0.39  Score=48.59  Aligned_cols=84  Identities=19%  Similarity=0.306  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcCCC-------CCCChH-----H
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMGIV-------DHNDLN-----L  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~~~-------~~~~~~-----~  291 (475)
                      ..++|.|..|+|||||.+.+.....    .+....+.+.. ...+.+...+.+........       +.....     .
T Consensus       146 q~~~I~G~sG~GKStLl~~I~~~~~----~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~~  221 (422)
T TIGR02546       146 QRIGIFAGAGVGKSTLLGMIARGAS----ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAY  221 (422)
T ss_pred             CEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHHH
Confidence            4779999999999999999987432    23333344443 33444554444332211110       111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEECC
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      ..-.+.+++  ++++.|+++|++
T Consensus       222 ~a~~~AE~f~~~g~~Vl~~~Dsl  244 (422)
T TIGR02546       222 TATAIAEYFRDQGKRVLLMMDSL  244 (422)
T ss_pred             HHHHHHHHHHHCCCcEEEEEeCc
Confidence            111233333  578999999999

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=93.91  E-value=0.066  Score=38.01  Aligned_cols=20  Identities=40%  Similarity=0.526  Sum_probs=17.6

Q ss_pred             EEEEEccCCCcHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +..|+|..|+|||||...+.
T Consensus        25 ~tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            78999999999999996653

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=93.88  E-value=0.037  Score=51.93  Aligned_cols=22  Identities=23%  Similarity=0.576  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.++|++|+||||+|+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999999874

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=93.85  E-value=0.15  Score=52.28  Aligned_cols=134  Identities=17%  Similarity=0.076  Sum_probs=68.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|....+.++...+.....     ... -|.|.|..|+||+++|+.+....... . ..-+.+++....  .+.+.. 
T Consensus       140 ~lig~s~~~~~l~~~i~~~a~-----~~~-~vli~Ge~GtGK~~lA~~ih~~s~~~-~-~~~v~v~c~~~~--~~~~~~-  208 (445)
T TIGR02915       140 GLITSSPGMQKICRTIEKIAP-----SDI-TVLLLGESGTGKEVLARALHQLSDRK-D-KRFVAINCAAIP--ENLLES-  208 (445)
T ss_pred             ceeecCHHHHHHHHHHHHHhC-----CCC-CEEEECCCCcCHHHHHHHHHHhCCcC-C-CCeEEEECCCCC--hHHHHH-
Confidence            477887777777776654111     223 35699999999999999998642111 1 122344444432  122222 


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEecCCh
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITTRNA  343 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTtR~~  343 (475)
                        .+.+...+.-... .............=.|+||++..........+...+..+.           ...+||.||...
T Consensus       209 --~lfg~~~~~~~~~-~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  284 (445)
T TIGR02915       209 --ELFGYEKGAFTGA-VKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQD  284 (445)
T ss_pred             --HhcCCCCCCcCCC-ccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCC
Confidence              2222111100000 0000000001223468899998776666666655554221           245888888764

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=93.84  E-value=0.24  Score=52.80  Aligned_cols=22  Identities=41%  Similarity=0.643  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|+|..|.|||||++.+..
T Consensus       362 ~~v~IvG~sGsGKSTLl~lL~g  383 (588)
T PRK13657        362 QTVAIVGPTGAGKSTLINLLQR  383 (588)
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4799999999999999999865

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.83  E-value=0.16  Score=51.70  Aligned_cols=87  Identities=15%  Similarity=0.153  Sum_probs=51.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCc--CeEEEEEecCCC-CHHHHHHHHHHHhhcCCC-----CCCC--hHH----
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHF--DLKAWTYVSQDF-DIIRVTKSILRSVAMGIV-----DHND--LNL----  291 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F--~~~~wv~v~~~~-~~~~~l~~il~~l~~~~~-----~~~~--~~~----  291 (475)
                      -++|.|..|+|||||+..+.+.......+  ..++++.+.+.. .+.+++..++..-.....     ..++  ...    
T Consensus       143 R~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~  222 (458)
T TIGR01041       143 KLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTP  222 (458)
T ss_pred             EEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHH
Confidence            57899999999999999998854332111  156677776654 445566655533211110     1111  111    


Q ss_pred             -HHHHHHHHh---CCceEEEEEECC
Q 046770          292 -LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       292 -l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                       ..-.+.+++   +|+++||++||+
T Consensus       223 ~~a~tiAEyfr~d~G~~VLli~Dsl  247 (458)
T TIGR01041       223 RMALTAAEYLAFEKDMHVLVILTDM  247 (458)
T ss_pred             HHHHHHHHHHHHccCCcEEEEEcCh
Confidence             111244444   478999999998

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=93.83  E-value=3.3  Score=39.62  Aligned_cols=70  Identities=16%  Similarity=0.182  Sum_probs=47.8

Q ss_pred             CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHH-HhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          301 FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAA-LIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       301 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~-~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      .+++=++||||+...+......++..+..-..++.+|++|.+. .+. ...+....+++.+ +.++..+.+..
T Consensus       102 ~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        102 EGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             cCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            3556699999998888888888988887655667777766553 332 2233446677766 67776666653

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=93.82  E-value=0.56  Score=40.64  Aligned_cols=83  Identities=18%  Similarity=0.190  Sum_probs=50.6

Q ss_pred             CHHHHHHHHHHHhhcCCC------CCCChHHHHHHHHHHhCCceEEEEEECCC-CCChhhHh---HhhCcCCCCCCCcEE
Q 046770          267 DIIRVTKSILRSVAMGIV------DHNDLNLLQWKLKKQLFGKRFLLVLDDVW-NENYNDWI---DLSRPFQDGAPGSKI  336 (475)
Q Consensus       267 ~~~~~l~~il~~l~~~~~------~~~~~~~l~~~l~~~l~~kr~LlVlDdv~-~~~~~~~~---~l~~~l~~~~~gs~i  336 (475)
                      +.....+..+.+++....      .-..-++..-.|.+.+...+-+++-|+-- +.+...-+   +++-.+ ....|+.+
T Consensus       122 ~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~l-nre~G~Tl  200 (228)
T COG4181         122 DSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFAL-NRERGTTL  200 (228)
T ss_pred             cHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHH-hhhcCceE
Confidence            445556777777765431      12223344446778888888888888752 22222223   333222 33468899


Q ss_pred             EEecCChHHHHhcC
Q 046770          337 IITTRNADAALIMG  350 (475)
Q Consensus       337 lvTtR~~~v~~~~~  350 (475)
                      ++.|.++.++..|.
T Consensus       201 VlVTHD~~LA~Rc~  214 (228)
T COG4181         201 VLVTHDPQLAARCD  214 (228)
T ss_pred             EEEeCCHHHHHhhh
Confidence            99999999988765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	475
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-102
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-88
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-41
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-13
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	7e-08

>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 =  316 bits (812), Expect = e-102
 Identities = 62/425 (14%), Positives = 134/425 (31%), Gaps = 44/425 (10%)

Query: 71  EKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFI 130
           + + R   ++      +++      ++    ++        E     +      +    I
Sbjct: 2   DAKARNCLLQHREALEKDI--KTSYIMDHMISDGFLTISEEE--KVRNEPTQQQRAAMLI 57

Query: 131 RTWGTNLGLPSIKLDYKVV-SKVEEVNARLQDIAMQIQPLDLREKYGGRSKRFRQRRPTT 189
           +          +     ++    +++ A L D    +     ++   G +   R      
Sbjct: 58  KMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEG 117

Query: 190 SLVHEAKVY-GRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS 248
            +     V+  R K    I + L K             V+I GM G GK+ LA     D 
Sbjct: 118 GVPQRPVVFVTRKKLVNAIQQKLSKLK------GEPGWVTIHGMAGCGKSVLAAEAVRDH 171

Query: 249 RVQCHF--DLKAWTYVSQDFDI--IRVTKSILRSVAMGIVDHN----DLNLLQWKLKKQL 300
            +          W  V +      +   +++   +            ++   + +L+  +
Sbjct: 172 SLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILM 231

Query: 301 FGK--RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-AALIMGTVQAYPL 357
             K  R LL+LDDVW+                    +I++TTR+      +MG     P+
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKA---------FDSQCQILLTTRDKSVTDSVMGPKYVVPV 282

Query: 358 -KGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYD- 415
              L  +  + + +              L E    I+ +C G PL    +G LL    + 
Sbjct: 283 ESSLGKEKGLEILSLFV-----NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR 337

Query: 416 PSDWESVLNSRIW-----DLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQE 470
              +   L ++ +       S     +   +++S   L   +K  +   S+  KD +   
Sbjct: 338 WEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPT 397

Query: 471 EETIL 475
           +   +
Sbjct: 398 KVLCI 402

>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 =  278 bits (713), Expect = 4e-88
 Identities = 62/441 (14%), Positives = 131/441 (29%), Gaps = 55/441 (12%)

Query: 59  LEKIKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLLLEPAAADH 118
            E     +  A  +   +   +  L  L+      ED        + R +          
Sbjct: 3   CEIECRALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLER--------- 53

Query: 119 HQPSTSKFPKFIRTWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGGR 178
                + F +  R   + LG      +Y   S + +      D A+    L        +
Sbjct: 54  ----IANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQ 109

Query: 179 SKR--FRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLG 236
             R    ++    ++  +   Y R    + +++ L +       +     + + G  G G
Sbjct: 110 FSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEM-----CDLDSFFLFLHGRAGSG 164

Query: 237 KTTLAQLVYNDSR--VQCHFDLKAWTYVSQDF---------DIIRVTKSILRSVAMGIVD 285
           K+ +A    + S   +  ++D   W   S            DI+ + KS    +    V+
Sbjct: 165 KSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVE 224

Query: 286 HNDLNLLQWKLKKQLF-GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD 344
           H    +L+  +   L      L V DDV  E    W              + ++TTR+ +
Sbjct: 225 HVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVE 276

Query: 345 AALIM-GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAA 403
            +     T +   +  L  D+C      + +        +  +++  K +   +G P   
Sbjct: 277 ISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATL 333

Query: 404 KALGCLLHGKYDPSDWESVLNSRIWD---------LSQGRCDIVHTLALSYHYLSRPLKK 454
                    K    +  + LN+++                  +   L      LS   + 
Sbjct: 334 MMFFKSCEPK--TFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRS 391

Query: 455 CFAYCSLFPKDYEFQEEETIL 475
             A+  + P   +   +    
Sbjct: 392 ALAFAVVMPPGVDIPVKLWSC 412

>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 =  155 bits (393), Expect = 8e-41
 Identities = 75/444 (16%), Positives = 152/444 (34%), Gaps = 100/444 (22%)

Query: 49  HDYLVQWKKTLEK-IKAVIEDAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRR 107
           H Y  Q+K  L     A +++ + K   ++  K  L +      +++ ++   +  +   
Sbjct: 14  HQY--QYKDILSVFEDAFVDNFDCKDV-QDMPKSILSK-----EEIDHIIMSKDAVSGTL 65

Query: 108 KLL--LEPAAADHHQPSTSKFPKFIRTWGTNLGLPSIKLDYK-VVSKVEEVNARLQDIAM 164
           +L   L                KF+           ++++YK ++S ++           
Sbjct: 66  RLFWTLL-------SKQEEMVQKFVEE--------VLRINYKFLMSPIKTEQ-------- 102

Query: 165 QIQPLDLREKY-GGRSKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNH 223
             QP  +   Y   R + +   +          V  R +   ++ + LL+       N  
Sbjct: 103 -RQPSMMTRMYIEQRDRLYNDNQVFAKY----NVS-RLQPYLKLRQALLELR--PAKN-- 152

Query: 224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKA-W---TYVSQDFDIIRVTKSILRSV 279
              V I G+ G GKT +A  V    +VQC  D K  W      +    ++ + + +L  +
Sbjct: 153 ---VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 280 AMGIVDHND--------LNLLQWKLKKQLFGKRF---LLVLDDVWNENYNDWIDLSRPFQ 328
                  +D        ++ +Q +L++ L  K +   LLVL +V N    +  +L     
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL----- 264

Query: 329 DGAPGSKIIITTRNADAALIMGTVQAYPL------KGLSNDDCMCLFTQHSLETRDFSMH 382
                 KI++TTR       +       +        L+ D+   L  +  L+ R   + 
Sbjct: 265 ----SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK-YLDCRPQDL- 318

Query: 383 QPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLA 442
            P +E+           P     +   +      + W++  +     L+         + 
Sbjct: 319 -P-REV-------LTTNPRRLSIIAESIRD--GLATWDNWKHVNCDKLT-------TIIE 360

Query: 443 LSYHYLSRP-LKKCFAYCSLFPKD 465
            S + L     +K F   S+FP  
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFPPS 384

>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 = 43.3 bits (101), Expect = 2e-04
 Identities = 53/358 (14%), Positives = 112/358 (31%), Gaps = 93/358 (25%)

Query: 24  SVSIEMLLEKLASEAVVLFARRERIHDYL----VQWKKTLE------KI------KAVIE 67
           S +I++ +  + +E   L   +   +  L    VQ  K         KI      K V +
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279

Query: 68  DAEEKQTREESVKMWLYELQNLAYDVEDLLGEFETEALRRKLL------LEPAAADHHQP 121
                 T   S+                 L   E ++L  K L      L       +  
Sbjct: 280 FLSAATTTHISLD-----------HHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPR 328

Query: 122 STSKFPKFIR----TWGTNLGLPSIKLDYKVVSKVEEVNARLQDIAMQIQPLDLREKYGG 177
             S   + IR    TW            +K V+  +++   ++     ++P + R+ +  
Sbjct: 329 RLSIIAESIRDGLATWDN----------WKHVNC-DKLTTIIESSLNVLEPAEYRKMF-- 375

Query: 178 RSKR---FRQRRPTTSLVHEAKVYGRSKER--EEIVE-----LLLKEDGTSHNNNHFSVV 227
              R   F       +++    ++    +     +V       L+++       +  S+ 
Sbjct: 376 --DRLSVFPPSAHIPTILLS-LIWFDVIKSDVMVVVNKLHKYSLVEKQP---KESTISIP 429

Query: 228 SI---IGMGGLGKTTL-AQLV--YNDSRVQCHFDLKA-------WTYVSQDFDIIRVTK- 273
           SI   + +    +  L   +V  YN  +     DL         ++++      I   + 
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER 489

Query: 274 -SILRSVAMGIVDHNDLNLLQWKLKKQ---LFGKRFLL-VLDDVWNENYNDWIDLSRP 326
            ++ R V +      D   L+ K++           +L  L  +  + Y  +I  + P
Sbjct: 490 MTLFRMVFL------DFRFLEQKIRHDSTAWNASGSILNTLQQL--KFYKPYICDNDP 539

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 72.9 bits (179), Expect = 1e-13
 Identities = 54/286 (18%), Positives = 97/286 (33%), Gaps = 38/286 (13%)

Query: 198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV--QCHFD 255
             R K    I + L K +G          V+I GM G GK+ LA     D  +   C   
Sbjct: 127 VTRKKLVHAIQQKLWKLNGEP------GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSG 180

Query: 256 LKAWTYVSQDFD------IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK--RFLL 307
              W  + +         +  +   + +  +       ++   + +L+  +  K  R LL
Sbjct: 181 GVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLL 240

Query: 308 VLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-AALIMGTVQAYPL-KGLSNDDC 365
           +LDDVW+             +      +I++TTR+      +MG     P+  GL  +  
Sbjct: 241 ILDDVWDPWV---------LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291

Query: 366 MCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH------GKYDPSDW 419
           + + +      ++      L      I+ +C G PL    +G LL         Y     
Sbjct: 292 LEILSLFVNMKKE-----DLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQ 346

Query: 420 ESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKD 465
                      S     +   +++S   L   +K  +   S+  KD
Sbjct: 347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKD 392

>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 = 49.8 bits (119), Expect = 7e-08
 Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 12/104 (11%)

Query: 30  LLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEKQTRE--ESVKMWLYELQ 87
           L+ KL       F   + +   +    K LE + A +    E    +     K+W  E++
Sbjct: 6   LIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVR 65

Query: 88  NLAYDVEDLLGEFETEALRRKLLLEPAAADHHQPSTSKFPKFIR 131
            L+Y +ED++ +F  +                  + +KF   ++
Sbjct: 66  ELSYVIEDVVDKFLVQ----------VDGIKSDDNNNKFKGLMK 99

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	475
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.98
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.71
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.66
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.63
2fna_A	357	Conserved hypothetical protein; structural genomic	99.61
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.51
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.45
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.45
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.41
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.41
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.35
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.21
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.94
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.93
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.88
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.79
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.75
3pvs_A	447	Replication-associated recombination protein A; ma	98.71
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.68
3bos_A	242	Putative DNA replication factor; P-loop containing	98.63
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.59
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.54
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.53
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.52
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.48
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.43
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.43
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.41
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.4
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.36
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.35
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.34
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.31
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.29
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.28
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.25
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.24
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.22
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.21
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.19
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.17
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.15
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.13
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.13
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.07
3co5_A	143	Putative two-component system transcriptional RES	98.06
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.06
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.01
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.0
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.99
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.93
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.9
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.89
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.88
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.87
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.78
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.76
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.7
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.7
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.67
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.65
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.64
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.63
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.6
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.55
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.48
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.47
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.39
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.38
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.28
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.24
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.24
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.23
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.22
2qgz_A	308	Helicase loader, putative primosome component; str	97.2
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.2
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.19
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.18
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.96
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.95
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.83
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.79
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.74
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.7
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.6
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.6
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.57
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.51
3io5_A	333	Recombination and repair protein; storage dimer, i	96.48
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.48
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.45
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.44
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.41
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.37
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.37
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.15
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.1
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.06
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.05
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.03
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.83
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.82
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.81
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.74
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.71
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.67
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.64
3ice_A	422	Transcription termination factor RHO; transcriptio	95.64
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.59
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.53
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.52
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.52
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.49
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.44
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.43
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.4
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.4
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.38
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.37
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.36
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.35
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.34
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.32
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.3
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.29
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.27
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.24
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.24
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.24
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.24
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.21
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.21
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.19
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.19
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.18
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.18
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.18
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.18
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.16
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.13
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.12
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.12
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.1
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.09
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.09
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.07
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.07
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.05
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.04
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.03
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.01
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.01
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.01
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.0
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.99
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	94.98
1via_A	175	Shikimate kinase; structural genomics, transferase	94.98
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	94.97
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	94.93
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.9
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.89
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.89
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.86
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.82
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.8
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.79
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.77
2xxa_A	433	Signal recognition particle protein; protein trans	94.77
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.77
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.76
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.75
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.75
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.75
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.74
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.7
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.69
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.69
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.67
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.67
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	94.63
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.62
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.56
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.55
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.52
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.52
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.52
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.49
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.47
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.45
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.43
3l0o_A	427	Transcription termination factor RHO; helicase, RH	94.41
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.4
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.38
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.37
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.37
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.36
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.36
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.32
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.31
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.31
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.27
3fwy_A	314	Light-independent protochlorophyllide reductase I	94.25
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.23
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.22
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.2
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.19
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.19
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.14
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.13
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.12
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.12
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.09
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.09
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.05
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.01
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.99
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.97
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.95
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.95
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.95
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.9
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.88
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.87
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.84
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.77
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.75
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	93.73
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.65
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	93.64
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	93.64
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.64
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.63
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.62
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.61
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.6
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.6
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.6
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.59
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.55
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	93.55
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.54
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.47
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.45
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.45
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.44
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.43
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.43
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.43
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.42
1g6h_A	257	High-affinity branched-chain amino acid transport	93.41
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.4
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.4
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.39
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.37
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.36
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.35
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.34
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.33
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.33
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.3
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.29
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	93.29
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.27
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	93.27
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.25
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.24
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.23
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.19
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.19
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.18
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	93.17
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.15
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.13
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.13
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.12
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.09
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.07
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	93.06
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.05
2og2_A	359	Putative signal recognition particle receptor; nuc	93.04
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.03
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.01
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	92.99
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.96
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.94
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.91
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	92.91
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.89
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.88
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.87
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.77
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	92.72
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	92.71
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.69
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	92.62
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	92.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	92.54
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.52
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.48
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	92.47
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	92.47
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	92.47
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	92.45
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.44
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	92.43
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.43
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	92.42
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.38
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.3
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.3
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	92.29
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	92.22
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	92.21
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	92.09
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	92.07
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.07
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.05
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.03
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.02
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.02
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	91.99
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	91.99
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	91.99
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	91.98
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	91.97
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	91.95
1nrj_B	218	SR-beta, signal recognition particle receptor beta	91.93
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	91.91
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.91
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	91.9
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	91.88
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	91.84
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	91.84
3end_A	307	Light-independent protochlorophyllide reductase ir	91.84
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.83
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	91.83
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	91.8
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	91.8
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	91.78
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.76
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.76
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	91.76
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.73
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	91.7
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.69
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	91.61
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	91.6
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	91.58
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	91.55
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	91.54
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	91.51
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	91.51
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.51
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	91.48
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	91.48
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	91.48
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.48
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	91.48
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	91.47
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	91.43
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.4
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	91.38
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.35
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	91.31
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	91.3
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	91.26
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	91.24
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	91.23
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.22
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.22
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	91.2
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	91.16
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.16
1p9r_A	418	General secretion pathway protein E; bacterial typ	91.13
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	91.13
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	91.13
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	91.11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	91.1
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	91.1
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	91.07
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	91.05
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.04
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	91.03
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	91.02
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	91.01
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.0
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	90.99
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	90.98
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	90.97
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	90.96
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.96
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	90.96
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	90.94
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	90.92
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	90.92
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.91
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	90.88
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	90.88
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.87
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	90.85
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	90.84
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.83
3llu_A	196	RAS-related GTP-binding protein C; structural geno	90.82
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	90.81
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	90.81
2ewv_A	372	Twitching motility protein PILT; pilus retraction	90.81
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	90.78
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	90.77
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	90.76
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	90.75
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	90.7
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	90.69
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	90.66
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	90.66
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	90.65
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	90.65
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.63
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	90.62
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.61
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	90.6
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	90.57
2fh5_B	214	SR-beta, signal recognition particle receptor beta	90.53
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	90.53
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	90.53
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	90.52
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	90.5
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	90.49
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	90.48
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	90.47
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	90.47
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	90.45
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	90.42
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	90.41
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	90.41
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	90.39
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	90.38
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	90.37
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	90.34
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	90.33
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	90.31
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	90.31
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	90.31
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	90.27
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	90.25
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	90.21
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	90.2
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	90.19
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	90.19
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.18
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	90.17
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	90.15
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	90.14
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	90.12
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	90.02
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	90.01
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	89.99
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	89.98
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	89.97
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	89.96
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	89.93
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	89.93
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	89.89
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	89.89
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	89.83
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	89.63
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	89.6
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	89.6
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	89.53
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	89.53
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	89.51
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	89.5
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	89.44
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	89.44
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.37
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	89.35
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	89.34
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	89.33
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	89.33
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	89.24
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	89.19
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	89.15
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	89.14
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	89.13
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	89.04
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	88.89
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	88.82
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	88.79
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	88.67
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	88.61
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	88.61
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	88.45

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=5.1e-42  Score=358.07  Aligned_cols=252  Identities=17%  Similarity=0.241  Sum_probs=208.9

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc--CcccccCcCeEEEEEecCCC--CHHHHHH
Q 046770          198 YGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN--DSRVQCHFDLKAWTYVSQDF--DIIRVTK  273 (475)
Q Consensus       198 vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~--~~~~~~~F~~~~wv~v~~~~--~~~~~l~  273 (475)
                      |||+.++++|.++|.. ...    ...++|+|+||||+||||||+++|+  +.+++.+|++++||++++.+  ++..++.
T Consensus       131 ~GR~~~~~~l~~~L~~-~~~----~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~  205 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDE-MCD----LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT  205 (549)
T ss_dssp             CCCHHHHHHHHHHHHH-HTT----SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCchHHHHHHHHHHhc-ccC----CCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHH
Confidence            5999999999999976 211    4679999999999999999999998  67889999999999999985  8999999


Q ss_pred             HHHHHhhcCCC-------CCCChHHHHHHHHHHhCCc-eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH
Q 046770          274 SILRSVAMGIV-------DHNDLNLLQWKLKKQLFGK-RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA  345 (475)
Q Consensus       274 ~il~~l~~~~~-------~~~~~~~l~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v  345 (475)
                      .|+.+++....       ...+...+...+++.|.++ ||||||||||+.+...|...        +||+||||||+..+
T Consensus       206 ~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~~--------~gs~ilvTTR~~~v  277 (549)
T 2a5y_B          206 DILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE--------LRLRCLVTTRDVEI  277 (549)
T ss_dssp             HHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH--------TTCEEEEEESBGGG
T ss_pred             HHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhccccc--------CCCEEEEEcCCHHH
Confidence            99999986521       2234567788999999996 99999999998643334432        69999999999999


Q ss_pred             HHhcC-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHHHh
Q 046770          346 ALIMG-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLN  424 (475)
Q Consensus       346 ~~~~~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~l~  424 (475)
                      +..++ ...+|+|++|+.+++|+||.++++...   .++.+.+++.+|+++|+|+||||+++|+.|+.+ + .+|...+.
T Consensus       278 ~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~-w~~~~~l~  352 (549)
T 2a5y_B          278 SNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T-FEKMAQLN  352 (549)
T ss_dssp             GGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S-HHHHHHHH
T ss_pred             HHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCC---CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h-HHHHHHhH
Confidence            98776 336799999999999999999987643   246788999999999999999999999999876 3 34444555


Q ss_pred             ccccccCCCccchHHHHHHhhhcCChhHHHHhh-----------hhcccCCCcccC
Q 046770          425 SRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFA-----------YCSLFPKDYEFQ  469 (475)
Q Consensus       425 ~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~-----------~~sifp~~~~i~  469 (475)
                      +..+..  ....+..+|.+||++||+++|.||+           |||+||+++.|+
T Consensus       353 ~~l~~~--~~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~  406 (549)
T 2a5y_B          353 NKLESR--GLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP  406 (549)
T ss_dssp             HHHHHH--CSSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE
T ss_pred             HHhhcc--cHHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee
Confidence            444432  2345888999999999999999999           999999999987

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=3.9e-35  Score=312.17  Aligned_cols=241  Identities=20%  Similarity=0.214  Sum_probs=190.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCe-EEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDL-KAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~wv~v~~~~~~~~~l~~  274 (475)
                      ..+||+.++++|.++|.. .      ...++|+|+||||+||||||+++|++.++..+|+. ++|+++++.++...++..
T Consensus       129 ~~VGRe~eLeeL~elL~~-~------d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~  201 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLE-L------RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEM  201 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHH-C------CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhc-c------CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHH
Confidence            349999999999999976 2      23689999999999999999999987778899986 999999999998888888


Q ss_pred             HHHHhhcCC---CCC--------CChHHHHHHHHHHh---CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec
Q 046770          275 ILRSVAMGI---VDH--------NDLNLLQWKLKKQL---FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       275 il~~l~~~~---~~~--------~~~~~l~~~l~~~l---~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                      ++..+....   ...        .+.+.+...+++.|   .++|+||||||+|+  ...|..+.       .||+|||||
T Consensus       202 Ll~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd--~eqLe~f~-------pGSRILVTT  272 (1221)
T 1vt4_I          202 LQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNAFN-------LSCKILLTT  272 (1221)
T ss_dssp             HHHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCC--HHHHHHHH-------SSCCEEEEC
T ss_pred             HHHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcCh--HHHHHhhC-------CCeEEEEec
Confidence            877543211   111        12345566777765   78999999999998  35666542       689999999


Q ss_pred             CChHHHHhcCCCceeeCC------CCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCC
Q 046770          341 RNADAALIMGTVQAYPLK------GLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKY  414 (475)
Q Consensus       341 R~~~v~~~~~~~~~~~l~------~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~  414 (475)
                      |+..++..+.....+.++      +|+.+|+++||.+.. ...    .   .++..+|   |+|+||||+++|+.|+.+.
T Consensus       273 Rd~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~----~---eeL~~eI---CgGLPLALkLaGs~Lr~k~  341 (1221)
T 1vt4_I          273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR----P---QDLPREV---LTTNPRRLSIIAESIRDGL  341 (1221)
T ss_dssp             SCSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC----T---TTHHHHH---CCCCHHHHHHHHHHHHHSC
T ss_pred             cChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC----H---HHHHHHH---hCCCHHHHHHHHHHHhCCC
Confidence            999988644433456666      999999999999884 221    1   1223333   9999999999999999883


Q ss_pred             -ChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhH-HHHhhhhcccCCCcccCCccc
Q 046770          415 -DPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPL-KKCFAYCSLFPKDYEFQEEET  473 (475)
Q Consensus       415 -~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~-k~cf~~~sifp~~~~i~~~~L  473 (475)
                       +.++|...          ....+..+|.+||+.||++. |+||+|||+||+++.|+++.|
T Consensus       342 ~s~eeW~~~----------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elL  392 (1221)
T 1vt4_I          342 ATWDNWKHV----------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL  392 (1221)
T ss_dssp             SSHHHHHHC----------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHH
T ss_pred             CCHHHHhcC----------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHH
Confidence             57788653          23569999999999999999 999999999999999987654

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=9.9e-35  Score=331.55  Aligned_cols=261  Identities=20%  Similarity=0.282  Sum_probs=203.8

Q ss_pred             cccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc-ccCc-CeEEEEEecCCCC--
Q 046770          192 VHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV-QCHF-DLKAWTYVSQDFD--  267 (475)
Q Consensus       192 ~~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~v~~~~~--  267 (475)
                      ...+.|+||+.++++|.++|.. ..     ...++|+|+||||+||||||+++|++.+. ..+| +.++|+++++..+  
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~-~~-----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~  194 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWK-LN-----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSG  194 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHT-TT-----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhh-cc-----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchH
Confidence            3456799999999999999976 22     46789999999999999999999997543 4445 5788999998543  


Q ss_pred             HHHHHHHHHHHhhcCCC----CCCChHHHHHHHHHHhCCc--eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecC
Q 046770          268 IIRVTKSILRSVAMGIV----DHNDLNLLQWKLKKQLFGK--RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTR  341 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~----~~~~~~~l~~~l~~~l~~k--r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR  341 (475)
                      ....+..++..+.....    ...+.+.+...++..+.++  |+||||||+|+.  ..|..+       .+||+||||||
T Consensus       195 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~~-------~~~~~ilvTtR  265 (1249)
T 3sfz_A          195 LLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKAF-------DNQCQILLTTR  265 (1249)
T ss_dssp             HHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTTT-------CSSCEEEEEES
T ss_pred             HHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHhh-------cCCCEEEEEcC
Confidence            44556777777765432    3456788889999999877  999999999864  344332       46899999999


Q ss_pred             ChHHHHh-cCCCceeeCCC-CCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHH
Q 046770          342 NADAALI-MGTVQAYPLKG-LSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDW  419 (475)
Q Consensus       342 ~~~v~~~-~~~~~~~~l~~-L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w  419 (475)
                      ++.++.. +.....+++.+ |+.+++++||...++..     .+.+.+++.+|+++|+|+||||+++|++|+.+.  ..|
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~-----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~  338 (1249)
T 3sfz_A          266 DKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRW  338 (1249)
T ss_dssp             STTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC-----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCH
T ss_pred             CHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC-----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHH
Confidence            9988854 44567899996 99999999999887432     233446788999999999999999999999873  356


Q ss_pred             HHHHhcccccc----CC----CccchHHHHHHhhhcCChhHHHHhhhhcccCCCcccCCcccc
Q 046770          420 ESVLNSRIWDL----SQ----GRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEETI  474 (475)
Q Consensus       420 ~~~l~~~~~~~----~~----~~~~i~~~l~~sy~~L~~~~k~cf~~~sifp~~~~i~~~~Li  474 (475)
                      ...++.+....    ..    ....+..+|.+||+.||+++|.||+|||+||+++.|+++.++
T Consensus       339 ~~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~  401 (1249)
T 3sfz_A          339 AYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLC  401 (1249)
T ss_dssp             HHHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHH
T ss_pred             HHHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHH
Confidence            66555432211    11    114689999999999999999999999999999999877654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.98  E-value=4e-32  Score=286.66  Aligned_cols=256  Identities=21%  Similarity=0.274  Sum_probs=191.7

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc-ccCc-CeEEEEEecCCCCHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV-QCHF-DLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F-~~~~wv~v~~~~~~~~~  271 (475)
                      .+.||||+.++++|.++|.. ..     ...++|+|+|+||+||||||..++++..+ ..+| +.++|++++.. +...+
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~-~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~  195 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSK-LK-----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGL  195 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTT-ST-----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHH
T ss_pred             CCeecccHHHHHHHHHHHhc-cc-----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHH
Confidence            35699999999999999975 21     45689999999999999999999997655 7789 58999999875 33333


Q ss_pred             HHHH---HHHhhcC----CCCCCChHHHHHHHHHHhCC--ceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          272 TKSI---LRSVAMG----IVDHNDLNLLQWKLKKQLFG--KRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       272 l~~i---l~~l~~~----~~~~~~~~~l~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      +..+   +..+...    .....+.+.+...+...+.+  +++||||||+|+.  ..+.    .+   ..+++||||||+
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~~l~----~l---~~~~~ilvTsR~  266 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--WVLK----AF---DSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--HHHH----TT---CSSCEEEEEESC
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--HHHH----Hh---cCCCeEEEECCC
Confidence            3333   3444421    12345667778888888865  7899999999863  2222    22   468999999999


Q ss_pred             hHHHHhcCCCceee---CCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHH
Q 046770          343 ADAALIMGTVQAYP---LKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDW  419 (475)
Q Consensus       343 ~~v~~~~~~~~~~~---l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w  419 (475)
                      ..++..+. ...++   +++|+.+++++||...++...     ....+.+.+|+++|+|+||||..+|..|+.+.  ..|
T Consensus       267 ~~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~-----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~--~~w  338 (591)
T 1z6t_A          267 KSVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMKK-----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRW  338 (591)
T ss_dssp             GGGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCG-----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST--TCH
T ss_pred             cHHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCCc-----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc--hhH
Confidence            88776543 23333   369999999999999876421     22235678899999999999999999998873  357


Q ss_pred             HHHHhcccccc--------CCCccchHHHHHHhhhcCChhHHHHhhhhcccCCCcccCCccc
Q 046770          420 ESVLNSRIWDL--------SQGRCDIVHTLALSYHYLSRPLKKCFAYCSLFPKDYEFQEEET  473 (475)
Q Consensus       420 ~~~l~~~~~~~--------~~~~~~i~~~l~~sy~~L~~~~k~cf~~~sifp~~~~i~~~~L  473 (475)
                      ...++......        ......+..++..||+.||++.|.||++||+||+++.|+.+.|
T Consensus       339 ~~~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l  400 (591)
T 1z6t_A          339 EYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL  400 (591)
T ss_dssp             HHHHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHH
T ss_pred             HHHHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHH
Confidence            76665432111        1122468899999999999999999999999999998876543

>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=1.3e-17  Score=135.01  Aligned_cols=79  Identities=23%  Similarity=0.381  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHHHHHHHHHHHHHHHhh--cccchHHHHHHHHHHHhhhhhhhhhhhHHHH
Q 046770           26 SIEMLLEKLASEAVVLFARRERIHDYLVQWKKTLEKIKAVIEDAEEK--QTREESVKMWLYELQNLAYDVEDLLGEFETE  103 (475)
Q Consensus        26 ~~~~l~~~l~~~~~~~~~~~~~v~~~~~~l~~~l~~~~~~l~~a~~~--~~~~~~v~~Wl~~lrd~ayd~eD~lD~~~~~  103 (475)
                      +++.++++|++.+..++....+|++++++|+++|++|++||.+++.+  +..|++++.|+++|||+|||+|||||+|.++
T Consensus         2 ~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~   81 (115)
T 3qfl_A            2 AISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQ   81 (115)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45567888888888999999999999999999999999999999987  5678999999999999999999999999988


Q ss_pred             H
Q 046770          104 A  104 (475)
Q Consensus       104 ~  104 (475)
                      .
T Consensus        82 ~   82 (115)
T 3qfl_A           82 V   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            6

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.66  E-value=7.6e-16  Score=150.97  Aligned_cols=198  Identities=15%  Similarity=0.183  Sum_probs=131.5

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC------
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF------  266 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~------  266 (475)
                      .+..|+||+.+++.|.+++..        +  +++.|+|++|+|||||++++++..      . .+|+++....      
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~--------~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~   72 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLEN--------Y--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHI   72 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHH--------C--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCB
T ss_pred             ChHhcCChHHHHHHHHHHHhc--------C--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCC
Confidence            345799999999999999865        2  589999999999999999998742      1 6777765432      


Q ss_pred             CHHHHHHHHHHHhhc-----------------CCC-CCCChHHHHHHHHHHhCC-ceEEEEEECCCCCCh------hhHh
Q 046770          267 DIIRVTKSILRSVAM-----------------GIV-DHNDLNLLQWKLKKQLFG-KRFLLVLDDVWNENY------NDWI  321 (475)
Q Consensus       267 ~~~~~l~~il~~l~~-----------------~~~-~~~~~~~l~~~l~~~l~~-kr~LlVlDdv~~~~~------~~~~  321 (475)
                      +...++..+...+..                 ... ...+...+...+.+.... ++++|||||++..+.      ..+.
T Consensus        73 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~  152 (350)
T 2qen_A           73 TREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELL  152 (350)
T ss_dssp             CHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHH
Confidence            455666666655432                 000 123456666666666543 389999999976321      1222


Q ss_pred             HhhCcCCCCCCCcEEEEecCChHH-HHh----------cC-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHH
Q 046770          322 DLSRPFQDGAPGSKIIITTRNADA-ALI----------MG-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIG  389 (475)
Q Consensus       322 ~l~~~l~~~~~gs~ilvTtR~~~v-~~~----------~~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~  389 (475)
                      .++..+.....+..+|+|++.... ...          .+ ....+++.+|+.+++.+++.......+. ..   ..+..
T Consensus       153 ~~L~~~~~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~-~~---~~~~~  228 (350)
T 2qen_A          153 ALFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNL-DV---PENEI  228 (350)
T ss_dssp             HHHHHHHHHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTC-CC---CHHHH
T ss_pred             HHHHHHHHhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCC-CC---CHHHH
Confidence            222222111247889999987653 221          11 1247899999999999999875422111 11   13567


Q ss_pred             HHHHHhcCCchHHHHHHHHHhc
Q 046770          390 AKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       390 ~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      ..|++.|+|+|+++..++..+.
T Consensus       229 ~~i~~~tgG~P~~l~~~~~~~~  250 (350)
T 2qen_A          229 EEAVELLDGIPGWLVVFGVEYL  250 (350)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHh
Confidence            7899999999999999987653

>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=99.63  E-value=2e-15  Score=151.56  Aligned_cols=255  Identities=13%  Similarity=0.009  Sum_probs=156.8

Q ss_pred             ccccccchhHHHHHHHH-hcCCCCCCCCCccEEEEE--EccCCCcHHHHHHHHHcCcccc---cCcC-eEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELL-LKEDGTSHNNNHFSVVSI--IGMGGLGKTTLAQLVYNDSRVQ---CHFD-LKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L-~~~~~~~~~~~~~~vv~I--~G~gGiGKTtLA~~v~~~~~~~---~~F~-~~~wv~v~~~~~  267 (475)
                      ..++||+.+++.|.++| .....+..  ...+.+.|  +|++|+||||||+.+++.....   ..+. ..+|+++....+
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~--~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAG--LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   99 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSC--BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCC--CCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCC
Confidence            57999999999999988 43111000  12346667  9999999999999999843221   1122 357888777788


Q ss_pred             HHHHHHHHHHHhhcCCCC-CCChHHHHHHHHHHhC--CceEEEEEECCCCC------ChhhHhHhhCcCCCC---C--CC
Q 046770          268 IIRVTKSILRSVAMGIVD-HNDLNLLQWKLKKQLF--GKRFLLVLDDVWNE------NYNDWIDLSRPFQDG---A--PG  333 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~-~~~~~~l~~~l~~~l~--~kr~LlVlDdv~~~------~~~~~~~l~~~l~~~---~--~g  333 (475)
                      ...++..++.+++...+. ..+...+...+.+.+.  +++++|||||++..      +...+..+...+...   .  .+
T Consensus       100 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  179 (412)
T 1w5s_A          100 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  179 (412)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCce
Confidence            899999999998765332 3345556666666664  77999999999752      123344333333211   2  34


Q ss_pred             cEEEEecCChHHHH--------hcC-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcC------C
Q 046770          334 SKIIITTRNADAAL--------IMG-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCN------G  398 (475)
Q Consensus       334 s~ilvTtR~~~v~~--------~~~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~------G  398 (475)
                      ..+|+||+...+..        ... ....+.+.+|+.++++++|...+......  .....+....|++.|+      |
T Consensus       180 v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~--~~~~~~~~~~i~~~~~~~~~~~G  257 (412)
T 1w5s_A          180 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRD--TVWEPRHLELISDVYGEDKGGDG  257 (412)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCT--TSCCHHHHHHHHHHHCGGGTSCC
T ss_pred             EEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCC--CCCChHHHHHHHHHHHHhccCCC
Confidence            56888887554321        111 12339999999999999997653211100  1112456778999999      9


Q ss_pred             chHHHHHHHHHhc-----CC---CChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhccc
Q 046770          399 LPLAAKALGCLLH-----GK---YDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLF  462 (475)
Q Consensus       399 ~PLai~~~~~~L~-----~~---~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~sif  462 (475)
                      +|..+..+.....     ..   -+.+.+..++.....         ...+.-++..||++.+.++..++.+
T Consensus       258 ~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~---------~~~~~~~l~~l~~~~~~~l~aia~l  320 (412)
T 1w5s_A          258 SARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA---------ASIQTHELEALSIHELIILRLIAEA  320 (412)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC---------------CCSSSSSCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc---------cchHHHHHHcCCHHHHHHHHHHHHH
Confidence            9976665544321     11   223444444332110         1234446678899888888888764

>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=99.61  E-value=7.7e-15  Score=144.11  Aligned_cols=238  Identities=13%  Similarity=0.124  Sum_probs=143.3

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-----CC
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-----FD  267 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-----~~  267 (475)
                      .+..|+||+++++.|.+ +..           +++.|+|++|+|||||++.+++..  ..   ..+|+++...     .+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~-----------~~v~i~G~~G~GKT~L~~~~~~~~--~~---~~~~~~~~~~~~~~~~~   73 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA-----------PITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYIS   73 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS-----------SEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCC
T ss_pred             CHHHhcChHHHHHHHHH-hcC-----------CcEEEECCCCCCHHHHHHHHHHhc--CC---CEEEEEchhhccccCCC
Confidence            34579999999999999 632           489999999999999999998742  21   2578877642     34


Q ss_pred             HHHHHHHHHHHhhc-------------CC-----C-----------CCCChHHHHHHHHHHhCCceEEEEEECCCCCCh-
Q 046770          268 IIRVTKSILRSVAM-------------GI-----V-----------DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY-  317 (475)
Q Consensus       268 ~~~~l~~il~~l~~-------------~~-----~-----------~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~-  317 (475)
                      ...++..+...+..             ..     +           .......+...+.+... ++++|||||++..+. 
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~  152 (357)
T 2fna_A           74 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKL  152 (357)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhcc
Confidence            44454444443311             00     0           12345555555655433 489999999965321 


Q ss_pred             --hhHhHhhCcCCCCCCCcEEEEecCChHH-HHh---------c-CC-CceeeCCCCCHHHHHHHHhhcccCCCCCCCCc
Q 046770          318 --NDWIDLSRPFQDGAPGSKIIITTRNADA-ALI---------M-GT-VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQ  383 (475)
Q Consensus       318 --~~~~~l~~~l~~~~~gs~ilvTtR~~~v-~~~---------~-~~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~  383 (475)
                        ..|..++..+.....+..+|+|++.... ...         . +. ...+.+.+|+.+++.+++......... . ..
T Consensus       153 ~~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~-~-~~  230 (357)
T 2fna_A          153 RGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADI-D-FK  230 (357)
T ss_dssp             TTCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTC-C-CC
T ss_pred             CchhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCC-C-CC
Confidence              1222222222221246799999998653 221         1 11 257899999999999999875421111 1 11


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHHHHH-HhccccccCCCccchHHHHH-Hhh--hcCChhHHHHhhhh
Q 046770          384 PLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESV-LNSRIWDLSQGRCDIVHTLA-LSY--HYLSRPLKKCFAYC  459 (475)
Q Consensus       384 ~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w~~~-l~~~~~~~~~~~~~i~~~l~-~sy--~~L~~~~k~cf~~~  459 (475)
                      ..    ..|++.|+|+|+++..++..+....+...|..- .+..       ...+..-+. +.+  ..||+..+..+..+
T Consensus       231 ~~----~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~l~~~~~~~~~l~~~~~~~l~~l  299 (357)
T 2fna_A          231 DY----EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYA-------KKLILKEFENFLHGREIARKRYLNIMRTL  299 (357)
T ss_dssp             CH----HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHH-------HHHHHHHHHHHHTTCGGGHHHHHHHHHHH
T ss_pred             cH----HHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHH-------HHHHHHHHHHHhhccccccHHHHHHHHHH
Confidence            11    679999999999999998876543233333221 1100       000111111 111  16788888888888


Q ss_pred             cc
Q 046770          460 SL  461 (475)
Q Consensus       460 si  461 (475)
                      |.
T Consensus       300 a~  301 (357)
T 2fna_A          300 SK  301 (357)
T ss_dssp             TT
T ss_pred             Hc
Confidence            87

>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=99.51  E-value=5.9e-13  Score=132.20  Aligned_cols=246  Identities=13%  Similarity=0.003  Sum_probs=156.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc----cC--cCeEEEEEecCCC-C
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ----CH--FDLKAWTYVSQDF-D  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~--F~~~~wv~v~~~~-~  267 (475)
                      ..++||+.+++++.+++......    ...+.+.|+|++|+||||||+.+++.....    ..  ....+|+++.... +
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~----~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   95 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN----EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGT   95 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT----CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSC
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCC
Confidence            67999999999999887542111    334689999999999999999999843111    01  2356788877766 8


Q ss_pred             HHHHHHHHHHHhhcCCC--CCCChHHHHHHHHHHhCCceEEEEEECCCCCCh----hh-HhHhhCcCCCCCCCcEEEEec
Q 046770          268 IIRVTKSILRSVAMGIV--DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY----ND-WIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~--~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~----~~-~~~l~~~l~~~~~gs~ilvTt  340 (475)
                      ...++..++.++.....  .......+...+...+..++.+|||||++....    .. +..+....    .+..+|+||
T Consensus        96 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~t  171 (384)
T 2qby_B           96 PQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMIS  171 (384)
T ss_dssp             HHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEEC
T ss_pred             HHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEEE
Confidence            88899999988854322  223345667778888877766999999964321    12 22333322    678889998


Q ss_pred             CChHHH----H-h-cCCCceeeCCCCCHHHHHHHHhhcccC-CCCCCCCchHHHHHHHHHHhcC---CchHHH-HHHHHH
Q 046770          341 RNADAA----L-I-MGTVQAYPLKGLSNDDCMCLFTQHSLE-TRDFSMHQPLKEIGAKIVIKCN---GLPLAA-KALGCL  409 (475)
Q Consensus       341 R~~~v~----~-~-~~~~~~~~l~~L~~~~~~~lf~~~~~~-~~~~~~~~~~~~~~~~I~~~c~---G~PLai-~~~~~~  409 (475)
                      +.....    . . ......+.+.+++.++..+++...+.. -......   .+....|++.|+   |.|..+ .++-..
T Consensus       172 ~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~a  248 (384)
T 2qby_B          172 NDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFRA  248 (384)
T ss_dssp             SSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHHH
T ss_pred             CCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            864211    0 0 011238999999999999999987531 1111222   234556777777   988743 333322


Q ss_pred             h--c---CCCChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhcc
Q 046770          410 L--H---GKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSL  461 (475)
Q Consensus       410 L--~---~~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~si  461 (475)
                      .  .   ..-+.+.+..++....          ...+..++..|+++.+..+..++.
T Consensus       249 ~~~a~~~~~i~~~~v~~~~~~~~----------~~~~~~~~~~l~~~~~~~l~al~~  295 (384)
T 2qby_B          249 AQLASGGGIIRKEHVDKAIVDYE----------QERLIEAVKALPFHYKLALRSLIE  295 (384)
T ss_dssp             HHHTTSSSCCCHHHHHHHHHHHH----------HHHHHHHHHSSCHHHHHHHHHHHT
T ss_pred             HHHhcCCCccCHHHHHHHHHHHh----------cchHHHHHHcCCHHHHHHHHHHHH
Confidence            2  1   1245667776665421          134566777888877776665554

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.45  E-value=3.6e-12  Score=126.44  Aligned_cols=249  Identities=13%  Similarity=0.042  Sum_probs=152.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc----cCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ----CHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~v~~~~~~~~  270 (475)
                      ..++||+.+++.+..++...-..    ...+.+.|+|++|+||||||+.+++.....    ..-...+|+++....+...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~----~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   94 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRG----EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYR   94 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSS----CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHH
Confidence            57999999999999998552111    234678999999999999999998743111    0012457888888888899


Q ss_pred             HHHHHHHHhhcCCCC-CCChHHHHHHHHHHh--CCceEEEEEECCCCCCh-----hhHhHhhCcCCCC--CCCcEEEEec
Q 046770          271 VTKSILRSVAMGIVD-HNDLNLLQWKLKKQL--FGKRFLLVLDDVWNENY-----NDWIDLSRPFQDG--APGSKIIITT  340 (475)
Q Consensus       271 ~l~~il~~l~~~~~~-~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~~-----~~~~~l~~~l~~~--~~gs~ilvTt  340 (475)
                      ++..++.+++...+. ......+...+...+  .+++.+|||||++....     ..+..+.......  ..+..+|.||
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t  174 (387)
T 2v1u_A           95 VASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGIT  174 (387)
T ss_dssp             HHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEEC
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEE
Confidence            999999998664332 334556666666666  45689999999965321     1122222222111  3456778887


Q ss_pred             CChHHH-----HhcCC--CceeeCCCCCHHHHHHHHhhcccCC-CCCCCCchHHHHHHHHHHhcC---CchHHHH-HHHH
Q 046770          341 RNADAA-----LIMGT--VQAYPLKGLSNDDCMCLFTQHSLET-RDFSMHQPLKEIGAKIVIKCN---GLPLAAK-ALGC  408 (475)
Q Consensus       341 R~~~v~-----~~~~~--~~~~~l~~L~~~~~~~lf~~~~~~~-~~~~~~~~~~~~~~~I~~~c~---G~PLai~-~~~~  408 (475)
                      +.....     .....  ...+.+.+++.++..+++...+... ......+   +....|++.++   |.|..+. ++..
T Consensus       175 ~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~  251 (387)
T 2v1u_A          175 NSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDP---DVVPLCAALAAREHGDARRALDLLRV  251 (387)
T ss_dssp             SCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCS---SHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             CCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCH---HHHHHHHHHHHHhccCHHHHHHHHHH
Confidence            764221     11111  2578999999999999999775310 1111222   34456777777   9994433 3222


Q ss_pred             Hhc-----C--CCChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhc
Q 046770          409 LLH-----G--KYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCS  460 (475)
Q Consensus       409 ~L~-----~--~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s  460 (475)
                      ...     .  .-+.+.+..++....          ...+.-++..||.+.+..+..+.
T Consensus       252 a~~~a~~~~~~~i~~~~v~~a~~~~~----------~~~~~~~~~~l~~~~~~~l~a~~  300 (387)
T 2v1u_A          252 AGEIAERRREERVRREHVYSARAEIE----------RDRVSEVVRTLPLHAKLVLLSIM  300 (387)
T ss_dssp             HHHHHHHTTCSCBCHHHHHHHHHHHH----------HHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCcCHHHHHHHHHHHh----------hchHHHHHHcCCHHHHHHHHHHH
Confidence            211     1  134556666554321          22455667888888777666555

>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=99.45  E-value=4e-12  Score=126.35  Aligned_cols=252  Identities=13%  Similarity=0.041  Sum_probs=158.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC-cCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH-FDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~-F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++||+.+++.|..++.....+..  ...+.+.|+|++|+|||||++.+++..  ... -...+|++++...+...++.
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~--~~~~~~li~G~~G~GKTtl~~~l~~~~--~~~~~~~~~~i~~~~~~~~~~~~~   92 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPG--HHYPRATLLGRPGTGKTVTLRKLWELY--KDKTTARFVYINGFIYRNFTAIIG   92 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTT--SSCCEEEEECCTTSSHHHHHHHHHHHH--TTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCC--CCCCeEEEECCCCCCHHHHHHHHHHHH--hhhcCeeEEEEeCccCCCHHHHHH
Confidence            5799999999999998865211101  233489999999999999999998743  222 12467788778888889999


Q ss_pred             HHHHHhhcCCCC-CCChHHHHHHHHHHh--CCceEEEEEECCCCCChhhHhHhhCcCCCCC----CCcEEEEecCChHHH
Q 046770          274 SILRSVAMGIVD-HNDLNLLQWKLKKQL--FGKRFLLVLDDVWNENYNDWIDLSRPFQDGA----PGSKIIITTRNADAA  346 (475)
Q Consensus       274 ~il~~l~~~~~~-~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~----~gs~ilvTtR~~~v~  346 (475)
                      .++..++...+. ......+...+...+  .+++.+|||||++..+......+...+....    .+..+|++|+.....
T Consensus        93 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           93 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            999888654322 234555666666655  3668999999997766555666655554321    467888888776443


Q ss_pred             HhcC-------CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhc---------CCchHHHHHHHHHh
Q 046770          347 LIMG-------TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKC---------NGLPLAAKALGCLL  410 (475)
Q Consensus       347 ~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c---------~G~PLai~~~~~~L  410 (475)
                      ....       ....+.+.+++.++..+++...+.....  ...-..+....|++.+         +|.|..+..+....
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~a  250 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLA--EGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRS  250 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBC--TTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcC--CCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHHH
Confidence            3221       2246999999999999999877532110  0112245677788888         78876555444332


Q ss_pred             c------CC--CChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhccc
Q 046770          411 H------GK--YDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCSLF  462 (475)
Q Consensus       411 ~------~~--~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~sif  462 (475)
                      .      ..  -+.+....+.......          .+.-.+..||.+.+.++..++.+
T Consensus       251 ~~~a~~~~~~~i~~~~v~~~~~~~~~~----------~~~~~l~~l~~~~~~~L~~l~~~  300 (389)
T 1fnn_A          251 AYAAQQNGRKHIAPEDVRKSSKEVLFG----------ISEEVLIGLPLHEKLFLLAIVRS  300 (389)
T ss_dssp             HHHHHHTTCSSCCHHHHHHHHHHHSCC----------CCHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHHHhhh----------hHHHHHHcCCHHHHHHHHHHHHH
Confidence            2      11  2334444443321110          12233566777777766666544

>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=99.41  E-value=1.6e-12  Score=128.89  Aligned_cols=248  Identities=14%  Similarity=0.054  Sum_probs=150.0

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCc---CeEEEEEecCCCCHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF---DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F---~~~~wv~v~~~~~~~~  270 (475)
                      +..|+||+.+++.|.+++...-..    .....+.|+|++|+||||||+.+++..  ...+   ...+|+++....+...
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~----~~~~~vli~G~~G~GKTtl~~~l~~~~--~~~~~~~~~~~~i~~~~~~~~~~   92 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYRE----EKPNNIFIYGLTGTGKTAVVKFVLSKL--HKKFLGKFKHVYINTRQIDTPYR   92 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGT----CCCCCEEEEECTTSSHHHHHHHHHHHH--HHHTCSSCEEEEEEHHHHCSHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC----CCCCeEEEECCCCCCHHHHHHHHHHHH--HHHhcCCceEEEEECCCCCCHHH
Confidence            367999999999999988642111    234578999999999999999999842  2221   2467787777677778


Q ss_pred             HHHHHHHHhhcCCC-CCCChHHHHHHHHHHhC--CceEEEEEECCCCCC----hhhHhHhhCcCCC-CCCCcEEEEecCC
Q 046770          271 VTKSILRSVAMGIV-DHNDLNLLQWKLKKQLF--GKRFLLVLDDVWNEN----YNDWIDLSRPFQD-GAPGSKIIITTRN  342 (475)
Q Consensus       271 ~l~~il~~l~~~~~-~~~~~~~l~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~-~~~gs~ilvTtR~  342 (475)
                      ++..++.+++.... ...+.......+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+.
T Consensus        93 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~  172 (386)
T 2qby_A           93 VLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITND  172 (386)
T ss_dssp             HHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESC
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECC
Confidence            88888777754332 12334555556666553  458999999995421    2233333322211 2345677888876


Q ss_pred             hHHHHhcC-------CCceeeCCCCCHHHHHHHHhhcccCCC-CCCCCchHHHHHHHHHHhcC---CchHHHHHHHHHhc
Q 046770          343 ADAALIMG-------TVQAYPLKGLSNDDCMCLFTQHSLETR-DFSMHQPLKEIGAKIVIKCN---GLPLAAKALGCLLH  411 (475)
Q Consensus       343 ~~v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~~-~~~~~~~~~~~~~~I~~~c~---G~PLai~~~~~~L~  411 (475)
                      ......+.       ....+.+.+++.++..+++.+.+.... ....   ..+....|++.++   |.|..+..+.....
T Consensus       173 ~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~  249 (386)
T 2qby_A          173 VKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVL---PDNVIKLCAALAAREHGDARRALDLLRVSG  249 (386)
T ss_dssp             GGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCS---CHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             CChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCC---CHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            54322111       125799999999999999987542111 1112   2345566777777   99985443333221


Q ss_pred             ------C--CCChhHHHHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhhc
Q 046770          412 ------G--KYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYCS  460 (475)
Q Consensus       412 ------~--~~~~~~w~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~s  460 (475)
                            .  .-+.+.+..++....          ...+.-++..||.+.+..+..++
T Consensus       250 ~~a~~~~~~~i~~~~v~~a~~~~~----------~~~~~~~~~~l~~~~~~il~ai~  296 (386)
T 2qby_A          250 EIAERMKDTKVKEEYVYMAKEEIE----------RDRVRDIILTLPFHSKLVLMAVV  296 (386)
T ss_dssp             HHHHHTTCSSCCHHHHHHHHHHHH----------HHHHHHHHHTSCHHHHHHHHHHH
T ss_pred             HHHHhcCCCccCHHHHHHHHHHHh----------hchHHHHHHcCCHHHHHHHHHHH
Confidence                  1  134555555544321          12455566777777766665554

>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=99.41  E-value=2e-12  Score=119.34  Aligned_cols=198  Identities=14%  Similarity=0.117  Sum_probs=119.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      ..++||+..++.|..++.. .      ...+.+.|+|++|+||||||+.+++.......+...   .+....+    ...
T Consensus        23 ~~~~g~~~~~~~l~~~l~~-~------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~---~~~~~~~----~~~   88 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSL-G------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITAT---PCGVCDN----CRE   88 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHH-T------CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSS---CCSCSHH----HHH
T ss_pred             HHHhCcHHHHHHHHHHHHc-C------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC---CCcccHH----HHH
Confidence            4699999999999999876 2      223478999999999999999998743211111000   0000000    000


Q ss_pred             HHHHhh-----cCCCCCCChHHHHHHHHHH-----hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH
Q 046770          275 ILRSVA-----MGIVDHNDLNLLQWKLKKQ-----LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD  344 (475)
Q Consensus       275 il~~l~-----~~~~~~~~~~~l~~~l~~~-----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~  344 (475)
                      +.....     ...........+. .+.+.     ..+++.+|||||++..+...+..+...+.....+..+|+||+...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~  167 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTR-DLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  167 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHH-HHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HhccCCcceEEecCcccccHHHHH-HHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            000000     0000001111111 12222     135679999999987666667777666655456788888887643


Q ss_pred             HH--HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          345 AA--LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       345 v~--~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      ..  ........+++.+++.++..+++...+..... ..   ..+....|++.|+|+|..+..+...+.
T Consensus       168 ~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~-~~---~~~~~~~l~~~~~G~~~~~~~~~~~~~  232 (250)
T 1njg_A          168 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-AH---EPRALQLLARAAEGSLRDALSLTDQAI  232 (250)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC-CB---CHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC-CC---CHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            11  12233467999999999999999877643221 11   235567899999999999988776543

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.35  E-value=9.5e-12  Score=113.16  Aligned_cols=188  Identities=12%  Similarity=0.007  Sum_probs=118.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|++..++.+.+++..        ...+.+.|+|++|+|||+||+.+++.... ..+. ..+.++.+.......+. 
T Consensus        17 ~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~-   86 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVER--------KNIPHLLFSGPPGTGKTATAIALARDLFG-ENWRDNFIEMNASDERGIDVVR-   86 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHT--------TCCCCEEEECSTTSSHHHHHHHHHHHHHG-GGGGGGEEEEETTCTTCHHHHH-
T ss_pred             HHHcCcHHHHHHHHHHHhC--------CCCCeEEEECCCCCCHHHHHHHHHHHHhc-cccccceEEeccccccChHHHH-
Confidence            4689999999999999976        22234899999999999999999874211 1121 23334444333322221 


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH--HHhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA--ALIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v--~~~~~~  351 (475)
                      ..+..+.....              ...+++.+|||||++......+..+...+.....++.+|+||+....  ......
T Consensus        87 ~~~~~~~~~~~--------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r  152 (226)
T 2chg_A           87 HKIKEFARTAP--------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (226)
T ss_dssp             HHHHHHHTSCC--------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHhcccC--------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHh
Confidence            22221111100              01256889999999776655555565555444457788988886531  112233


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      ...+.+.+++.++..+++.+.+..... .   ...+....|++.++|.|..+..+...+
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~~g~~r~l~~~l~~~  207 (226)
T 2chg_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGV-K---ITEDGLEALIYISGGDFRKAINALQGA  207 (226)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            458999999999999999877643221 1   123566778999999999665544433

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.21  E-value=6.4e-11  Score=114.41  Aligned_cols=186  Identities=16%  Similarity=0.165  Sum_probs=116.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCc-CeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF-DLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|++..++.|..++..        ...+.+.|+|++|+|||++|+.+++... ...+ ...++++.+..... ..++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~-~~i~   90 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKD--------GNMPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGI-DVVR   90 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHS--------CCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSH-HHHH
T ss_pred             HHHHCCHHHHHHHHHHHHc--------CCCCeEEEECcCCCCHHHHHHHHHHHhc-CCcccCCEEEecCccccCh-HHHH
Confidence            4689999999999999876        2333489999999999999999987421 1111 12334443333232 2223


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH--HHhcC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA--ALIMG  350 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v--~~~~~  350 (475)
                      .++..+.....              .+ .+++.++||||++......+..+...+.....++.+|+||+...-  .....
T Consensus        91 ~~~~~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~s  156 (323)
T 1sxj_B           91 NQIKHFAQKKL--------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  156 (323)
T ss_dssp             THHHHHHHBCC--------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             HHHHHHHhccc--------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHh
Confidence            33332221000              01 356889999999876655566565555444457788888876421  12223


Q ss_pred             CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH-HHHHHH
Q 046770          351 TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA-AKALGC  408 (475)
Q Consensus       351 ~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa-i~~~~~  408 (475)
                      ....+.+.+++.++..+++...+...+. .   -..+....|++.|+|.|.. +..+..
T Consensus       157 r~~~i~~~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          157 QCAILRYSKLSDEDVLKRLLQIIKLEDV-K---YTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hceEEeecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4468999999999999999876532211 1   1135567899999999954 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=99.05  E-value=9e-10  Score=106.47  Aligned_cols=189  Identities=13%  Similarity=0.046  Sum_probs=116.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCc-CeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF-DLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|++..++.|..++..        +..+.+.|+|++|+||||+|+.+++.... ..+ ...+.+..+..... ..+.
T Consensus        25 ~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~-~~~~   94 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKT--------GSMPHLLFAGPPGVGKTTAALALARELFG-ENWRHNFLELNASDERGI-NVIR   94 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHH--------TCCCEEEEESCTTSSHHHHHHHHHHHHHG-GGHHHHEEEEETTCHHHH-HTTH
T ss_pred             HHhhCCHHHHHHHHHHHHc--------CCCCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCceEEeeccccCch-HHHH
Confidence            3589999999999999876        33345899999999999999999874211 111 12233333221111 1111


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH--HHhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA--ALIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v--~~~~~~  351 (475)
                      ..+..+....              ....+++.++|+||++......+..+...+.....++++|+||.....  ......
T Consensus        95 ~~~~~~~~~~--------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  160 (327)
T 1iqp_A           95 EKVKEFARTK--------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  160 (327)
T ss_dssp             HHHHHHHHSC--------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHhhC--------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh
Confidence            1111111000              011256789999999876666666666655544557888888876431  111112


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      ...+.+.+++.++...++...+...+.    .-..+....|++.++|.|..+..+...+.
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~----~~~~~~~~~l~~~~~g~~r~~~~~l~~~~  216 (327)
T 1iqp_A          161 CAIFRFRPLRDEDIAKRLRYIAENEGL----ELTEEGLQAILYIAEGDMRRAINILQAAA  216 (327)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTC----EECHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHhcCC----CCCHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            347899999999999999877643221    12245667899999999997665554443

>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=98.94  E-value=5.1e-09  Score=100.73  Aligned_cols=184  Identities=10%  Similarity=0.018  Sum_probs=115.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|++..++.|.+++..        +..+.+.|+|++|+|||++|+.+++... ...+. ..+.++.+....      
T Consensus        17 ~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~------   81 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVER--------KNIPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERG------   81 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTT--------TCCCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTC------
T ss_pred             HHHhCCHHHHHHHHHHHhC--------CCCCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccC------
Confidence            3589999999999888765        2233489999999999999999987421 11111 122233332111      


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHH--h-CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-H-HHh
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQ--L-FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-A-ALI  348 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~--l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v-~~~  348 (475)
                                  ..........+...  + .+++.++||||++.........+...+.....++.+|+||.... + ...
T Consensus        82 ------------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l  149 (319)
T 2chq_A           82 ------------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPI  149 (319)
T ss_dssp             ------------TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHH
T ss_pred             ------------hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHH
Confidence                        11111111111111  1 25678999999977665566667777765556778888887643 1 122


Q ss_pred             cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          349 MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       349 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                      ......+.+.+++.++...++...+...+. .   -..+....|++.++|.+..+......
T Consensus       150 ~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~-~---i~~~~l~~l~~~~~G~~r~~~~~l~~  206 (319)
T 2chq_A          150 QSRCAVFRFKPVPKEAMKKRLLEICEKEGV-K---ITEDGLEALIYISGGDFRKAINALQG  206 (319)
T ss_dssp             HTTCEEEECCCCCHHHHHHHHHHHHHTTCC-C---BCHHHHHHHHHTTTTCHHHHHHHHHH
T ss_pred             HhhCeEEEecCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            233468999999999999999877643221 1   12455677889999999866544433

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.93  E-value=8e-09  Score=98.57  Aligned_cols=172  Identities=9%  Similarity=-0.020  Sum_probs=105.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc---Cc--CeEEEEEecCCCCHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC---HF--DLKAWTYVSQDFDIIR  270 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~---~F--~~~~wv~v~~~~~~~~  270 (475)
                      .+.||++|+++|...|...-..    ...+.+.|+|++|+|||++++.|++......   ..  -..+.+++....+...
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~----~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~   96 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMS----SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT----TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHH
Confidence            4899999999999887652211    3456789999999999999999998532111   11  1356777778888899


Q ss_pred             HHHHHHHHhhcCCCC-CCChHHHHHHHHHH--hCCceEEEEEECCCCCChhhHhHhhCcCC---CCCCCcEEEEecCCh-
Q 046770          271 VTKSILRSVAMGIVD-HNDLNLLQWKLKKQ--LFGKRFLLVLDDVWNENYNDWIDLSRPFQ---DGAPGSKIIITTRNA-  343 (475)
Q Consensus       271 ~l~~il~~l~~~~~~-~~~~~~l~~~l~~~--l~~kr~LlVlDdv~~~~~~~~~~l~~~l~---~~~~gs~ilvTtR~~-  343 (475)
                      ++..|++++.+.... ......+...+...  -.+++++++||+++...  ..+.+...+.   .......||.++... 
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d  174 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNV  174 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSC
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcc
Confidence            999999999654322 22333344334332  24668999999996543  1112222211   111122333334332 


Q ss_pred             --H--H----HHhcCCCceeeCCCCCHHHHHHHHhhccc
Q 046770          344 --D--A----ALIMGTVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       344 --~--v----~~~~~~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                        .  +    ...+ ....+.+.|++.++..+++.+++.
T Consensus       175 ~~~~~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          175 TIREQINIMPSLKA-HFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             CCHHHHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cchhhcchhhhccC-CceEEEeCCCCHHHHHHHHHHHHH
Confidence              1  1    1111 225689999999999999988763

>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=98.88  E-value=1.1e-08  Score=100.82  Aligned_cols=197  Identities=15%  Similarity=0.115  Sum_probs=115.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|++..++.|..++.. .      .....+.|+|++|+||||+|+.+++.......+..   ..+...    .....
T Consensus        16 ~~~vg~~~~~~~L~~~l~~-~------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~---~~~~~~----~~~~~   81 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSL-G------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVC----DNCRE   81 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHH-T------CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCS---SCCSSS----HHHHH
T ss_pred             hhccCcHHHHHHHHHHHHh-C------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCC---CCCccc----HHHHH
Confidence            3599999999999999876 2      12246789999999999999999874321111100   000000    00111


Q ss_pred             HHHHh-------hcC-CCCCCChHHHHHHHHHH-hCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH
Q 046770          275 ILRSV-------AMG-IVDHNDLNLLQWKLKKQ-LFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA  345 (475)
Q Consensus       275 il~~l-------~~~-~~~~~~~~~l~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v  345 (475)
                      +....       ... .........+...+... ..+++.+|||||++..+...+..+...+.....+..+|++|....-
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  161 (373)
T 1jr3_A           82 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (373)
T ss_dssp             HHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGG
T ss_pred             HhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence            11000       000 00112222222221111 1356789999999776666666666665544456777777765321


Q ss_pred             --HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHH
Q 046770          346 --ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCL  409 (475)
Q Consensus       346 --~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~  409 (475)
                        .........+++.+++.++...++.+.+...+. .   ...+....|++.++|.|..+..+...
T Consensus       162 l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~-~---~~~~a~~~l~~~~~G~~r~~~~~l~~  223 (373)
T 1jr3_A          162 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-A---HEPRALQLLARAAEGSLRDALSLTDQ  223 (373)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             CcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence              122234478999999999999999876532211 1   11355677999999999988766543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.79  E-value=1.2e-08  Score=90.06  Aligned_cols=45  Identities=24%  Similarity=0.385  Sum_probs=38.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++||+.+++.+.+++..        ...+.+.|+|++|+|||+||+.+++.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQR--------RTKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhc--------CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999876        23356789999999999999999874

>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=98.75  E-value=3.8e-08  Score=96.11  Aligned_cols=195  Identities=11%  Similarity=0.055  Sum_probs=114.4

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|++..++.|..++..        ...+.+.|+|++|+||||+|+.+++.......+. ....++.+..... ..+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~--------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~-~~~~  107 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKS--------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGI-SIVR  107 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTC--------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCH-HHHT
T ss_pred             HHhhCCHHHHHHHHHHHhc--------CCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccch-HHHH
Confidence            4689999999999999866        2223388999999999999999987422111111 2233333332222 2223


Q ss_pred             HHHHHhhcCCC-CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH--HHhcC
Q 046770          274 SILRSVAMGIV-DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA--ALIMG  350 (475)
Q Consensus       274 ~il~~l~~~~~-~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v--~~~~~  350 (475)
                      +.+..+..... .....     .....-.++.-+|++|++..........++..+.......++|++|....-  .....
T Consensus       108 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~s  182 (353)
T 1sxj_D          108 EKVKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS  182 (353)
T ss_dssp             THHHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             HHHHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhc
Confidence            33332222111 10000     011111245579999999766555555565555443446677777765321  11111


Q ss_pred             CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          351 TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       351 ~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      ....+.+.+++.++...++.+.+..... ..   ..+....|++.++|.|..+..+.
T Consensus       183 R~~~i~~~~~~~~~~~~~l~~~~~~~~~-~i---~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          183 QCSKFRFKALDASNAIDRLRFISEQENV-KC---DDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHTTTC-CC---CHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             cCceEEeCCCCHHHHHHHHHHHHHHhCC-CC---CHHHHHHHHHHcCCCHHHHHHHH
Confidence            2357899999999999999876543221 11   24567789999999998755443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.71  E-value=1.8e-07  Score=94.09  Aligned_cols=181  Identities=20%  Similarity=0.187  Sum_probs=104.2

Q ss_pred             ccccccchhH---HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHH
Q 046770          195 AKVYGRSKER---EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       195 ~~~vGR~~e~---~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      .+++|.+..+   ..|...+..        ...+.+.|+|++|+||||||+.+++..  ...     ++.++....-..-
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~--------~~~~~vLL~GppGtGKTtlAr~ia~~~--~~~-----f~~l~a~~~~~~~   90 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEA--------GHLHSMILWGPPGTGKTTLAEVIARYA--NAD-----VERISAVTSGVKE   90 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHH--------TCCCEEEEECSTTSSHHHHHHHHHHHT--TCE-----EEEEETTTCCHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHc--------CCCcEEEEECCCCCcHHHHHHHHHHHh--CCC-----eEEEEeccCCHHH
Confidence            3588888777   667777766        345678999999999999999999842  222     2222221111111


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEE-ecCChHH---HH
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIII-TTRNADA---AL  347 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilv-TtR~~~v---~~  347 (475)
                      ++.++...                ......+++.+|+||+++.......+.++..+..+  ...+|. ||.+...   ..
T Consensus        91 ir~~~~~a----------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~~--~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           91 IREAIERA----------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIEDG--TITFIGATTENPSFELNSA  152 (447)
T ss_dssp             HHHHHHHH----------------HHHHHTTCCEEEEEETTTCC------CCHHHHHTT--SCEEEEEESSCGGGSSCHH
T ss_pred             HHHHHHHH----------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhcC--ceEEEecCCCCcccccCHH
Confidence            22222111                11112467889999999876544445555444431  234443 5555321   22


Q ss_pred             hcCCCceeeCCCCCHHHHHHHHhhcccCCCCC---CCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          348 IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDF---SMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       348 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~---~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      ......++.+.+++.++...++.+.+......   ....-..+....|++.++|.+-.+..+..
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le  216 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLE  216 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            33345688999999999999998775431110   11122345677788889998876654443

>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=98.68  E-value=6.2e-08  Score=93.47  Aligned_cols=183  Identities=15%  Similarity=0.097  Sum_probs=109.2

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      ..++|++..++.+..++...... .  .....+.|+|++|+|||+||+.+++..  ..   ...+++++......++   
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~-~--~~~~~vll~G~~GtGKT~la~~i~~~~--~~---~~~~~~~~~~~~~~~l---   80 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKAR-K--EPLEHLLLFGPPGLGKTTLAHVIAHEL--GV---NLRVTSGPAIEKPGDL---   80 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHH-C--SCCCCCEEECCTTCCCHHHHHHHHHHH--TC---CEEEECTTTCCSHHHH---
T ss_pred             HHhhCHHHHHHHHHHHHHHHHcc-C--CCCCcEEEECCCCCCHHHHHHHHHHHh--CC---CEEEEeccccCChHHH---
Confidence            46999999988888877531100 0  122467899999999999999998732  21   1234443332222111   


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC------------------CCCcEE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG------------------APGSKI  336 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------------------~~gs~i  336 (475)
                                        ...+...+ .+..+|+|||+..........+...+...                  ..+..+
T Consensus        81 ------------------~~~l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~  141 (324)
T 1hqc_A           81 ------------------AAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  141 (324)
T ss_dssp             ------------------HHHHTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEE
T ss_pred             ------------------HHHHHHhc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEE
Confidence                              11111111 34568999999776544444443322211                  023567


Q ss_pred             EEecCChH-HHH-hcCCC-ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhc
Q 046770          337 IITTRNAD-AAL-IMGTV-QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLH  411 (475)
Q Consensus       337 lvTtR~~~-v~~-~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~  411 (475)
                      |.||.... +.. ..... ..+.+.+++.++...++...+..... ..   ..+....|++.|+|.|..+..+...+.
T Consensus       142 i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~-~~---~~~~~~~l~~~~~G~~r~l~~~l~~~~  215 (324)
T 1hqc_A          142 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV-RI---TEEAALEIGRRSRGTMRVAKRLFRRVR  215 (324)
T ss_dssp             EEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC-CC---CHHHHHHHHHHSCSCHHHHHHHHHHHT
T ss_pred             EEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC-CC---CHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            77766432 110 11122 57899999999999999877643321 11   235677899999999998887766553

>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=98.63  E-value=2e-08  Score=92.24  Aligned_cols=174  Identities=10%  Similarity=0.033  Sum_probs=98.2

Q ss_pred             cccccc---hhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHH
Q 046770          196 KVYGRS---KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVT  272 (475)
Q Consensus       196 ~~vGR~---~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l  272 (475)
                      +++|+.   ..++.+..++..        ...+.+.|+|++|+||||||+.+++..  ........|++++.....    
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~--------~~~~~~ll~G~~G~GKT~la~~l~~~~--~~~~~~~~~~~~~~~~~~----   94 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASG--------DGVQAIYLWGPVKSGRTHLIHAACARA--NELERRSFYIPLGIHASI----   94 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHT--------CSCSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEEGGGGGGS----
T ss_pred             hccCCCCCHHHHHHHHHHHhC--------CCCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEHHHHHHH----
Confidence            466632   445555555543        233578899999999999999998743  222234566665442110    


Q ss_pred             HHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhh--HhHhhCcCCC-CCCC-cEEEEecCChH----
Q 046770          273 KSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYND--WIDLSRPFQD-GAPG-SKIIITTRNAD----  344 (475)
Q Consensus       273 ~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~g-s~ilvTtR~~~----  344 (475)
                            +.          .   .+. .+ .++.+|||||++......  ...+...+.. ...+ .++|+||+...    
T Consensus        95 ------~~----------~---~~~-~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~  153 (242)
T 3bos_A           95 ------ST----------A---LLE-GL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAG  153 (242)
T ss_dssp             ------CG----------G---GGT-TG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTT
T ss_pred             ------HH----------H---HHH-hc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHH
Confidence                  00          0   000 01 346799999996543222  2223332211 0112 24777776321    


Q ss_pred             -----HHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          345 -----AALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       345 -----v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                           +...+.....+.+.+++.++..+++...+..... .   ...+....|++.++|.+-.+..+..
T Consensus       154 ~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~-~---~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          154 FVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL-Q---LPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             CCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC-C---CCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHccCCHHHHHHHHH
Confidence                 1111112267899999999999999877642211 1   1245667789999999877665443

>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=98.59  E-value=2.1e-07  Score=90.92  Aligned_cols=198  Identities=13%  Similarity=0.057  Sum_probs=108.3

Q ss_pred             ccccccchhHHHHHHHH-hcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc---ccc-cCcCe-------------
Q 046770          195 AKVYGRSKEREEIVELL-LKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS---RVQ-CHFDL-------------  256 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L-~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~~-~~F~~-------------  256 (475)
                      .+++|.+..++.+.+++ ..        +..+.+.|+|+.|+||||+++.++...   ... -.++.             
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~--------~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~   85 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQP--------RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLEL   85 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT--------TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------
T ss_pred             HHhcCCHHHHHHHHHHHhhC--------CCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeeccccccccee
Confidence            45889998888888877 33        222238999999999999999887621   100 00000             


Q ss_pred             -------EEEEEecCCC-CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCC
Q 046770          257 -------KAWTYVSQDF-DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQ  328 (475)
Q Consensus       257 -------~~wv~v~~~~-~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~  328 (475)
                             .+.+..+... ......++++..+.....-    .... .+.. +.+++-++|||++...+......+...+.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----~~~~-~ls~-l~~~~~vlilDE~~~L~~~~~~~L~~~le  159 (354)
T 1sxj_E           86 NVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV----DFQD-SKDG-LAHRYKCVIINEANSLTKDAQAALRRTME  159 (354)
T ss_dssp             CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHH
T ss_pred             eeecccceEEecHhhcCCcchHHHHHHHHHHHHhccc----cccc-cccc-cCCCCeEEEEeCccccCHHHHHHHHHHHH
Confidence                   1111111100 0001223333332211100    0000 0000 23466799999998766655666665554


Q ss_pred             CCCCCcEEEEecCChH-H-HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          329 DGAPGSKIIITTRNAD-A-ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       329 ~~~~gs~ilvTtR~~~-v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      ....++.+|++|.... + .........+++.+++.++...++.+.+...+-....   .+....|++.++|.+-.+..+
T Consensus       160 ~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~l~~i~~~~~G~~r~a~~~  236 (354)
T 1sxj_E          160 KYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET---KDILKRIAQASNGNLRVSLLM  236 (354)
T ss_dssp             HSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC---SHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCc---HHHHHHHHHHcCCCHHHHHHH
Confidence            3334677888777532 1 1222344789999999999999998765322111110   245667899999999877655


Q ss_pred             HHH
Q 046770          407 GCL  409 (475)
Q Consensus       407 ~~~  409 (475)
                      ...
T Consensus       237 l~~  239 (354)
T 1sxj_E          237 LES  239 (354)
T ss_dssp             HTH
T ss_pred             HHH
Confidence            543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.54  E-value=1.1e-06  Score=86.39  Aligned_cols=199  Identities=14%  Similarity=0.075  Sum_probs=107.9

Q ss_pred             ccccccchhHHH---HHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe----cCCCC
Q 046770          195 AKVYGRSKEREE---IVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV----SQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~---l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v----~~~~~  267 (475)
                      ..++|++..++.   +.+.+.. ..     ...+.+.|+|++|+|||+||+.+++.......|   +.+..    +....
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~-~~-----~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~---~~~~~~~~~~~~~~  114 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIRE-GK-----IAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF---TAIAGSEIFSLEMS  114 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHT-TC-----CTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE---EEEEGGGGSCSSSC
T ss_pred             hhccChHHHHHHHHHHHHHHHc-CC-----CCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc---ccccchhhhhcccc
Confidence            469999988766   4555444 21     122578999999999999999998843211111   11221    12233


Q ss_pred             HHHHHHHHHHHhhcC---------------------C-------CC--CCChHHHHHHHHHHh-----CCc----eEEEE
Q 046770          268 IIRVTKSILRSVAMG---------------------I-------VD--HNDLNLLQWKLKKQL-----FGK----RFLLV  308 (475)
Q Consensus       268 ~~~~l~~il~~l~~~---------------------~-------~~--~~~~~~l~~~l~~~l-----~~k----r~LlV  308 (475)
                      ..+.+...+......                     .       ..  ......+...+....     .++    +.+|+
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~  194 (368)
T 3uk6_A          115 KTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLF  194 (368)
T ss_dssp             HHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEE
T ss_pred             hhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEE
Confidence            334444443331110                     0       00  000122222222221     233    35999


Q ss_pred             EECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC------------h-HH-HHhcCCCceeeCCCCCHHHHHHHHhhccc
Q 046770          309 LDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN------------A-DA-ALIMGTVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       309 lDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~------------~-~v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      ||++..........+...+...... .++++|..            . .+ .........+.+.+++.++..+++...+.
T Consensus       195 IDEi~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~  273 (368)
T 3uk6_A          195 IDEVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCE  273 (368)
T ss_dssp             EESGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             EhhccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHH
Confidence            9999877666666666666543333 34434321            0 01 11223335589999999999999997764


Q ss_pred             CCCCCCCCchHHHHHHHHHHhcC-CchHHHHHHH
Q 046770          375 ETRDFSMHQPLKEIGAKIVIKCN-GLPLAAKALG  407 (475)
Q Consensus       375 ~~~~~~~~~~~~~~~~~I~~~c~-G~PLai~~~~  407 (475)
                      .... .   -..+....|++.+. |.|-.+..+.
T Consensus       274 ~~~~-~---~~~~~l~~l~~~~~~G~~r~~~~ll  303 (368)
T 3uk6_A          274 EEDV-E---MSEDAYTVLTRIGLETSLRYAIQLI  303 (368)
T ss_dssp             HTTC-C---BCHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HcCC-C---CCHHHHHHHHHHhcCCCHHHHHHHH
Confidence            3221 1   22456677888887 7776555433

>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=98.53  E-value=5.7e-07  Score=90.47  Aligned_cols=183  Identities=17%  Similarity=0.127  Sum_probs=106.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcC--eEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD--LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~  301 (475)
                      ...+.|+|++|+||||||+.+++.  ....+.  ..++++..      .+...+...+...     ..    ..+...+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~--l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~-----~~----~~~~~~~~  192 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITSE------KFLNDLVDSMKEG-----KL----NEFREKYR  192 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHH--HHHHCCSSCEEEEEHH------HHHHHHHHHHHTT-----CH----HHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEeeHH------HHHHHHHHHHHcc-----cH----HHHHHHhc
Confidence            457899999999999999999984  222221  23444432      3344455444332     11    12333444


Q ss_pred             CceEEEEEECCCCCCh--hhHhHhhCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHH
Q 046770          302 GKRFLLVLDDVWNENY--NDWIDLSRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLF  369 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf  369 (475)
                      .+.-+|+|||++....  .....+...+.. ...|..||+||...         .+...+.....+.+.+++.++...++
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            3677999999965332  222333333321 13467888888762         22222333467899999999999999


Q ss_pred             hhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh------cCC-CChhHHHHHHhccc
Q 046770          370 TQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL------HGK-YDPSDWESVLNSRI  427 (475)
Q Consensus       370 ~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L------~~~-~~~~~w~~~l~~~~  427 (475)
                      .+.+....- ..++   +....|++.+.|.+--+.-+...+      ... -+.+.+..++....
T Consensus       273 ~~~~~~~~~-~i~~---e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          273 RKMLEIEHG-ELPE---EVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             HHHHHHHTC-CCCT---THHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTTT
T ss_pred             HHHHHHcCC-CCCH---HHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence            877642211 1122   345668889999987655333222      122 45677777776543

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.52  E-value=7.5e-07  Score=86.40  Aligned_cols=179  Identities=15%  Similarity=0.135  Sum_probs=106.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|++..++.+..++...... .  .....|.|+|++|+|||+||+.+++.  ....|   +.+++......      
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~-~--~~~~~vll~G~~GtGKT~la~~ia~~--~~~~~---~~~~~~~~~~~------   94 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKR-N--ECLDHILFSGPAGLGKTTLANIISYE--MSANI---KTTAAPMIEKS------   94 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHT-T--SCCCCEEEECSTTSSHHHHHHHHHHH--TTCCE---EEEEGGGCCSH------
T ss_pred             HHhCChHHHHHHHHHHHHHHHhc-C--CCCCeEEEECcCCCCHHHHHHHHHHH--hCCCe---EEecchhccch------
Confidence            46999999999998888652100 0  23346889999999999999999873  22222   22332221111      


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC------------------CCCcEE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG------------------APGSKI  336 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------------------~~gs~i  336 (475)
                                     ......+..  ..+..+|+||++..........++..+...                  .++..+
T Consensus        95 ---------------~~~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (338)
T 3pfi_A           95 ---------------GDLAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTL  157 (338)
T ss_dssp             ---------------HHHHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEE
T ss_pred             ---------------hHHHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEE
Confidence                           111111111  245678999999766544444444333211                  113566


Q ss_pred             EEecCChHH-H-HhcCC-CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          337 IITTRNADA-A-LIMGT-VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       337 lvTtR~~~v-~-~~~~~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      |.+|..... . ..... ...+.+.+++.++...++.+.+....    .....+....|++.+.|+|-.+..+..
T Consensus       158 i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~----~~~~~~~~~~l~~~~~G~~r~l~~~l~  228 (338)
T 3pfi_A          158 IGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN----KTCEEKAALEIAKRSRSTPRIALRLLK  228 (338)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT----CEECHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             EEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC----CCCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence            666665321 1 11122 36799999999999999987664321    112245667788899999965554443

>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=98.48  E-value=2.7e-06  Score=82.31  Aligned_cols=170  Identities=14%  Similarity=0.109  Sum_probs=103.1

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc--------------------cCcCeEEEE
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ--------------------CHFDLKAWT  260 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~wv  260 (475)
                      +...+.+...+.. .      .-...+.++|+.|+|||++|+.+.+...-.                    .|++ ..++
T Consensus         8 ~~~~~~l~~~i~~-~------~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~   79 (334)
T 1a5t_A            8 RPDFEKLVASYQA-G------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTL   79 (334)
T ss_dssp             HHHHHHHHHHHHT-T------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEE
T ss_pred             HHHHHHHHHHHHc-C------CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEE
Confidence            3445666666655 2      223568899999999999999987632111                    1122 1222


Q ss_pred             EecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcE
Q 046770          261 YVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSK  335 (475)
Q Consensus       261 ~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  335 (475)
                      ....                  .......+.+. .+.+.+     .+++-++|+|+++..+......++..+.....++.
T Consensus        80 ~~~~------------------~~~~~~i~~ir-~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~  140 (334)
T 1a5t_A           80 APEK------------------GKNTLGVDAVR-EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETW  140 (334)
T ss_dssp             CCCT------------------TCSSBCHHHHH-HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEE
T ss_pred             eccc------------------cCCCCCHHHHH-HHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeE
Confidence            2110                  00111222222 222222     35677999999987666666667766665455677


Q ss_pred             EEEecCChH--HHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          336 IIITTRNAD--AALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       336 ilvTtR~~~--v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      +|++|.+..  .....+....+++.+++.++..+++.+...      ..   .+....+++.++|.|..+..+
T Consensus       141 ~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~~------~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          141 FFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREVT------MS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHCC------CC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             EEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhcC------CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            777776643  122333456899999999999999987751      11   344567899999999876544

>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=98.43  E-value=6.7e-07  Score=91.96  Aligned_cols=196  Identities=12%  Similarity=0.105  Sum_probs=106.4

Q ss_pred             ccccccchhHHHHHHHHhcCCC---------CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC
Q 046770          195 AKVYGRSKEREEIVELLLKEDG---------TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD  265 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~---------~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~  265 (475)
                      .+++|++..++.|.+|+.....         +.......+.+.|+|++|+||||+|+.+++..    .+ ..+.++.+..
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            4699999999999999865110         00000134688999999999999999999843    12 2334444443


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHH--HhCCceEEEEEECCCCCCh---hhHhHhhCcCCCCCCCcEEEEec
Q 046770          266 FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK--QLFGKRFLLVLDDVWNENY---NDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       266 ~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~--~l~~kr~LlVlDdv~~~~~---~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                      ... .++...+.......    ...........  ...+++.+|+||+++....   ..+..+...+..  .+..||+++
T Consensus       114 ~~~-~~~~~~i~~~~~~~----~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli~  186 (516)
T 1sxj_A          114 RSK-TLLNAGVKNALDNM----SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILIC  186 (516)
T ss_dssp             CCH-HHHHHTGGGGTTBC----CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEEE
T ss_pred             chH-HHHHHHHHHHhccc----cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEEE
Confidence            332 22222222221110    00000000000  1235688999999965322   122333332222  233455555


Q ss_pred             CCh---HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch-HHHHHH
Q 046770          341 RNA---DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP-LAAKAL  406 (475)
Q Consensus       341 R~~---~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P-Lai~~~  406 (475)
                      ...   .+.........+.+.+++.++..+++...+........+    +....|++.++|.+ .++..+
T Consensus       187 ~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~----~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          187 NERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP----NVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             SCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT----THHHHHHHHTTTCHHHHHHHH
T ss_pred             cCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHcCCcHHHHHHHH
Confidence            432   222222334678999999999999888765432211122    34566889999954 455544

>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=98.43  E-value=8.4e-07  Score=85.55  Aligned_cols=184  Identities=15%  Similarity=0.102  Sum_probs=106.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+..++.|.+++.. .      ....++.+.|++|+|||++|+.+++..  .   ...+.++.+. .. ...+..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~-~------~~~~~~L~~G~~G~GKT~la~~la~~l--~---~~~~~i~~~~-~~-~~~i~~   91 (324)
T 3u61_B           26 DECILPAFDKETFKSITSK-G------KIPHIILHSPSPGTGKTTVAKALCHDV--N---ADMMFVNGSD-CK-IDFVRG   91 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHT-T------CCCSEEEECSSTTSSHHHHHHHHHHHT--T---EEEEEEETTT-CC-HHHHHT
T ss_pred             HHHhCcHHHHHHHHHHHHc-C------CCCeEEEeeCcCCCCHHHHHHHHHHHh--C---CCEEEEcccc-cC-HHHHHH
Confidence            4689999999999999875 2      223577888999999999999998742  1   1223344333 22 222233


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-hhhHhHhhCcCCCCCCCcEEEEecCChHHH--HhcCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-YNDWIDLSRPFQDGAPGSKIIITTRNADAA--LIMGT  351 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~--~~~~~  351 (475)
                      .+..+.....               ..+++-+|+|||++... ......+...+.....++.+|+||....-.  .....
T Consensus        92 ~~~~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR  156 (324)
T 3u61_B           92 PLTNFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR  156 (324)
T ss_dssp             HHHHHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH
T ss_pred             HHHHHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh
Confidence            2222211110               12467899999997665 444555554444333467888888764310  00112


Q ss_pred             CceeeCCCCCHHHHHHH-------HhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHh
Q 046770          352 VQAYPLKGLSNDDCMCL-------FTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLL  410 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~l-------f~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L  410 (475)
                      ...+.+.+++.++-.++       +...+..... ...+  .+....|++.++|.+-.+......+
T Consensus       157 ~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~-~~~~--~~~~~~l~~~~~gd~R~a~~~L~~~  219 (324)
T 3u61_B          157 CRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGI-AIAD--MKVVAALVKKNFPDFRKTIGELDSY  219 (324)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTC-CBSC--HHHHHHHHHHTCSCTTHHHHHHHHH
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCC-CCCc--HHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            25789999998874333       2222211111 1111  2566778899999877555444443

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.41  E-value=1.4e-06  Score=82.36  Aligned_cols=186  Identities=16%  Similarity=0.098  Sum_probs=99.7

Q ss_pred             cccccccchhHHHHHHHHhcCCCC-------CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGT-------SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~-------~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      -.+++|.+..++.|.+.+...-..       +.  ...+.+.|+|++|+|||+||+.+++..  ...   .+.+..+.-.
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~--~~~~~~ll~G~~GtGKT~la~~la~~~--~~~---~~~v~~~~~~   88 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGI--EPPKGILLYGPPGTGKTLLAKAVATET--NAT---FIRVVGSELV   88 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCC--CCCSEEEEESSSSSSHHHHHHHHHHHT--TCE---EEEEEGGGGC
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCC--CCCCeEEEECCCCCcHHHHHHHHHHHh--CCC---EEEEehHHHH
Confidence            346899999999998877431000       00  123468899999999999999998742  221   1222222211


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC-----------Ch---hhHhHhhCcCC--CC
Q 046770          267 DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE-----------NY---NDWIDLSRPFQ--DG  330 (475)
Q Consensus       267 ~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~-----------~~---~~~~~l~~~l~--~~  330 (475)
                      .              .. .......+...+......++.+|+|||+...           ..   .....+...+.  ..
T Consensus        89 ~--------------~~-~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           89 K--------------KF-IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             C--------------CS-TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             H--------------hc-cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            0              00 0000111222222333456789999999431           11   11222222211  12


Q ss_pred             CCCcEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC-chHHHH
Q 046770          331 APGSKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG-LPLAAK  404 (475)
Q Consensus       331 ~~gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G-~PLai~  404 (475)
                      ..+..||.||.......  ...   -...+.+.+.+.++..+++...+..... .....    ...|+..+.| .|-.+.
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~----~~~l~~~~~g~~~~~i~  228 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNL-AEDVN----LEEIAKMTEGCVGAELK  228 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHHCTTCCHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCC-CCcCC----HHHHHHHcCCCCHHHHH
Confidence            34667888887642211  111   1246889999999999999877643221 11222    3457777877 454444


Q ss_pred             HH
Q 046770          405 AL  406 (475)
Q Consensus       405 ~~  406 (475)
                      .+
T Consensus       229 ~l  230 (285)
T 3h4m_A          229 AI  230 (285)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.40  E-value=9.2e-07  Score=84.57  Aligned_cols=161  Identities=12%  Similarity=0.028  Sum_probs=87.7

Q ss_pred             cccccchhHHHHHHHHhcCC---------CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          196 KVYGRSKEREEIVELLLKED---------GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~---------~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      .++|.+..++.|.+++....         -...  .....+.|+|++|+|||+||+.+++............++.++.. 
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~--~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~-  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHE--TPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRD-  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSS--CCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGG-
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCC--CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHH-
Confidence            47888887777776553200         0000  23456889999999999999988764322221111122333210 


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC---------ChhhHhHhhCcCCCCCCCcEEE
Q 046770          267 DIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE---------NYNDWIDLSRPFQDGAPGSKII  337 (475)
Q Consensus       267 ~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~il  337 (475)
                                 .+.... .......+...+...   +..+|+||+++..         .......+...+.....+..+|
T Consensus       109 -----------~l~~~~-~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i  173 (309)
T 3syl_A          109 -----------DLVGQY-IGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVI  173 (309)
T ss_dssp             -----------GTCCSS-TTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEE
T ss_pred             -----------Hhhhhc-ccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEE
Confidence                       000000 011111222222222   3459999999632         3344455555554444567888


Q ss_pred             EecCChHHHHhc--C------CCceeeCCCCCHHHHHHHHhhccc
Q 046770          338 ITTRNADAALIM--G------TVQAYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       338 vTtR~~~v~~~~--~------~~~~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      +||.........  .      ....+.+.+++.++...++...+.
T Consensus       174 ~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          174 LAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             EEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             EeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            888654321110  1      126789999999999999987654

>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=98.36  E-value=2.3e-06  Score=83.08  Aligned_cols=186  Identities=11%  Similarity=0.096  Sum_probs=106.7

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|.+..++.|..++..        ++.+.+.++|++|+||||+|+.+++... ...+. ....++.+....... ++
T Consensus        25 ~~~~g~~~~~~~L~~~i~~--------g~~~~~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~~~-ir   94 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDE--------GKLPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDV-VR   94 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHT--------TCCCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHH-HH
T ss_pred             HHhcCcHHHHHHHHHHHhc--------CCCceEEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccHHH-HH
Confidence            3578888888888888866        3333488999999999999999987421 11111 112222222222211 11


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-H-HHhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-A-ALIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v-~~~~~~  351 (475)
                      ..+..+.....              .+.+.+-++|+|+++.........++..+......+.+|++|.... + ......
T Consensus        95 ~~i~~~~~~~~--------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR  160 (340)
T 1sxj_C           95 NQIKDFASTRQ--------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  160 (340)
T ss_dssp             THHHHHHHBCC--------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             HHHHHHHhhcc--------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhh
Confidence            22222111000              0123467899999976655555555555443334567777776532 1 112223


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      ...+.+.+++.++..+.+.+.+-...- ..   ..+..+.|++.++|.+--+..+..
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~-~i---~~~~~~~i~~~s~G~~r~~~~~l~  213 (340)
T 1sxj_C          161 CTRFRFQPLPQEAIERRIANVLVHEKL-KL---SPNAEKALIELSNGDMRRVLNVLQ  213 (340)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTC-CB---CHHHHHHHHHHHTTCHHHHHHHTT
T ss_pred             ceeEeccCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHHHH
Confidence            457889999999998888766532211 11   134567789999998885543333

>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=98.35  E-value=1e-05  Score=78.92  Aligned_cols=187  Identities=14%  Similarity=0.051  Sum_probs=99.8

Q ss_pred             ccccccchhHHHHHHHHhcC---C---CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKE---D---GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~---~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..++.|.+.+...   .   ....  ...+-|.|+|++|+|||+||+.+++..  ...|   +.++.+     
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~--~~~~~iLL~GppGtGKT~la~ala~~~--~~~~---~~v~~~-----  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAVATEA--NSTF---FSVSSS-----  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSC--CCCCCEEEECSTTSCHHHHHHHHHHHH--TCEE---EEEEHH-----
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCC--CCCceEEEECCCCCcHHHHHHHHHHHh--CCCE---EEeeHH-----
Confidence            46899999999888876310   0   0000  223457899999999999999999843  2222   222221     


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChh-----------hHhHhhCcC---CCCCCCc
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYN-----------DWIDLSRPF---QDGAPGS  334 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~-----------~~~~l~~~l---~~~~~gs  334 (475)
                       ++.        ... .......+...+...-..++.+|+||++......           ....++..+   .....+.
T Consensus       119 -~l~--------~~~-~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  188 (355)
T 2qp9_X          119 -DLV--------SKW-MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  188 (355)
T ss_dssp             -HHH--------SCC----CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCE
T ss_pred             -HHh--------hhh-cchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCe
Confidence             111        110 1111122222222223457889999999642210           012222222   1223456


Q ss_pred             EEEEecCChHH---HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc-hHHHHHHH
Q 046770          335 KIIITTRNADA---ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL-PLAAKALG  407 (475)
Q Consensus       335 ~ilvTtR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~-PLai~~~~  407 (475)
                      .||.||.....   +..-.-...+.+...+.++-.+++..++..... ...   ......|++.+.|. +-.|..+.
T Consensus       189 ~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~~~---~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          189 LVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPS-VLT---KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             EEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCB-CCC---HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCC-CCC---HHHHHHHHHHcCCCCHHHHHHHH
Confidence            67777765421   111123356788889999999999877643221 111   33456788999984 44454443

>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=98.34  E-value=8.9e-06  Score=76.21  Aligned_cols=195  Identities=11%  Similarity=0.041  Sum_probs=100.1

Q ss_pred             cccccchhHHHHHH-------HHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          196 KVYGRSKEREEIVE-------LLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       196 ~~vGR~~e~~~l~~-------~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .++|....++++..       .+.....     .....+.|+|++|+|||+||+.+++.  ...  .. +.++.+...  
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~-----~~~~~vLl~G~~GtGKT~la~~ia~~--~~~--~~-~~i~~~~~~--  101 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDR-----TPLVSVLLEGPPHSGKTALAAKIAEE--SNF--PF-IKICSPDKM--  101 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSS-----CSEEEEEEECSTTSSHHHHHHHHHHH--HTC--SE-EEEECGGGC--
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCC-----CCCeEEEEECCCCCcHHHHHHHHHHH--hCC--CE-EEEeCHHHh--
Confidence            46676666555555       3322011     44578899999999999999999884  221  21 222222110  


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC----------ChhhHhHhhCcCC---CCCCCcE
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE----------NYNDWIDLSRPFQ---DGAPGSK  335 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~----------~~~~~~~l~~~l~---~~~~gs~  335 (475)
                                 ... ........+...+......+..+|+|||+...          .......+...+.   .......
T Consensus       102 -----------~g~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~  169 (272)
T 1d2n_A          102 -----------IGF-SETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLL  169 (272)
T ss_dssp             -----------TTC-CHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEE
T ss_pred             -----------cCC-chHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEE
Confidence                       000 00000011222333344567889999998431          1111222322222   1233455


Q ss_pred             EEEecCChHHHHh---cCC-CceeeCCCCCH-HHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC------chHHHH
Q 046770          336 IIITTRNADAALI---MGT-VQAYPLKGLSN-DDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG------LPLAAK  404 (475)
Q Consensus       336 ilvTtR~~~v~~~---~~~-~~~~~l~~L~~-~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G------~PLai~  404 (475)
                      ||.||........   .+. ...+.+.+++. ++...++.+..      ...   .+....|++.+.|      ..-++.
T Consensus       170 ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~------~~~---~~~~~~l~~~~~g~~~~g~ir~l~~  240 (272)
T 1d2n_A          170 IIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG------NFK---DKERTTIAQQVKGKKVWIGIKKLLM  240 (272)
T ss_dssp             EEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT------CSC---HHHHHHHHHHHTTSEEEECHHHHHH
T ss_pred             EEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC------CCC---HHHHHHHHHHhcCCCccccHHHHHH
Confidence            7778877654332   122 35688999988 77777766532      111   3446678888877      444444


Q ss_pred             HHHHHhcCCCChhHHHHHHh
Q 046770          405 ALGCLLHGKYDPSDWESVLN  424 (475)
Q Consensus       405 ~~~~~L~~~~~~~~w~~~l~  424 (475)
                      ++-... .......+..+++
T Consensus       241 ~l~~a~-~~~~~~~~~~~~~  259 (272)
T 1d2n_A          241 LIEMSL-QMDPEYRVRKFLA  259 (272)
T ss_dssp             HHHHHT-TSCGGGHHHHHHH
T ss_pred             HHHHHh-hhchHHHHHHHHH
Confidence            333332 2223445555554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.31  E-value=6.6e-07  Score=78.36  Aligned_cols=45  Identities=22%  Similarity=0.337  Sum_probs=37.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++||+.+++.+.+++..        ...+.+.|+|++|+|||+||+.+++.
T Consensus        22 ~~~~g~~~~~~~l~~~l~~--------~~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSR--------RTKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTS--------SSSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhC--------CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            3689999999999999866        22346789999999999999999874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.29  E-value=2.6e-05  Score=74.98  Aligned_cols=192  Identities=13%  Similarity=0.035  Sum_probs=101.5

Q ss_pred             ccccccchhHHHHHHHHhcC---CCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKE---DGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++.|.+.+...   ..- .......+-+.|+|++|+|||+||+.+++... ..   ..+.++.+.-.+   
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~-~~---~~~~i~~~~l~~---   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN-NS---TFFSISSSDLVS---   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT-SC---EEEEEECCSSCC---
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC-CC---cEEEEEhHHHHh---
Confidence            46889888888887765310   000 00002346788999999999999999998421 11   112233332111   


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-------hhh----HhHhhCcC---CCCCCCcEE
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-------YND----WIDLSRPF---QDGAPGSKI  336 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-------~~~----~~~l~~~l---~~~~~gs~i  336 (475)
                                 . ........+...+...-..++.+|+||++....       ...    ...++..+   .....+..|
T Consensus        85 -----------~-~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~v  152 (322)
T 1xwi_A           85 -----------K-WLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILV  152 (322)
T ss_dssp             -----------S-SCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEE
T ss_pred             -----------h-hhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEE
Confidence                       0 011122222222222234567899999995320       001    11222221   112345566


Q ss_pred             EEecCChHH---HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc-hHHHHHHHHH
Q 046770          337 IITTRNADA---ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL-PLAAKALGCL  409 (475)
Q Consensus       337 lvTtR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~-PLai~~~~~~  409 (475)
                      |.||..+..   +..-.-...+.+...+.++-.+++..+...... ..   .......|++.+.|. +-.|..+...
T Consensus       153 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~l---~~~~l~~la~~t~G~sgadl~~l~~~  225 (322)
T 1xwi_A          153 LGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQN-SL---TEADFRELGRKTDGYSGADISIIVRD  225 (322)
T ss_dssp             EEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCB-CC---CHHHHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCC-CC---CHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            667765321   111123356788888999999999876533221 11   134556789999987 4445555443

>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=98.28  E-value=2e-05  Score=73.18  Aligned_cols=191  Identities=13%  Similarity=0.066  Sum_probs=98.2

Q ss_pred             ccccccchhHHHHHHHH---hcCCCCC-CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELL---LKEDGTS-HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L---~~~~~~~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++.|.+++   .....-. -.....+.+.|+|++|+|||+||+.+++..  ...   .+.++.+.-.+.  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~--~~~---~~~~~~~~~~~~--   78 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA--QVP---FLAMAGAEFVEV--   78 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH--TCC---EEEEETTTTSSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh--CCC---EEEechHHHHhh--
Confidence            35888887777665544   2211000 000223457899999999999999998832  222   233333332110  


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC------------h---hhHhHhhCcCCC--CCCC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN------------Y---NDWIDLSRPFQD--GAPG  333 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~------------~---~~~~~l~~~l~~--~~~g  333 (475)
                                   ........+...+.......+.+|+|||++...            .   .....++..+..  ...+
T Consensus        79 -------------~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~  145 (262)
T 2qz4_A           79 -------------IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDH  145 (262)
T ss_dssp             -------------STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCC
T ss_pred             -------------ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCC
Confidence                         000011122222333333457899999996531            0   112223222211  2235


Q ss_pred             cEEEEecCChHHH--HhcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHHH
Q 046770          334 SKIIITTRNADAA--LIMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKALG  407 (475)
Q Consensus       334 s~ilvTtR~~~v~--~~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~~  407 (475)
                      ..||.||......  ....   -...+.+...+.++-.+++...+.....   ..........+++.+.|.+- .+..+.
T Consensus       146 ~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~---~~~~~~~~~~l~~~~~g~~~~~l~~l~  222 (262)
T 2qz4_A          146 VIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL---TQSSTFYSQRLAELTPGFSGADIANIC  222 (262)
T ss_dssp             EEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC---CBTHHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             EEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC---CcchhhHHHHHHHHCCCCCHHHHHHHH
Confidence            6777777664321  1111   2256788999999999998876533221   11222234678888888754 555444


Q ss_pred             H
Q 046770          408 C  408 (475)
Q Consensus       408 ~  408 (475)
                      .
T Consensus       223 ~  223 (262)
T 2qz4_A          223 N  223 (262)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.25  E-value=1.4e-06  Score=73.52  Aligned_cols=115  Identities=16%  Similarity=0.034  Sum_probs=68.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|+...+.++.+.+.....     .. .-|.|+|++|+|||++|+.+++..... ....+  ++++...+.       
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~-----~~-~~vll~G~~GtGKt~lA~~i~~~~~~~-~~~~v--~~~~~~~~~-------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSE-----TD-IAVWLYGAPGTGRMTGARYLHQFGRNA-QGEFV--YRELTPDNA-------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTT-----CC-SCEEEESSTTSSHHHHHHHHHHSSTTT-TSCCE--EEECCTTTS-------
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----CC-CCEEEECCCCCCHHHHHHHHHHhCCcc-CCCEE--EECCCCCcc-------
Confidence            578999999999888754221     11 246899999999999999998753211 11222  555443221       


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                                 ....   ..+...   ..-.|+||++..........+...+.......++|.||...
T Consensus        66 -----------~~~~---~~~~~a---~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           66 -----------PQLN---DFIALA---QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             -----------SCHH---HHHHHH---TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             -----------hhhh---cHHHHc---CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence                       1111   111111   22478999998776655566665554444466788887753

>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=98.24  E-value=2.1e-05  Score=75.57  Aligned_cols=186  Identities=14%  Similarity=0.041  Sum_probs=101.7

Q ss_pred             ccccccchhHHHHHHHHhcC---C---CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKE---D---GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~---~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..++.|.+++.-.   .   ....  ...+-+.|+|++|+|||+||+.+++.  ....|   +.++.+     
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~--~~~~~vLl~GppGtGKT~la~aia~~--~~~~~---~~v~~~-----   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAVATE--ANSTF---FSVSSS-----   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTC--CCCCEEEEECSSSSCHHHHHHHHHHH--HTCEE---EEEEHH-----
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCC--CCCCeEEEECCCCCcHHHHHHHHHHH--HCCCE---EEEchH-----
Confidence            46899999999988877210   0   0111  23457899999999999999999884  22222   222221     


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh-----------hhHhHhhCcC---CCCCCCc
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY-----------NDWIDLSRPF---QDGAPGS  334 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l---~~~~~gs  334 (475)
                       ++    .....     ......+...+...-..++.+|+||++.....           .....++..+   .....+.
T Consensus        86 -~l----~~~~~-----g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  155 (322)
T 3eie_A           86 -DL----VSKWM-----GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  155 (322)
T ss_dssp             -HH----HTTTG-----GGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCE
T ss_pred             -HH----hhccc-----chHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCce
Confidence             11    11000     00111112222222235678999999953211           0122232222   1233456


Q ss_pred             EEEEecCChHH-----HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc-hHHHHHHHH
Q 046770          335 KIIITTRNADA-----ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL-PLAAKALGC  408 (475)
Q Consensus       335 ~ilvTtR~~~v-----~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~-PLai~~~~~  408 (475)
                      .||.||.....     ..  .-...+.+...+.++-.+++..++..... ...   ......|++.+.|. +-.|..+..
T Consensus       156 ~vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~---~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          156 LVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPC-VLT---KEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             EEEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCC-CCC---HHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             EEEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCC-CCC---HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            67777776322     12  12356778889999999999887643221 111   23456788899884 545554443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.22  E-value=5.6e-06  Score=83.94  Aligned_cols=149  Identities=17%  Similarity=0.120  Sum_probs=80.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc---ccCcCeEEEEEecCCCCHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV---QCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      ..++||+.+++.+...|.. .       ...-+.|+|++|+|||+||+.+++....   .......-++.+.-.      
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 DPVIGRSKEIQRVIEVLSR-R-------TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG------  245 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHC-S-------SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------
T ss_pred             CCccCcHHHHHHHHHHHhc-c-------CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC------
Confidence            3599999999999999876 2       2234679999999999999999873210   000111111111111      


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH----
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL----  347 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~----  347 (475)
                           ....+.  ......   ..+...-..++.+|++|.    .......+...+..  ...++|.+|.......    
T Consensus       246 -----~~~~g~--~e~~~~---~~~~~~~~~~~~iLfiD~----~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          246 -----TKYRGE--FEDRLK---KVMDEIRQAGNIILFIDA----AIDASNILKPSLAR--GELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             --------------CTTHH---HHHHHHHTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHTT
T ss_pred             -----ccccch--HHHHHH---HHHHHHHhcCCeEEEEeC----chhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhc
Confidence                 000000  011222   223333345678999991    11222334444432  2456666666544211    


Q ss_pred             ---hcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          348 ---IMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       348 ---~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                         .......+.+.+.+.++...++....
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               11233579999999999999998654

>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=98.21  E-value=1.5e-05  Score=76.71  Aligned_cols=155  Identities=16%  Similarity=0.148  Sum_probs=86.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      ...+.|+|++|+||||||+.+++..... .+ ..++++.      ..+...+...+...     ....    +...+ .+
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~-~~-~~~~i~~------~~~~~~~~~~~~~~-----~~~~----~~~~~-~~   98 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKR-GY-RVIYSSA------DDFAQAMVEHLKKG-----TINE----FRNMY-KS   98 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHT-TC-CEEEEEH------HHHHHHHHHHHHHT-----CHHH----HHHHH-HT
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHC-CC-EEEEEEH------HHHHHHHHHHHHcC-----cHHH----HHHHh-cC
Confidence            3568899999999999999998843211 11 2344443      23334444443221     1112    12222 23


Q ss_pred             eEEEEEECCCCCCh--hhHhHhhCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhh
Q 046770          304 RFLLVLDDVWNENY--NDWIDLSRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQ  371 (475)
Q Consensus       304 r~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~  371 (475)
                      ..+|+|||+.....  .....+...+.. ...+..||+||...         .+...+.....+.+.+ +.++...++..
T Consensus        99 ~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~  177 (324)
T 1l8q_A           99 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKE  177 (324)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHH
T ss_pred             CCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHH
Confidence            56999999965432  122233333221 12356788877642         1222222335689999 99999999988


Q ss_pred             cccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          372 HSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       372 ~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      .+..... ..+   .+....|++.+ |..-.
T Consensus       178 ~~~~~~~-~l~---~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          178 KLKEFNL-ELR---KEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHTTC-CCC---HHHHHHHHHHC-SSHHH
T ss_pred             HHHhcCC-CCC---HHHHHHHHHhC-CCHHH
Confidence            7643221 112   35566788888 77653

>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=98.19  E-value=2.4e-05  Score=76.43  Aligned_cols=191  Identities=9%  Similarity=-0.013  Sum_probs=101.2

Q ss_pred             ccccccchhHHHHHHHHhcC---CCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKE---DGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++.|.+.+...   ... .......+.+.|+|++|+|||+||+.+++..  ...   .+.++++.-...  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~--~~~---~~~i~~~~l~~~--  156 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS--GAT---FFSISASSLTSK--  156 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT--TCE---EEEEEGGGGCCS--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc--CCe---EEEEehHHhhcc--
Confidence            46899999999888876420   000 0000234578899999999999999998732  211   233444322110  


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-----------hhhHhHhhCcCC----CCCCCcE
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-----------YNDWIDLSRPFQ----DGAPGSK  335 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~----~~~~gs~  335 (475)
                                  . .......+...+...-..++.+|+||++....           ......++..+.    ....+..
T Consensus       157 ------------~-~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~  223 (357)
T 3d8b_A          157 ------------W-VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRIL  223 (357)
T ss_dssp             ------------S-TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEE
T ss_pred             ------------c-cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEE
Confidence                        0 00000111111222223567899999983210           011222322222    1123456


Q ss_pred             EEEecCChHH---HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC-chHHHHHHHHH
Q 046770          336 IIITTRNADA---ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG-LPLAAKALGCL  409 (475)
Q Consensus       336 ilvTtR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G-~PLai~~~~~~  409 (475)
                      ||.||.....   +..-.-...+.+...+.++..+++...+..... ..   ..+....|++.+.| .+-.|..+...
T Consensus       224 vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~-~l---~~~~l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          224 VVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQC-CL---SEEEIEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             EEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCB-CC---CHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             EEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCC-Cc---cHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            6667765321   111122246788888999988888776533211 11   13456778899998 55566655443

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.17  E-value=4.5e-05  Score=76.67  Aligned_cols=191  Identities=13%  Similarity=0.064  Sum_probs=101.6

Q ss_pred             ccccccchhHHHHHHHHhcC---CCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKE---DGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++.|.+.+...   ..- .......+.+.|+|++|+|||+||+.+++..      ....++.++...    
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~------~~~~~~~v~~~~----  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA------NNSTFFSISSSD----  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC------CSSEEEEECCC-----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc------CCCCEEEEeHHH----
Confidence            46899999888888876310   000 0000234678899999999999999999842      111233333221    


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh-----------hhHhHhhCcCCC---CCCCcEE
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY-----------NDWIDLSRPFQD---GAPGSKI  336 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~~---~~~gs~i  336 (475)
                      +.    ....+.  .......+.   ...-..++.+|+||++.....           .....++..+..   ...+..|
T Consensus       204 l~----~~~~g~--~~~~~~~~f---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~v  274 (444)
T 2zan_A          204 LV----SKWLGE--SEKLVKNLF---QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILV  274 (444)
T ss_dssp             --------------CCCTHHHHH---HHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEE
T ss_pred             HH----hhhcch--HHHHHHHHH---HHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEE
Confidence            11    111111  112222222   222235678999999964310           112334444432   2345677


Q ss_pred             EEecCChHHH--Hhc-CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc-hHHHHHHHH
Q 046770          337 IITTRNADAA--LIM-GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL-PLAAKALGC  408 (475)
Q Consensus       337 lvTtR~~~v~--~~~-~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~-PLai~~~~~  408 (475)
                      |.||..+...  ... .....+.+...+.++...+|..++..... ..   .......|++.+.|. +-.|..+..
T Consensus       275 I~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~l---~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          275 LGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQN-SL---TEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             EEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCE-EC---CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCC-CC---CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            7777664221  111 22246778888888888888877633211 11   124456788899984 444544443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.15  E-value=5.2e-05  Score=71.85  Aligned_cols=185  Identities=11%  Similarity=0.024  Sum_probs=98.7

Q ss_pred             ccccccchhHHHHHHHHhcCC------CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKED------GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~------~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..++.|.+++....      ....  ...+.+.|+|++|+||||||+.+++..  ...   .+.++++.-.. 
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~--~~~~~vll~Gp~GtGKT~la~~la~~~--~~~---~~~i~~~~l~~-   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLR--APAKGLLLFGPPGNGKTLLARAVATEC--SAT---FLNISAASLTS-   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG--CCCSEEEEESSSSSCHHHHHHHHHHHT--TCE---EEEEESTTTSS-
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCC--CCCCeEEEECcCCCCHHHHHHHHHHHh--CCC---eEEeeHHHHhh-
Confidence            468999999999888763200      0000  123578899999999999999998732  211   22333332111 


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHH-HHHHHHhCCceEEEEEECCCCCC-----------hhhHhHhh---CcCCCC--C
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQ-WKLKKQLFGKRFLLVLDDVWNEN-----------YNDWIDLS---RPFQDG--A  331 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~-~~l~~~l~~kr~LlVlDdv~~~~-----------~~~~~~l~---~~l~~~--~  331 (475)
                                   .  ......... ..+......++.+|+||++....           ......++   ..+...  .
T Consensus        93 -------------~--~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           93 -------------K--YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             -------------S--SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             -------------c--ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence                         0  001112222 22222223567899999994321           01111122   112211  2


Q ss_pred             CCcEEEEecCChH-----HHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHH
Q 046770          332 PGSKIIITTRNAD-----AALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKA  405 (475)
Q Consensus       332 ~gs~ilvTtR~~~-----v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~  405 (475)
                      .+..||.||....     +...  -...+.+...+.++...++...+..... ..   .......|++.+.|.+- .+..
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~R--~~~~i~~~~p~~~~r~~il~~~~~~~~~-~~---~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALRR--FTKRVYVSLPDEQTRELLLNRLLQKQGS-PL---DTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHGGGSC-CS---CHHHHHHHHHHTTTCCHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHhh--CCeEEEeCCcCHHHHHHHHHHHHHhcCC-CC---CHHHHHHHHHHcCCCCHHHHHH
Confidence            3456777777642     2222  2255777777888888887765432211 11   13456678899999876 5544


Q ss_pred             HHH
Q 046770          406 LGC  408 (475)
Q Consensus       406 ~~~  408 (475)
                      +..
T Consensus       232 l~~  234 (297)
T 3b9p_A          232 LAK  234 (297)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.13  E-value=1.8e-06  Score=94.22  Aligned_cols=155  Identities=12%  Similarity=0.083  Sum_probs=80.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc---ccCc-C-eEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV---QCHF-D-LKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---~~~F-~-~~~wv~v~~~~~~~  269 (475)
                      ..++||+.++..+++.|.. .       ..+.+.|+|++|+|||+||+.+++....   .... . ..++++++.-..  
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 DPVIGRDEEIRRVIQILLR-R-------TKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA--  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHC-S-------SCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------
T ss_pred             cccCCcHHHHHHHHHHHhc-C-------CCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc--
Confidence            3589999999999999876 2       2234689999999999999999874211   0011 1 223333222100  


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhC-CceEEEEEECCCCCChh-----hHh---HhhCcCCCCCCCcEEEEec
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLF-GKRFLLVLDDVWNENYN-----DWI---DLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~-~kr~LlVlDdv~~~~~~-----~~~---~l~~~l~~~~~gs~ilvTt  340 (475)
                                 ...........+...+...-. +++.+|+||+++.....     .++   .+...+.  ..+..+|.+|
T Consensus       240 -----------g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at  306 (854)
T 1qvr_A          240 -----------GAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGAT  306 (854)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEE
T ss_pred             -----------cCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEec
Confidence                       000001111122222333223 46789999999653200     011   1222221  1234566666


Q ss_pred             CChHHHH------hcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          341 RNADAAL------IMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       341 R~~~v~~------~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      .......      .......+.+.+++.++..+++...
T Consensus       307 ~~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          307 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             CchHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            5443311      1123356889999999999988743

>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=98.13  E-value=4.1e-06  Score=73.22  Aligned_cols=121  Identities=19%  Similarity=0.138  Sum_probs=63.6

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh
Q 046770          200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV  279 (475)
Q Consensus       200 R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l  279 (475)
                      .+..++.+.+++.+-..     ..-..+.|+|++|+|||||++.+++.......+. +.++      +..+++..+....
T Consensus        19 ~~~~~~~~~~~~~~~~~-----~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~------~~~~~~~~~~~~~   86 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNP-----EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFF------DTKDLIFRLKHLM   86 (180)
T ss_dssp             HHHHHHHHHHHHHSCCG-----GGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEE------EHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccc-----cCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEE------EHHHHHHHHHHHh
Confidence            34445555555543111     2236789999999999999999987432122222 2233      3444555544444


Q ss_pred             hcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHh--HhhCcCCC-CCCCcEEEEecCC
Q 046770          280 AMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWI--DLSRPFQD-GAPGSKIIITTRN  342 (475)
Q Consensus       280 ~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~ilvTtR~  342 (475)
                      ......     .....+.     +.-+|||||++......|.  .+...+.. ...|..+|+||..
T Consensus        87 ~~~~~~-----~~~~~~~-----~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           87 DEGKDT-----KFLKTVL-----NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HHTCCS-----HHHHHHH-----TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             cCchHH-----HHHHHhc-----CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            322111     2222221     4569999999743323333  22222221 1246788888875

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.07  E-value=8e-05  Score=73.54  Aligned_cols=190  Identities=11%  Similarity=0.046  Sum_probs=99.2

Q ss_pred             ccccccchhHHHHHHHHhcCC---C-CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVELLLKED---G-TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~---~-~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++.|.+++....   . ........+-+.|+|++|+|||+||+.+++.  ....   .+.++++.-...  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~--~~~~---~~~v~~~~l~~~--  187 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAE--SNAT---FFNISAASLTSK--  187 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHH--TTCE---EEEECSCCC-----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHh--hcCc---EEEeeHHHhhcc--
Confidence            468999999999988873200   0 0000012357899999999999999999873  2211   223333221110  


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC-----------ChhhHhHhhCcCC---C-CCCCcE
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE-----------NYNDWIDLSRPFQ---D-GAPGSK  335 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~-----------~~~~~~~l~~~l~---~-~~~gs~  335 (475)
                      .             .......+...+...-...+.+|+||+++..           .......++..+.   . ......
T Consensus       188 ~-------------~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  254 (389)
T 3vfd_A          188 Y-------------VGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVL  254 (389)
T ss_dssp             -----------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEE
T ss_pred             c-------------cchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEE
Confidence            0             0011111222222222345679999999432           0011112222211   1 123456


Q ss_pred             EEEecCChHHH--HhcCCC-ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHHHH
Q 046770          336 IIITTRNADAA--LIMGTV-QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKALGC  408 (475)
Q Consensus       336 ilvTtR~~~v~--~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~~~  408 (475)
                      ||.||......  ...... ..+.+...+.++..+++...+..... .   ...+....|++.+.|..- +|..+..
T Consensus       255 vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~-~---l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          255 VMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS-P---LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             EEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC-C---SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC-C---CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            66677653211  111222 46888899999999998876643221 1   123456778999988654 5555543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.06  E-value=2.4e-06  Score=71.84  Aligned_cols=110  Identities=15%  Similarity=0.125  Sum_probs=62.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|++..++++.+.+.....     .. .-|.|+|++|+|||++|+.+++...        -++.+.-........   
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~-----~~-~~vll~G~~GtGKt~lA~~i~~~~~--------~~~~~~~~~~~~~~~---   67 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK-----RT-SPVFLTGEAGSPFETVARYFHKNGT--------PWVSPARVEYLIDMP---   67 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT-----CS-SCEEEEEETTCCHHHHHGGGCCTTS--------CEECCSSTTHHHHCH---
T ss_pred             CceeCCHHHHHHHHHHHHHhC-----CC-CcEEEECCCCccHHHHHHHHHHhCC--------CeEEechhhCChHhh---
Confidence            578999988888887754111     11 2377999999999999999987432        222222111111111   


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC-CCCcEEEEecCC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG-APGSKIIITTRN  342 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~ilvTtR~  342 (475)
                                        ..+.+..  +.-.|+||++..........+...+... ..+.++|.||..
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  2347899999877655555555444322 345678888764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.06  E-value=9.9e-06  Score=77.35  Aligned_cols=137  Identities=13%  Similarity=0.150  Sum_probs=71.9

Q ss_pred             cccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|.+..++.+...+...... .........+.|+|++|+|||++|+.+++..  ...-...+.+.++...... ... 
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~--~~~~~~~~~~~~~~~~~~~-~~~-   93 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL--FDTEEAMIRIDMTEYMEKH-AVS-   93 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH--HSCGGGEEEEEGGGCCSTT-HHH-
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH--cCCCcceEEeecccccccc-cHH-
Confidence            4778888888887777541100 0000223578999999999999999998732  1111223445554432211 111 


Q ss_pred             HHHHhhcCCC---CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEec
Q 046770          275 ILRSVAMGIV---DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITT  340 (475)
Q Consensus       275 il~~l~~~~~---~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTt  340 (475)
                         .+.+...   .......+...+..   ...-+|+||++..........++..+....           ..+.+|.||
T Consensus        94 ---~l~g~~~~~~~~~~~~~~~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~tt  167 (311)
T 4fcw_A           94 ---RLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTS  167 (311)
T ss_dssp             ---HHHCCCTTSTTTTTCCHHHHHHHH---CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEE
T ss_pred             ---HhcCCCCccccccccchHHHHHHh---CCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEec
Confidence               1111111   11111222222222   234699999997766555555554442111           234477777


Q ss_pred             CC
Q 046770          341 RN  342 (475)
Q Consensus       341 R~  342 (475)
                      ..
T Consensus       168 n~  169 (311)
T 4fcw_A          168 NL  169 (311)
T ss_dssp             ST
T ss_pred             cc
Confidence            76

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.01  E-value=8e-05  Score=70.78  Aligned_cols=181  Identities=15%  Similarity=0.061  Sum_probs=97.3

Q ss_pred             ccccccchhHHHHHHHHhcC---C----CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKE---D----GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~----~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      .+++|.+..++.|.+++...   .    .-+-  ...+.+.|+|++|+|||+||+.+++..  ...     ++.++    
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~--~~~~~vLL~Gp~GtGKT~la~ala~~~--~~~-----~i~v~----   81 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGM--TPSKGVLFYGPPGCGKTLLAKAIANEC--QAN-----FISIK----   81 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCC--CCCSEEEEECSSSSSHHHHHHHHHHHT--TCE-----EEEEC----
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCC--CCCceEEEECCCCcCHHHHHHHHHHHh--CCC-----EEEEE----
Confidence            46889988888887776421   0    0000  223578999999999999999999842  221     22222    


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC--------------hhhHhHhhCcCC--CCC
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN--------------YNDWIDLSRPFQ--DGA  331 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~--------------~~~~~~l~~~l~--~~~  331 (475)
                      ..++.    ....+..     ...+...+.......+.+|+||++....              ......++..+.  ...
T Consensus        82 ~~~l~----~~~~g~~-----~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  152 (301)
T 3cf0_A           82 GPELL----TMWFGES-----EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK  152 (301)
T ss_dssp             HHHHH----HHHHTTC-----TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTT
T ss_pred             hHHHH----hhhcCch-----HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCC
Confidence            12222    2222211     1222233333334567899999995210              001222332221  122


Q ss_pred             CCcEEEEecCChHHH-H-hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          332 PGSKIIITTRNADAA-L-IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~-~-~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      .+..||.||...... . ...   -...+.+...+.++-.+++......... .....+.    .+++.+.|.|-+
T Consensus       153 ~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~-~~~~~~~----~la~~~~g~sg~  223 (301)
T 3cf0_A          153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPV-AKDVDLE----FLAKMTNGFSGA  223 (301)
T ss_dssp             SSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CSSCCHH----HHHHTCSSCCHH
T ss_pred             CCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCC-CccchHH----HHHHHcCCCCHH
Confidence            456778888765322 1 112   2256889999999888888776533221 1122233    366677776543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.00  E-value=2.2e-05  Score=84.59  Aligned_cols=149  Identities=17%  Similarity=0.129  Sum_probs=80.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc---cccCcCeEEEEEecCCCCHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR---VQCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---~~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      ..++||+.+++.+...|.. .       ...-+.++|++|+|||++|+.+++...   +.......-++.++-       
T Consensus       180 d~iiG~~~~i~~l~~~l~~-~-------~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~-------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSR-R-------TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM-------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHC-S-------SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------
T ss_pred             CCccCchHHHHHHHHHHhC-C-------CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc-------
Confidence            3599999999999999976 2       223478999999999999999987421   000111111111111       


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH----
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL----  347 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~----  347 (475)
                              +.. ........+...+......++.+|+||.-    ......+...+.  ....++|.||.......    
T Consensus       245 --------g~~-~~G~~e~~l~~~~~~~~~~~~~iLfiD~~----~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~  309 (758)
T 3pxi_A          245 --------GTK-YRGEFEDRLKKVMDEIRQAGNIILFIDAA----IDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (758)
T ss_dssp             -----------------CTTHHHHHHHHHTCCCCEEEECC------------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             --------ccc-ccchHHHHHHHHHHHHHhcCCEEEEEcCc----hhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhc
Confidence                    000 00011112223333344467889999921    112223333333  23456776666544211    


Q ss_pred             ---hcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          348 ---IMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       348 ---~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                         .......+.+.+.+.++..+++....
T Consensus       310 d~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             cHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence               11123568999999999999998654

>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=97.99  E-value=2.1e-05  Score=74.86  Aligned_cols=146  Identities=9%  Similarity=-0.023  Sum_probs=91.1

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc-cc-cCcCeEEEEEecC-CCCHHHHHHHHHH
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR-VQ-CHFDLKAWTYVSQ-DFDIIRVTKSILR  277 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~-~~F~~~~wv~v~~-~~~~~~~l~~il~  277 (475)
                      ++-++.|...+..        ++.+...++|++|+||||+|..+.+... .. .+.+. .++..+. ...+. .++.+++
T Consensus         3 ~~~~~~L~~~i~~--------~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id-~ir~li~   72 (305)
T 2gno_A            3 KDQLETLKRIIEK--------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGID-DIRTIKD   72 (305)
T ss_dssp             -CHHHHHHHHHHT--------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHH-HHHHHHH
T ss_pred             HHHHHHHHHHHHC--------CCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHH-HHHHHHH
Confidence            4455667777655        3357899999999999999999976311 11 23332 3444332 22222 2233444


Q ss_pred             HhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HHHHhcCCCceee
Q 046770          278 SVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DAALIMGTVQAYP  356 (475)
Q Consensus       278 ~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v~~~~~~~~~~~  356 (475)
                      .+....                ..+++-++|+|+++..+......++..+......+.+|++|.++ .+....... .++
T Consensus        73 ~~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           73 FLNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HHTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             HHhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            433221                12456789999998777667777777776555677777777553 222222233 899


Q ss_pred             CCCCCHHHHHHHHhhcc
Q 046770          357 LKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       357 l~~L~~~~~~~lf~~~~  373 (475)
                      +.+++.++....+.+..
T Consensus       136 f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          136 VVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             EECCCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998765

>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=97.93  E-value=5.3e-05  Score=81.67  Aligned_cols=156  Identities=17%  Similarity=0.194  Sum_probs=87.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc---c-cCcCeEEEE-EecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV---Q-CHFDLKAWT-YVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---~-~~F~~~~wv-~v~~~~~~~  269 (475)
                      ..++||+.+++.+.+.|..        ....-+.|+|++|+|||++|+.+++....   . ....+.+|. ..+.-    
T Consensus       186 d~~iGr~~~i~~l~~~l~~--------~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCR--------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------
T ss_pred             CCccCCHHHHHHHHHHHhc--------cCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----
Confidence            3589999999999999876        22345689999999999999999873211   0 112333332 11110    


Q ss_pred             HHHHHHHHHhhcCCCCCCChHH-HHHHHHHHhCCceEEEEEECCCCC--------ChhhHhHhhCcCCCCCCCcEEEEec
Q 046770          270 RVTKSILRSVAMGIVDHNDLNL-LQWKLKKQLFGKRFLLVLDDVWNE--------NYNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~-l~~~l~~~l~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                               +.... ....... +...+......++.+|+|||++..        .......++..+... .+..+|.+|
T Consensus       254 ---------~~~~~-~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~-~~~~~I~at  322 (758)
T 1r6b_X          254 ---------LAGTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGST  322 (758)
T ss_dssp             ----------CCCC-CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEE
T ss_pred             ---------hcccc-ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC-CCeEEEEEe
Confidence                     00111 1112222 222333333445789999999653        122222333333322 345667776


Q ss_pred             CChHHHHhc-------CCCceeeCCCCCHHHHHHHHhhcc
Q 046770          341 RNADAALIM-------GTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       341 R~~~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      .........       .....+.+.+.+.++..+++....
T Consensus       323 ~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          323 TYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             CHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            654432111       122468899999999888887543

>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=97.90  E-value=9.2e-05  Score=75.11  Aligned_cols=185  Identities=12%  Similarity=0.095  Sum_probs=99.8

Q ss_pred             ccccccchhHHHHHHHHhcC--C-C----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKE--D-G----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~--~-~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      ..++|.+..+++|.+++...  . .    -+.  ...+-|.|+|++|+|||+||+.+++.  ....|   +.++++.   
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~--~~~~~vLL~GppGtGKT~lAraia~~--~~~~f---v~vn~~~---  273 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGV--KPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPE---  273 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTC--CCCCEEEEECSTTSSHHHHHHHHHHH--CSSEE---EEEEHHH---
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCC--CCCCcEEEECcCCCCHHHHHHHHHHH--hCCCE---EEEEchH---
Confidence            35899999999988877531  0 0    000  22346889999999999999999873  22222   2233211   


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC--------C---hhhHhHhhCcCC--CCCCCc
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE--------N---YNDWIDLSRPFQ--DGAPGS  334 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~--------~---~~~~~~l~~~l~--~~~~gs  334 (475)
                             +.    ... .......+...+.....+++.+|+||++...        .   ......++..+.  ....+.
T Consensus       274 -------l~----~~~-~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v  341 (489)
T 3hu3_A          274 -------IM----SKL-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (489)
T ss_dssp             -------HH----TSC-TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCE
T ss_pred             -------hh----hhh-cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCce
Confidence                   11    110 0111122233344444567789999998311        1   011222333322  122355


Q ss_pred             EEEEecCChHH-HHhc----CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCc-hHHHHHH
Q 046770          335 KIIITTRNADA-ALIM----GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGL-PLAAKAL  406 (475)
Q Consensus       335 ~ilvTtR~~~v-~~~~----~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~-PLai~~~  406 (475)
                      .||.||..... ...+    .-...+.+...+.++-.+++..++..... .....+    ..+++.+.|. +-.+..+
T Consensus       342 ~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l-~~~~~l----~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          342 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKL-ADDVDL----EQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCB-CTTCCH----HHHHHTCTTCCHHHHHHH
T ss_pred             EEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCC-cchhhH----HHHHHHccCCcHHHHHHH
Confidence            77777776532 1111    12246889999999999999877643221 122223    4477778775 4444444

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.89  E-value=2.2e-05  Score=74.76  Aligned_cols=158  Identities=16%  Similarity=0.071  Sum_probs=83.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc-cccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR-VQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|+...+.++.+.+.....      ....|.|+|++|+|||++|+.+.+... ....|   +.++++...  ..++.
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~------~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~---v~v~~~~~~--~~l~~   70 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAP------SDATVLIHGDSGTGKELVARALHACSARSDRPL---VTLNCAALN--ESLLE   70 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCS------TTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCC---CEEECSSCC--HHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHHhC------CCCcEEEECCCCchHHHHHHHHHHhCcccCCCe---EEEeCCCCC--hHHHH
Confidence            3588999999998888765221      123577999999999999999987321 11222   334444322  22222


Q ss_pred             HHHHHhhcCCCCCCCh--HHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEec
Q 046770          274 SILRSVAMGIVDHNDL--NLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITT  340 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~--~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTt  340 (475)
                      .   .+.+...+.-..  ......+...   ..-+|+||++..........++..+...           ....+||.||
T Consensus        71 ~---~lfg~~~g~~tg~~~~~~g~~~~a---~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~at  144 (304)
T 1ojl_A           71 S---ELFGHEKGAFTGADKRREGRFVEA---DGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAAT  144 (304)
T ss_dssp             H---HHTCCCSSCCC---CCCCCHHHHH---TTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEE
T ss_pred             H---HhcCccccccCchhhhhcCHHHhc---CCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEec
Confidence            2   222221110000  0000111111   1247899999877655555554443321           1346788888


Q ss_pred             CChHHH------------HhcCCCceeeCCCCC--HHHHHHHHh
Q 046770          341 RNADAA------------LIMGTVQAYPLKGLS--NDDCMCLFT  370 (475)
Q Consensus       341 R~~~v~------------~~~~~~~~~~l~~L~--~~~~~~lf~  370 (475)
                      ...-..            ..+ ....+.+.+|.  .++...|+.
T Consensus       145 n~~l~~~v~~g~fr~~L~~Rl-~~~~i~lPpL~eR~edi~~l~~  187 (304)
T 1ojl_A          145 HRDLAEEVSAGRFRQDLYYRL-NVVAIEMPSLRQRREDIPLLAD  187 (304)
T ss_dssp             SSCHHHHHHHTSSCHHHHHHH-SSEEEECCCSGGGGGGHHHHHH
T ss_pred             CccHHHHHHhCCcHHHHHhhc-CeeEEeccCHHHhHhhHHHHHH
Confidence            763111            111 13447788888  455555544

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.88  E-value=1.3e-05  Score=71.32  Aligned_cols=118  Identities=18%  Similarity=0.160  Sum_probs=60.3

Q ss_pred             hHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcC
Q 046770          203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMG  282 (475)
Q Consensus       203 e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~  282 (475)
                      .++.+.+++......    .....+.|+|++|+|||+||+.+++..  .......+|+++.      ++...+...+.  
T Consensus        37 ~~~~~~~~~~~~~~~----~~~~~~~l~G~~GtGKT~la~~i~~~~--~~~~~~~~~~~~~------~~~~~~~~~~~--  102 (202)
T 2w58_A           37 AIRFAERFVAEYEPG----KKMKGLYLHGSFGVGKTYLLAAIANEL--AKRNVSSLIVYVP------ELFRELKHSLQ--  102 (202)
T ss_dssp             HHHHHHHHHHHCCSS----CCCCEEEEECSTTSSHHHHHHHHHHHH--HTTTCCEEEEEHH------HHHHHHHHC----
T ss_pred             HHHHHHHHHHHhhhc----cCCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEEhH------HHHHHHHHHhc--
Confidence            445556666541110    112578899999999999999999843  2223345565543      33333332221  


Q ss_pred             CCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhH--hhC-cCCCC-CCCcEEEEecCC
Q 046770          283 IVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWID--LSR-PFQDG-APGSKIIITTRN  342 (475)
Q Consensus       283 ~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~-~l~~~-~~gs~ilvTtR~  342 (475)
                         ..........+..     .-+|||||++......|..  +.. .+... ..+..+|+||..
T Consensus       103 ---~~~~~~~~~~~~~-----~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          103 ---DQTMNEKLDYIKK-----VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             ----CCCHHHHHHHHH-----SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             ---cchHHHHHHHhcC-----CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence               1122333333322     2399999996643333322  221 11111 235578888875

>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=97.87  E-value=2.3e-05  Score=73.00  Aligned_cols=46  Identities=24%  Similarity=0.203  Sum_probs=33.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|....+..+.+.+.....      ....|.|+|++|+|||+||+.+++.
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~------~~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAP------LDKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTT------SCSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             cceeCCHHHHHHHHHHHHHhC------CCCCEEEECCCCCcHHHHHHHHHHh
Confidence            478999998888877654111      1135779999999999999999875

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.78  E-value=8.1e-05  Score=75.12  Aligned_cols=100  Identities=10%  Similarity=-0.037  Sum_probs=62.7

Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEe---------cC----C-hHHHHhcCCCceeeCCCCCHHHHHHHHh
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIIT---------TR----N-ADAALIMGTVQAYPLKGLSNDDCMCLFT  370 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvT---------tR----~-~~v~~~~~~~~~~~l~~L~~~~~~~lf~  370 (475)
                      -++++|+++..+.+....++..+.......-|+.|         |.    . .-.....+....+.+.+++.++..+++.
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL~  376 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQIIK  376 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCCEEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCCEEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHHH
Confidence            38999999887777788888777654444323344         32    1 0011222334557999999999999998


Q ss_pred             hcccCCCCCCCCchHHHHHHHHHHhc-CCchHHHHHHHH
Q 046770          371 QHSLETRDFSMHQPLKEIGAKIVIKC-NGLPLAAKALGC  408 (475)
Q Consensus       371 ~~~~~~~~~~~~~~~~~~~~~I~~~c-~G~PLai~~~~~  408 (475)
                      ..+..... .   -..+....|++.+ +|.|..+..+..
T Consensus       377 ~~~~~~~~-~---~~~~~~~~i~~~a~~g~~r~a~~ll~  411 (456)
T 2c9o_A          377 IRAQTEGI-N---ISEEALNHLGEIGTKTTLRYSVQLLT  411 (456)
T ss_dssp             HHHHHHTC-C---BCHHHHHHHHHHHHHSCHHHHHHTHH
T ss_pred             HHHHHhCC-C---CCHHHHHHHHHHccCCCHHHHHHHHH
Confidence            76532111 1   1234566788888 788876655443

>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=97.76  E-value=0.00013  Score=69.30  Aligned_cols=53  Identities=17%  Similarity=0.247  Sum_probs=36.1

Q ss_pred             ccccccchhHHHHHHHHhcC--CCCCC----CCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKE--DGTSH----NNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~--~~~~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.+..++.+...+...  .....    .......+.|+|++|+|||++|+.+++.
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            45899999888888776430  00000    0012345789999999999999999873

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.70  E-value=1.6e-05  Score=67.14  Aligned_cols=86  Identities=15%  Similarity=0.059  Sum_probs=49.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|+.|+|||||++.+++..... .+ ..+++........                              .+..+.
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~~~~~------------------------------~~~~~~   84 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAASMPLT------------------------------DAAFEA   84 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTTSCCC------------------------------GGGGGC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHHhhHH------------------------------HHHhCC
Confidence            478999999999999999998743221 11 2455554432221                              011245


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCC-CCCCc-EEEEecCC
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQD-GAPGS-KIIITTRN  342 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs-~ilvTtR~  342 (475)
                      -+|||||+.......-..+...+.. ...|. .||+||+.
T Consensus        85 ~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~  124 (149)
T 2kjq_A           85 EYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEY  124 (149)
T ss_dssp             SEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESS
T ss_pred             CEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECCC
Confidence            6899999966443222223222221 11233 48888874

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.70  E-value=0.00023  Score=70.46  Aligned_cols=51  Identities=29%  Similarity=0.266  Sum_probs=36.1

Q ss_pred             ccccccchhHHHHHHHHhcC---CC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKE---DG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|-+..+++|.+.+.-.   .+    -+-  ...+-+.++|++|+|||+||+.+++.
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~--~~prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGI--DPPRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCC--CCCCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCC--CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            46888888888877655320   00    001  33466899999999999999999984

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.67  E-value=0.00087  Score=61.84  Aligned_cols=185  Identities=15%  Similarity=0.102  Sum_probs=91.3

Q ss_pred             ccccccchhHHHHHHH---HhcCCCCCC-CCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVEL---LLKEDGTSH-NNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~---L~~~~~~~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..++++.+.   +.....-.. .....+-+.|+|++|+||||||+.+++..  ...|   +.++.+.-.+   
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~--~~~~---~~i~~~~~~~---   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSDFVE---   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH--TCCE---EEECSCSSTT---
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc--CCCE---EEEeHHHHHH---
Confidence            4688988777666554   322100000 00112347899999999999999998742  2222   3333222111   


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------h----hhHhHhhCcCC--CCCCCc
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------Y----NDWIDLSRPFQ--DGAPGS  334 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~----~~~~~l~~~l~--~~~~gs  334 (475)
                                 . ........+...+.......+.++++|++....          .    .....++..+.  ....+.
T Consensus        84 -----------~-~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  151 (257)
T 1lv7_A           84 -----------M-FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  151 (257)
T ss_dssp             -----------S-CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCE
T ss_pred             -----------H-hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCE
Confidence                       0 011122233333444445567899999982110          0    11122222111  122355


Q ss_pred             EEEEecCChHHH-Hh-cC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCC-chHHHH
Q 046770          335 KIIITTRNADAA-LI-MG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNG-LPLAAK  404 (475)
Q Consensus       335 ~ilvTtR~~~v~-~~-~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G-~PLai~  404 (475)
                      .||.||...+.. .. ..   -...+.+...+.++-.+++....-... ......    ...++..+.| .+--+.
T Consensus       152 ~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~-l~~~~~----~~~la~~~~G~~~~dl~  222 (257)
T 1lv7_A          152 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVP-LAPDID----AAIIARGTPGFSGADLA  222 (257)
T ss_dssp             EEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC-BCTTCC----HHHHHHTCTTCCHHHHH
T ss_pred             EEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCC-CCcccc----HHHHHHHcCCCCHHHHH
Confidence            677777664311 11 11   124677777788887777776542211 111111    2346777888 555444

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=0.00041  Score=67.83  Aligned_cols=180  Identities=19%  Similarity=0.144  Sum_probs=95.1

Q ss_pred             ccccccchhHHHHHHHHhcC---CC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKE---DG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      .++.|-++.+++|.+.+.-+   ++    -+-  ...+-|.++|++|+|||.||+.+++.  ....|   +.++.+.-.+
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 DMVGGLTKQIKEIKEVIELPVKHPELFESLGI--AQPKGVILYGPPGTGKTLLARAVAHH--TDCKF---IRVSGAELVQ  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTC--CCCCCEEEESCSSSSHHHHHHHHHHH--HTCEE---EEEEGGGGSC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCC--CCCCceEEeCCCCCCHHHHHHHHHHh--hCCCc---eEEEhHHhhc
Confidence            45778888777776654320   00    001  23456889999999999999999984  23222   2333332111


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC--------hh------hHhHhhCcCC--CCC
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN--------YN------DWIDLSRPFQ--DGA  331 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~--------~~------~~~~l~~~l~--~~~  331 (475)
                                    . ........+.......-...+++|+||++....        ..      ....++..+.  ...
T Consensus       221 --------------k-~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  285 (405)
T 4b4t_J          221 --------------K-YIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS  285 (405)
T ss_dssp             --------------S-STTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC
T ss_pred             --------------c-ccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC
Confidence                          0 001111111112222223568999999995321        00      1122222222  223


Q ss_pred             CCcEEEEecCChHH---HHhc--CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          332 PGSKIIITTRNADA---ALIM--GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       332 ~gs~ilvTtR~~~v---~~~~--~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      .+..||.||..++.   |..-  .-...+.+..-+.++-.++|+.+.-.... ...-++    ..|++.|.|.--
T Consensus       286 ~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l-~~dvdl----~~lA~~t~G~SG  355 (405)
T 4b4t_J          286 KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNL-TRGINL----RKVAEKMNGCSG  355 (405)
T ss_dssp             CCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBC-CSSCCH----HHHHHHCCSCCH
T ss_pred             CCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCC-CccCCH----HHHHHHCCCCCH
Confidence            45567777776432   2211  23367888888888888888766533211 122233    447788888643

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.64  E-value=0.00039  Score=68.98  Aligned_cols=180  Identities=16%  Similarity=0.151  Sum_probs=94.9

Q ss_pred             ccccccchhHHHHHHHHhcC---CC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKE---DG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      .++.|-+..+++|.+.+.-.   ++    .+-  ...+-|.++|++|+|||+||+.+++..  ...|   +.++.+.-.+
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 DGIGGLTEQIRELREVIELPLKNPEIFQRVGI--KPPKGVLLYGPPGTGKTLLAKAVAATI--GANF---IFSPASGIVD  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCC--CCCCEEEEESCTTSSHHHHHHHHHHHH--TCEE---EEEEGGGTCC
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCC--CCCCeEEEECCCCCcHHHHHHHHHHHh--CCCE---EEEehhhhcc
Confidence            45788888777776655320   00    001  334678999999999999999999842  2222   2333333211


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------h----hhHhHhhCcCC--CCC
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------Y----NDWIDLSRPFQ--DGA  331 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~----~~~~~l~~~l~--~~~  331 (475)
                                    . ........+.......-...+++|+||++....          .    .....++..+.  ...
T Consensus       254 --------------k-~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~  318 (437)
T 4b4t_L          254 --------------K-YIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL  318 (437)
T ss_dssp             --------------S-SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCT
T ss_pred             --------------c-cchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCC
Confidence                          0 000111111111222223568999999995310          0    01223333322  223


Q ss_pred             CCcEEEEecCChHHHH--hcCC---CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          332 PGSKIIITTRNADAAL--IMGT---VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       332 ~gs~ilvTtR~~~v~~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      .+..||.||..++...  ....   ...+.+...+.++-.++|+.+...... ...-++    ..|++.+.|.--
T Consensus       319 ~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~-~~d~dl----~~lA~~t~G~sG  388 (437)
T 4b4t_L          319 GQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKK-TGEFDF----EAAVKMSDGFNG  388 (437)
T ss_dssp             TSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCB-CSCCCH----HHHHHTCCSCCH
T ss_pred             CCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCC-CcccCH----HHHHHhCCCCCH
Confidence            4567788887654321  1112   245778777888888888766533221 112233    447788888643

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.64  E-value=0.00061  Score=67.58  Aligned_cols=178  Identities=15%  Similarity=0.113  Sum_probs=93.2

Q ss_pred             cccccchhHHHHHHHHhc---CCC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          196 KVYGRSKEREEIVELLLK---EDG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~---~~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ++.|-++.+++|.+.+.-   ..+    -+-  ...+-|.++|++|+|||+||+.+++.  ....|   +.++.+.-.+ 
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi--~pprGILLyGPPGTGKTlLAkAiA~e--~~~~f---i~vs~s~L~s-  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGI--DPPKGILLYGPPGTGKTLCARAVANR--TDATF---IRVIGSELVQ-  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTC--CCCSEEEECSCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGCC-
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCC--CCCCceEeeCCCCCcHHHHHHHHHhc--cCCCe---EEEEhHHhhc-
Confidence            578888888777665421   000    001  34567889999999999999999984  23222   2333322111 


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC--------h------hhHhHhhCcCC--CCCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN--------Y------NDWIDLSRPFQ--DGAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~--------~------~~~~~l~~~l~--~~~~  332 (475)
                                   . ........+.......-...+++|+||++....        .      .....++..+.  ....
T Consensus       282 -------------k-~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  347 (467)
T 4b4t_H          282 -------------K-YVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRG  347 (467)
T ss_dssp             -------------C-SSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTT
T ss_pred             -------------c-cCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCC
Confidence                         0 001111111122222223568999999995321        0      01112222221  1223


Q ss_pred             CcEEEEecCChHH---HHhc--CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          333 GSKIIITTRNADA---ALIM--GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       333 gs~ilvTtR~~~v---~~~~--~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      +..||.||...+.   +..-  .-...+.+...+.++-.++|+.+...... ...-++    ..|++.|.|.-
T Consensus       348 ~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l-~~dvdl----~~LA~~T~GfS  415 (467)
T 4b4t_H          348 NIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSV-ERGIRW----ELISRLCPNST  415 (467)
T ss_dssp             TEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCB-CSSCCH----HHHHHHCCSCC
T ss_pred             cEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCC-CCCCCH----HHHHHHCCCCC
Confidence            4566777765432   2111  23366888888888888888766533211 112233    44778888864

>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=97.63  E-value=0.00044  Score=66.65  Aligned_cols=179  Identities=17%  Similarity=0.094  Sum_probs=93.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      ..++|.+..++.+...+.. ....+  .....+.|+|++|+||||||+.+++..  ...|.   ..+..-....      
T Consensus        25 ~~~~g~~~~~~~l~~~i~~-~~~~~--~~~~~~ll~Gp~G~GKTTLa~~ia~~l--~~~~~---~~sg~~~~~~------   90 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEA-AKMRG--EVLDHVLLAGPPGLGKTTLAHIIASEL--QTNIH---VTSGPVLVKQ------   90 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHH-HHHHT--CCCCCEEEESSTTSSHHHHHHHHHHHH--TCCEE---EEETTTCCSH------
T ss_pred             HHccCcHHHHHHHHHHHHH-HHhcC--CCCCeEEEECCCCCcHHHHHHHHHHHh--CCCEE---EEechHhcCH------
Confidence            4578887777777666543 10000  233568999999999999999999832  21111   1111110111      


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC--------C----------CCcEE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG--------A----------PGSKI  336 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~--------~----------~gs~i  336 (475)
                                     ..+...+ ..+ .++.++++|++........+.+...+...        .          ....+
T Consensus        91 ---------------~~l~~~~-~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~l  153 (334)
T 1in4_A           91 ---------------GDMAAIL-TSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  153 (334)
T ss_dssp             ---------------HHHHHHH-HHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             ---------------HHHHHHH-HHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEE
Confidence                           1111111 112 23457788988654432233332111100        0          11222


Q ss_pred             E-EecCChHHHHhc--CCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          337 I-ITTRNADAALIM--GTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       337 l-vTtR~~~v~~~~--~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      + .|++...+....  .......+++.+.++..+++.+.+.....    ....+.+..|++.+.|.|-.+..+..
T Consensus       154 i~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~----~~~~~~~~~ia~~~~G~~R~a~~ll~  224 (334)
T 1in4_A          154 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV----EIEDAAAEMIAKRSRGTPRIAIRLTK  224 (334)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC----CBCHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             EEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC----CcCHHHHHHHHHhcCCChHHHHHHHH
Confidence            2 344432221111  12235789999999999999876532211    12246678899999999986654443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.60  E-value=0.00021  Score=77.02  Aligned_cols=157  Identities=12%  Similarity=0.134  Sum_probs=86.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCC-CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTS-HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++|.+..++.+...+.....+. ........+.++|++|+|||+||+.+++..  ...-...+.++++...+...   
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l--~~~~~~~i~i~~s~~~~~~~---  565 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI--FGDEESMIRIDMSEYMEKHS---  565 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH--HSCTTCEEEEEGGGGCSSCC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh--cCCCcceEEEechhcccccc---
Confidence            458899998888888776422111 101233478999999999999999998742  11112334455443221000   


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCC-----------CCCCcEEEEecCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQD-----------GAPGSKIIITTRN  342 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-----------~~~gs~ilvTtR~  342 (475)
                                 .  ....+...++.   ....+|+||++..........++..+..           ....+.||+||..
T Consensus       566 -----------~--~~~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          566 -----------T--SGGQLTEKVRR---KPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             -----------C--C---CHHHHHH---CSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             -----------c--ccchhhHHHHh---CCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence                       0  01111112221   2334899999977666555555544332           1235688888873


Q ss_pred             h-----HH----HH-----hcCC-CceeeCCCCCHHHHHHHHhhc
Q 046770          343 A-----DA----AL-----IMGT-VQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       343 ~-----~v----~~-----~~~~-~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      .     .+    ..     .... ...+.+.+++.++...++...
T Consensus       630 ~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~  674 (758)
T 3pxi_A          630 GASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLM  674 (758)
T ss_dssp             STTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHH
Confidence            1     11    11     1122 257888999988888777654

>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=97.55  E-value=4.4e-05  Score=71.18  Aligned_cols=157  Identities=14%  Similarity=0.091  Sum_probs=79.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCC------CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT------SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~------~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..++.+.+.+......      +.  ...+-+.|+|++|+|||+||+.+++..  ...|-   .+..+.-.+ 
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~--~~~~~vll~G~~GtGKT~la~~la~~~--~~~~~---~v~~~~~~~-   82 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGA--KIPKGVLLVGPPGTGKTLLAKAVAGEA--HVPFF---SMGGSSFIE-   82 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSC--CCCSCCCCBCSSCSSHHHHHHHHHHHH--TCCCC---CCCSCTTTT-
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCC--CCCceEEEECCCCCcHHHHHHHHHHHh--CCCEE---EechHHHHH-
Confidence            46889888877777655310000      00  112237799999999999999998842  22221   111111000 


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh---------------hhHhHhhCcCCC---C
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY---------------NDWIDLSRPFQD---G  330 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~---------------~~~~~l~~~l~~---~  330 (475)
                               .+...  .......+   +......++.+|+|||+.....               .....++..+..   .
T Consensus        83 ---------~~~~~--~~~~~~~~---~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (268)
T 2r62_A           83 ---------MFVGL--GASRVRDL---FETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSE  148 (268)
T ss_dssp             ---------SCSSS--CSSSSSTT---HHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCS
T ss_pred             ---------hhcch--HHHHHHHH---HHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccC
Confidence                     00000  11111111   2222224567999999953211               012233333321   1


Q ss_pred             CCCcEEEEecCChHHH--HhcC---CCceeeCCCCCHHHHHHHHhhcc
Q 046770          331 APGSKIIITTRNADAA--LIMG---TVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       331 ~~gs~ilvTtR~~~v~--~~~~---~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      .....||.||......  ....   -...+.+...+.++-.+++...+
T Consensus       149 ~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          149 NAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHI  196 (268)
T ss_dssp             CSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHT
T ss_pred             CCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHH
Confidence            1235677777765321  1111   12457888888888888887665

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.48  E-value=0.00021  Score=70.92  Aligned_cols=178  Identities=15%  Similarity=0.090  Sum_probs=91.3

Q ss_pred             ccccccchhHHHHHHHHhcC---CC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLKE---DG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      .++.|-++.+++|.+.+.-.   ++    .+-  ...+-|.++|++|+|||+||+.+++.  ....|   +.++.+.-.+
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~--~~prGvLLyGPPGTGKTllAkAiA~e--~~~~f---~~v~~s~l~~  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGI--RAPKGALMYGPPGTGKTLLARACAAQ--TNATF---LKLAAPQLVQ  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCC--CCCCEEEEESCTTSSHHHHHHHHHHH--HTCEE---EEEEGGGGCS
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCC--CCCCeeEEECcCCCCHHHHHHHHHHH--hCCCE---EEEehhhhhh
Confidence            46888888888887654210   10    011  33567899999999999999999984  22222   2233322111


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHHH-HHhCCceEEEEEECCCC------CCh----h----hHhHhhCcCC--CC
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKLK-KQLFGKRFLLVLDDVWN------ENY----N----DWIDLSRPFQ--DG  330 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l~-~~l~~kr~LlVlDdv~~------~~~----~----~~~~l~~~l~--~~  330 (475)
                                    . ..... ....+.+. ..-...+++|+||++..      ...    .    ....++..+.  ..
T Consensus       254 --------------~-~vGes-e~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~  317 (434)
T 4b4t_M          254 --------------M-YIGEG-AKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSS  317 (434)
T ss_dssp             --------------S-CSSHH-HHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCS
T ss_pred             --------------c-ccchH-HHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCC
Confidence                          0 00001 11111111 11124579999999831      000    0    1122333332  12


Q ss_pred             CCCcEEEEecCChHHHH-h-cC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          331 APGSKIIITTRNADAAL-I-MG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       331 ~~gs~ilvTtR~~~v~~-~-~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      ..+..||.||..++... . ..   -...+.+...+.++-.++|+.+.-.... ...-++    ..|++.+.|.-
T Consensus       318 ~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~-~~dvdl----~~lA~~t~G~s  387 (434)
T 4b4t_M          318 DDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTT-DDDINW----QELARSTDEFN  387 (434)
T ss_dssp             SCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCB-CSCCCH----HHHHHHCSSCC
T ss_pred             CCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCC-CCcCCH----HHHHHhCCCCC
Confidence            23456676777643321 1 11   1245778888888888888755432111 111223    44778888753

>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=97.47  E-value=0.00098  Score=67.08  Aligned_cols=179  Identities=13%  Similarity=0.069  Sum_probs=94.3

Q ss_pred             ccccccchhHHHHHHHHhcC--CC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKE--DG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~--~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..++++.+.+...  ..    -+.  .-.+-+.|+|++|+|||+||+.+++..  ...|   +.++++.-...
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~--~~p~gvLL~GppGtGKT~Laraia~~~--~~~f---~~is~~~~~~~   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGA--RMPKGILLVGPPGTGKTLLARAVAGEA--NVPF---FHISGSDFVEL   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTC--CCCSEEEEECCTTSSHHHHHHHHHHHH--TCCE---EEEEGGGTTTC
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCC--CCCCeEEEECCCCCCHHHHHHHHHHHc--CCCe---eeCCHHHHHHH
Confidence            46889887766665543210  10    000  112347899999999999999999832  2222   23333322110


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh--------------hhHhHhhCcCC--CCCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY--------------NDWIDLSRPFQ--DGAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~--------------~~~~~l~~~l~--~~~~  332 (475)
                                +     ...........+.......+.+|+||++.....              .....++..+.  ....
T Consensus        89 ----------~-----~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~  153 (476)
T 2ce7_A           89 ----------F-----VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKE  153 (476)
T ss_dssp             ----------C-----TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGG
T ss_pred             ----------H-----hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCC
Confidence                      0     000111222334444456789999999943210              11223332221  1124


Q ss_pred             CcEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          333 GSKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       333 gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      +..||.||...+...  ...   -...+.+...+.++-.+++..++....- .....    ...|++.+.|..
T Consensus       154 ~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l-~~~v~----l~~la~~t~G~s  221 (476)
T 2ce7_A          154 GIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPL-AEDVN----LEIIAKRTPGFV  221 (476)
T ss_dssp             TEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCC----HHHHHHTCTTCC
T ss_pred             CEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCC-cchhh----HHHHHHhcCCCc
Confidence            567788887764321  112   1236788888888877888765532211 11112    234788888877

>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=97.39  E-value=0.00079  Score=69.32  Aligned_cols=165  Identities=16%  Similarity=0.128  Sum_probs=77.5

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-...+.+.+.-..-...  ....++.|+|++|+||||||+.++...  ...|   .-++++...+...+...
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~--~~g~~vll~Gp~GtGKTtlar~ia~~l--~~~~---~~i~~~~~~~~~~~~g~  153 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKS--LKGPILCLAGPPGVGKTSLAKSIAKSL--GRKF---VRISLGGVRDESEIRGH  153 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSS--CCSCEEEEESSSSSSHHHHHHHHHHHH--TCEE---EEECCCC----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhccc--CCCCEEEEECCCCCCHHHHHHHHHHhc--CCCe---EEEEecccchhhhhhhH
Confidence            4578877766666544321000000  123589999999999999999998732  2111   22233322221111111


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChh----hHhHhhCcCCCCC---------------CCcE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYN----DWIDLSRPFQDGA---------------PGSK  335 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~----~~~~l~~~l~~~~---------------~gs~  335 (475)
                      .-..++      .........+... ....-+++||++......    ....++..+....               ....
T Consensus       154 ~~~~ig------~~~~~~~~~~~~a-~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~  226 (543)
T 3m6a_A          154 RRTYVG------AMPGRIIQGMKKA-GKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVL  226 (543)
T ss_dssp             ----------------CHHHHHHTT-CSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCE
T ss_pred             HHHHhc------cCchHHHHHHHHh-hccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceE
Confidence            000000      0001111122222 223448889999754322    1233333332111               3346


Q ss_pred             EEEecCChHHH--HhcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          336 IIITTRNADAA--LIMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       336 ilvTtR~~~v~--~~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ||.||......  ........+.+.+++.++-..++..+.
T Consensus       227 iI~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          227 FIATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EEEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             EEeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            77777653210  111122568999999999988888764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.38  E-value=0.00066  Score=66.71  Aligned_cols=178  Identities=16%  Similarity=0.120  Sum_probs=91.7

Q ss_pred             ccccccchhHHHHHHHHhc---CCC----CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          195 AKVYGRSKEREEIVELLLK---EDG----TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~---~~~----~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      .++-|-++.+++|.+.+.-   ..+    -+.  ...+-|.++|++|.|||.||+.+++..  ...|   +.++.+.-.+
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi--~~prGvLLyGPPGTGKTlLAkAiA~e~--~~~f---i~v~~s~l~s  254 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGI--KPPKGVILYGAPGTGKTLLAKAVANQT--SATF---LRIVGSELIQ  254 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTC--CCCSEEEEESSTTTTHHHHHHHHHHHH--TCEE---EEEESGGGCC
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCC--CCCCCCceECCCCchHHHHHHHHHHHh--CCCE---EEEEHHHhhh
Confidence            4577888877777665421   010    001  234678999999999999999999842  2222   2223222111


Q ss_pred             HHHHHHHHHHHhhcCCCCCCChHHHHHHH-HHHhCCceEEEEEECCCCCC--------------hhhHhHhhCcCC--CC
Q 046770          268 IIRVTKSILRSVAMGIVDHNDLNLLQWKL-KKQLFGKRFLLVLDDVWNEN--------------YNDWIDLSRPFQ--DG  330 (475)
Q Consensus       268 ~~~~l~~il~~l~~~~~~~~~~~~l~~~l-~~~l~~kr~LlVlDdv~~~~--------------~~~~~~l~~~l~--~~  330 (475)
                                    . .... .+...+.+ ...-...+++|+||++....              ......++..+.  ..
T Consensus       255 --------------k-~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          255 --------------K-YLGD-GPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             --------------S-SSSH-HHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             --------------c-cCch-HHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence                          0 0001 11111111 12223568999999985210              001222222221  22


Q ss_pred             CCCcEEEEecCChHHHHh--cCC---CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          331 APGSKIIITTRNADAALI--MGT---VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       331 ~~gs~ilvTtR~~~v~~~--~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      ..+..||.||...+....  ...   ...+.+..-+.++-.++|..+.-... ....-++    ..|++.+.|.-
T Consensus       319 ~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~-l~~dvdl----~~LA~~T~GfS  388 (437)
T 4b4t_I          319 RGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMN-LSEDVNL----ETLVTTKDDLS  388 (437)
T ss_dssp             SSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSC-BCSCCCH----HHHHHHCCSCC
T ss_pred             CCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCC-CCCcCCH----HHHHHhCCCCC
Confidence            345567777776543211  111   23577777788888888876653321 1122233    34777888763

>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=97.28  E-value=0.00035  Score=76.16  Aligned_cols=137  Identities=13%  Similarity=0.160  Sum_probs=71.2

Q ss_pred             cccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|.+..++.+...+.....+ ...+.....+.|+|++|+|||++|+.+.+...  ..-...+.++++...... .   
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~--~~~~~~i~i~~~~~~~~~-~---  632 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF--DTEEAMIRIDMTEYMEKH-A---  632 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH--SSGGGEEEECTTTCCSSG-G---
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc--CCCCcEEEEechhccchh-H---
Confidence            5789999888888877541110 00002345789999999999999999987321  111123344444322210 0   


Q ss_pred             HHHHhhcCCC---CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCC-----------CCcEEEEec
Q 046770          275 ILRSVAMGIV---DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGA-----------PGSKIIITT  340 (475)
Q Consensus       275 il~~l~~~~~---~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~ilvTt  340 (475)
                       ...+.+..+   +......+...++.   ...-+|+||++..........++..+..+.           .++.||+||
T Consensus       633 -~s~l~g~~~~~~G~~~~g~l~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~ts  708 (854)
T 1qvr_A          633 -VSRLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS  708 (854)
T ss_dssp             -GGGC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEEC
T ss_pred             -HHHHcCCCCCCcCccccchHHHHHHh---CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEec
Confidence             001110000   11111122222222   224589999997776666666665554321           244578888


Q ss_pred             CC
Q 046770          341 RN  342 (475)
Q Consensus       341 R~  342 (475)
                      ..
T Consensus       709 n~  710 (854)
T 1qvr_A          709 NL  710 (854)
T ss_dssp             CT
T ss_pred             Cc
Confidence            75

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.24  E-value=0.0051  Score=65.67  Aligned_cols=182  Identities=12%  Similarity=0.072  Sum_probs=96.4

Q ss_pred             ccccccchhHHHHHHHHh----cCCC-CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLL----KEDG-TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~----~~~~-~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|-++.+++|.+++.    .... ..-.-...+-|.++|++|+|||+||+.+++..  ..+|   +.|+.++     
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el--g~~~---~~v~~~~-----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET--GAFF---FLINGPE-----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT--TCEE---EEEEHHH-----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh--CCeE---EEEEhHH-----
Confidence            357788888777776542    2110 00001345678999999999999999999843  3222   3333221     


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC-------hh----hHhHhhCcCC--CCCCCcEE
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN-------YN----DWIDLSRPFQ--DGAPGSKI  336 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~-------~~----~~~~l~~~l~--~~~~gs~i  336 (475)
                           ++    .. ........+...+.......+.+|+||++....       ..    ...+++..+.  ....+..|
T Consensus       274 -----l~----sk-~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~V  343 (806)
T 3cf2_A          274 -----IM----SK-LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (806)
T ss_dssp             -----HH----SS-CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEE
T ss_pred             -----hh----cc-cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEE
Confidence                 11    11 111122223333444445678999999984311       00    1122222221  11234456


Q ss_pred             EEecCChHH-HHhcC----CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          337 IITTRNADA-ALIMG----TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       337 lvTtR~~~v-~~~~~----~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      |.||...+. ...+.    -...+.+...+.++-.++|..+...... ....++    ..|++++.|.--
T Consensus       344 IaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~-~~dvdl----~~lA~~T~Gfsg  408 (806)
T 3cf2_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKL-ADDVDL----EQVANETHGHVG  408 (806)
T ss_dssp             EEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEE-CTTCCH----HHHHHHCCSCCH
T ss_pred             EEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCC-CcccCH----HHHHHhcCCCCH
Confidence            666665432 11111    2256888888888888888876533211 122233    347788888753

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.24  E-value=0.002  Score=65.31  Aligned_cols=43  Identities=21%  Similarity=0.230  Sum_probs=35.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .++|.+..++.+...+.. .         .-|.|+|++|+|||+||+.+.+..
T Consensus        23 ~ivGq~~~i~~l~~al~~-~---------~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALS-G---------ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHH-T---------CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhHHHHHHHHHHHHHHhc-C---------CeeEeecCchHHHHHHHHHHHHHH
Confidence            578988888888877765 2         357899999999999999999843

>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=97.23  E-value=0.00025  Score=76.42  Aligned_cols=134  Identities=16%  Similarity=0.138  Sum_probs=69.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCC-CCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTS-HNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|.+..++.+...+.....+. ..+.....+.++|++|+|||++|+.+.+..  .   ...+.++++.......    
T Consensus       459 ~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l--~---~~~~~i~~s~~~~~~~----  529 (758)
T 1r6b_X          459 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT----  529 (758)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH--T---CEEEEEEGGGCSSSSC----
T ss_pred             hccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh--c---CCEEEEechhhcchhh----
Confidence            47888888888877665311110 001234578999999999999999998732  1   1233344443221100    


Q ss_pred             HHHHhhcCCCCCCC---hHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEec
Q 046770          275 ILRSVAMGIVDHND---LNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITT  340 (475)
Q Consensus       275 il~~l~~~~~~~~~---~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTt  340 (475)
                       ...+.+..++...   ...+...++.   ....+|+||++..........++..+..+           -..+.||.||
T Consensus       530 -~~~l~g~~~g~~g~~~~~~l~~~~~~---~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~ts  605 (758)
T 1r6b_X          530 -VSRLIGAPPGYVGFDQGGLLTDAVIK---HPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  605 (758)
T ss_dssp             -CSSSCCCCSCSHHHHHTTHHHHHHHH---CSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             -HhhhcCCCCCCcCccccchHHHHHHh---CCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEec
Confidence             0000011111000   0112222222   33579999999776665555555544321           1235578887


Q ss_pred             CC
Q 046770          341 RN  342 (475)
Q Consensus       341 R~  342 (475)
                      ..
T Consensus       606 N~  607 (758)
T 1r6b_X          606 NA  607 (758)
T ss_dssp             CS
T ss_pred             Cc
Confidence            64

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.22  E-value=0.0015  Score=61.57  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+.+.++|++|+|||+||+.+++.
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            34567889999999999999999984

>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=0.00015  Score=69.12  Aligned_cols=42  Identities=14%  Similarity=0.198  Sum_probs=28.9

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+..+.+++.....     .....+.|+|++|+|||+||..+++.
T Consensus       134 ~~~~~~~~~~i~~~~~-----~~~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPS-----AEQKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             HHHHHHHHHHHHHCSC-----SSCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccc-----cCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3344455566654111     11357889999999999999999884

>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=97.20  E-value=0.00018  Score=68.05  Aligned_cols=68  Identities=21%  Similarity=0.330  Sum_probs=44.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe--cCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV--SQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v--~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~  302 (475)
                      +++.|+|++|+|||+||.+++..   .  -..++|++.  .+..+.                ...+.+.....+.+.+..
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~---~--G~~VlyIs~~~eE~v~~----------------~~~~le~~l~~i~~~l~~  182 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA---L--GGKDKYATVRFGEPLSG----------------YNTDFNVFVDDIARAMLQ  182 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH---H--HTTSCCEEEEBSCSSTT----------------CBCCHHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh---C--CCCEEEEEecchhhhhh----------------hhcCHHHHHHHHHHHHhh
Confidence            57789999999999999999873   1  123456666  332110                003445555556666655


Q ss_pred             ceEEEEEECCCC
Q 046770          303 KRFLLVLDDVWN  314 (475)
Q Consensus       303 kr~LlVlDdv~~  314 (475)
                      .+ +||||++..
T Consensus       183 ~~-LLVIDsI~a  193 (331)
T 2vhj_A          183 HR-VIVIDSLKN  193 (331)
T ss_dssp             CS-EEEEECCTT
T ss_pred             CC-EEEEecccc
Confidence            55 999999954

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.19  E-value=0.0013  Score=63.05  Aligned_cols=151  Identities=12%  Similarity=0.079  Sum_probs=83.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++|++..++.+...+.. .         .-+.++|++|+|||+||+.+.+.  ....|   ..+.+.......+++...
T Consensus        28 ~i~g~~~~~~~l~~~l~~-~---------~~vll~G~pGtGKT~la~~la~~--~~~~~---~~i~~~~~~~~~~l~g~~   92 (331)
T 2r44_A           28 VVVGQKYMINRLLIGICT-G---------GHILLEGVPGLAKTLSVNTLAKT--MDLDF---HRIQFTPDLLPSDLIGTM   92 (331)
T ss_dssp             TCCSCHHHHHHHHHHHHH-T---------CCEEEESCCCHHHHHHHHHHHHH--TTCCE---EEEECCTTCCHHHHHEEE
T ss_pred             ceeCcHHHHHHHHHHHHc-C---------CeEEEECCCCCcHHHHHHHHHHH--hCCCe---EEEecCCCCChhhcCCce
Confidence            588999988888887765 2         24789999999999999999873  22222   223333333333221110


Q ss_pred             HHHhhcCCCCCCChHHHHHHHHHHhCC--ceEEEEEECCCCCChhhHhHhhCcCCC-----------CCCCcEEEEecCC
Q 046770          276 LRSVAMGIVDHNDLNLLQWKLKKQLFG--KRFLLVLDDVWNENYNDWIDLSRPFQD-----------GAPGSKIIITTRN  342 (475)
Q Consensus       276 l~~l~~~~~~~~~~~~l~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~-----------~~~gs~ilvTtR~  342 (475)
                          .... ......        ...+  ...+++||++...+......+...+..           ......|+.|+..
T Consensus        93 ----~~~~-~~~~~~--------~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np  159 (331)
T 2r44_A           93 ----IYNQ-HKGNFE--------VKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNP  159 (331)
T ss_dssp             ----EEET-TTTEEE--------EEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECT
T ss_pred             ----eecC-CCCceE--------eccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCC
Confidence                0000 000000        0000  125899999976655444444433221           1234566666653


Q ss_pred             hH------H-HHhcCCCc-eeeCCCCCHHHHHHHHhhccc
Q 046770          343 AD------A-ALIMGTVQ-AYPLKGLSNDDCMCLFTQHSL  374 (475)
Q Consensus       343 ~~------v-~~~~~~~~-~~~l~~L~~~~~~~lf~~~~~  374 (475)
                      ..      + ........ .+.+.+.+.++-.+++.+...
T Consensus       160 ~~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          160 VEQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             TCCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             CcccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence            21      1 11222223 588999999999999987654

>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=97.18  E-value=0.0019  Score=57.78  Aligned_cols=84  Identities=20%  Similarity=0.131  Sum_probs=51.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh-----------cCC-CCCCChHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA-----------MGI-VDHNDLNLL  292 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~-----------~~~-~~~~~~~~l  292 (475)
                      .++.|+|++|+|||||+..++. .    .-..++|++....++...+.. +...++           ... ....+....
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~-~----~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL-L----SGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRRV   94 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH-H----HCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH-H----cCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHHH
Confidence            5899999999999999999987 1    123577887766555554432 322221           111 111222334


Q ss_pred             HHHHHHHhCCceEEEEEECCCC
Q 046770          293 QWKLKKQLFGKRFLLVLDDVWN  314 (475)
Q Consensus       293 ~~~l~~~l~~kr~LlVlDdv~~  314 (475)
                      ...++..+..+.-+||||.+..
T Consensus        95 ~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           95 IGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHhhcCCCEEEEcCcHH
Confidence            4455555544577999999854

>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=96.96  E-value=0.011  Score=56.77  Aligned_cols=157  Identities=11%  Similarity=-0.078  Sum_probs=96.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHH-HhCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK-QLFG  302 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~-~l~~  302 (475)
                      .++..++|+.|.||++.+..+.+... ...|+....+.+....++.+                     +.+.+.. -+.+
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~---------------------l~~~~~~~plf~   75 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAA-AQGFEEHHTFSIDPNTDWNA---------------------IFSLCQAMSLFA   75 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHH-HHTCCEEEEEECCTTCCHHH---------------------HHHHHHHHHHCC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHH-hCCCCeeEEEEecCCCCHHH---------------------HHHHhcCcCCcc
Confidence            46889999999999999988876321 12343211122222233332                     2222221 1245


Q ss_pred             ceEEEEEECCCC-CChhhHhHhhCcCCCCCCCcEEEEecCC-------hHHHHh-cCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          303 KRFLLVLDDVWN-ENYNDWIDLSRPFQDGAPGSKIIITTRN-------ADAALI-MGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       303 kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~ilvTtR~-------~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ++-++|+|+++. .+...++.+...+..-..++.+|+++..       ..+... ......++..+++.++....+.+.+
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHH
Confidence            667889999876 5555677777766654457777766543       233332 3445778999999999988887765


Q ss_pred             cCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          374 LETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       374 ~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      -..+-    .-..+.+..|++.++|....+...
T Consensus       156 ~~~g~----~i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          156 KQLNL----ELDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHTTC----EECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHcCC----CCCHHHHHHHHHHhchHHHHHHHH
Confidence            32221    122466778999999998877654

>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=96.95  E-value=0.0024  Score=62.50  Aligned_cols=23  Identities=39%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+.++|++|+|||++|+.+++.
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999873

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.83  E-value=0.01  Score=60.07  Aligned_cols=177  Identities=13%  Similarity=0.111  Sum_probs=90.4

Q ss_pred             ccccccchhHHHHHHH---HhcCCCCCC-CCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVEL---LLKEDGTSH-NNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~---L~~~~~~~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|.+..+.++.+.   +.....-.. ...-.+-+.|+|++|+||||||+.++...  ..   ..+.++.+.-..   
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~--~~---~~i~i~g~~~~~---  102 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--RV---PFITASGSDFVE---  102 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT--TC---CEEEEEGGGGTS---
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--CC---CEEEEehhHHHH---
Confidence            4688988766665554   322100000 00112238899999999999999999743  21   223333322111   


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhC----CceEEEEEECCCCCC----------hhh----HhHhhCcCCC--C
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLF----GKRFLLVLDDVWNEN----------YND----WIDLSRPFQD--G  330 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~----~kr~LlVlDdv~~~~----------~~~----~~~l~~~l~~--~  330 (475)
                                 .     ........+...++    ..+.++++|++....          ...    ...++..+..  .
T Consensus       103 -----------~-----~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~  166 (499)
T 2dhr_A          103 -----------M-----FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  166 (499)
T ss_dssp             -----------S-----CTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS
T ss_pred             -----------h-----hhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc
Confidence                       0     00111223333332    235799999994211          111    2233333321  1


Q ss_pred             CCCcEEEEecCChHHHH--hcC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          331 APGSKIIITTRNADAAL--IMG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       331 ~~gs~ilvTtR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      ..+..++.||..++...  ...   -...+.+...+.++-.+++..++-... ......    ...|+..+.|+.
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 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVD----LALLAKRTPGFV  236 (499)
T ss_dssp             SCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSC-CCCSST----THHHHTTSCSCC
T ss_pred             CccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCC-CChHHH----HHHHHHhcCCCC
Confidence            23456666777665421  111   224678888888888888876653211 111112    234777888876

>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=96.74  E-value=0.0041  Score=60.03  Aligned_cols=83  Identities=19%  Similarity=0.212  Sum_probs=54.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~~~  299 (475)
                      +++.|.|++|+|||||+.+++.....  .=..++|++....++..     ..+.++...     ....+.++....+...
T Consensus        62 ~i~~I~GppGsGKSTLal~la~~~~~--~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l  134 (356)
T 3hr8_A           62 RIVEIFGQESSGKTTLALHAIAEAQK--MGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDEL  134 (356)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH--TTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHh--cCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHHH
Confidence            79999999999999999999874321  11346788877777654     344444322     1244556666666655


Q ss_pred             hC-CceEEEEEECCCC
Q 046770          300 LF-GKRFLLVLDDVWN  314 (475)
Q Consensus       300 l~-~kr~LlVlDdv~~  314 (475)
                      +. .+.-++|+|.+..
T Consensus       135 ~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          135 VRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHTSCCSEEEEECTTT
T ss_pred             hhhcCCCeEEehHhhh
Confidence            53 4556999999843

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.70  E-value=0.0071  Score=56.33  Aligned_cols=126  Identities=15%  Similarity=0.066  Sum_probs=65.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHH-HHHhCCceE
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKL-KKQLFGKRF  305 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l-~~~l~~kr~  305 (475)
                      +.|+|++|+||||||+.++.....     ..+.+....-.+..                ..........+ +..-...+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~-----~~i~i~g~~l~~~~----------------~~~~~~~i~~vf~~a~~~~p~  105 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGL-----NFISVKGPELLNMY----------------VGESERAVRQVFQRAKNSAPC  105 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTC-----EEEEEETTTTCSST----------------THHHHHHHHHHHHHHHHTCSE
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCC-----CEEEEEcHHHHhhh----------------hhHHHHHHHHHHHHHHhcCCC
Confidence            899999999999999999874221     23344332211100                00000111111 111124578


Q ss_pred             EEEEECCCCCCh-----------hhHhHhhCcCCCC--CCCcEEEEecCChHHHH--hc---CCCceeeCCCCCHHHHHH
Q 046770          306 LLVLDDVWNENY-----------NDWIDLSRPFQDG--APGSKIIITTRNADAAL--IM---GTVQAYPLKGLSNDDCMC  367 (475)
Q Consensus       306 LlVlDdv~~~~~-----------~~~~~l~~~l~~~--~~gs~ilvTtR~~~v~~--~~---~~~~~~~l~~L~~~~~~~  367 (475)
                      ++++|++.....           .....+...+..+  ....-++.+|..+++..  ..   .-...+.+...+.++-.+
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            999999953210           0112222222211  22345566676654321  11   123567788888888888


Q ss_pred             HHhhcc
Q 046770          368 LFTQHS  373 (475)
Q Consensus       368 lf~~~~  373 (475)
                      +|....
T Consensus       186 il~~~~  191 (274)
T 2x8a_A          186 ILKTIT  191 (274)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            888665

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.60  E-value=0.0062  Score=59.15  Aligned_cols=82  Identities=18%  Similarity=0.149  Sum_probs=54.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~~~  299 (475)
                      .++.|.|.+|+||||||.+++....  ..-..++|++....++..     ..+.++...     ....+.+++...+...
T Consensus        75 ~li~I~G~pGsGKTtlal~la~~~~--~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l  147 (366)
T 1xp8_A           75 RITEIYGPESGGKTTLALAIVAQAQ--KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMELL  147 (366)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHHH--HCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHHH
Confidence            5888999999999999998876432  122368899988877654     233443321     1234566666667666


Q ss_pred             hC-CceEEEEEECCC
Q 046770          300 LF-GKRFLLVLDDVW  313 (475)
Q Consensus       300 l~-~kr~LlVlDdv~  313 (475)
                      .. +..-+||+|.+.
T Consensus       148 ~~~~~~~lVVIDsl~  162 (366)
T 1xp8_A          148 VRSGAIDVVVVDSVA  162 (366)
T ss_dssp             HTTTCCSEEEEECTT
T ss_pred             HhcCCCCEEEEeChH
Confidence            64 345599999984

>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=96.60  E-value=0.0079  Score=58.01  Aligned_cols=89  Identities=15%  Similarity=0.124  Sum_probs=54.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHHHhhcCC------------CCCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILRSVAMGI------------VDHN  287 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~------------~~~~  287 (475)
                      -.++.|+|++|+||||||.+++.......    .-..++|++....++...+.. ++..++...            ....
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~e  200 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTSE  200 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCHH
Confidence            36899999999999999999876422211    124688999888777766543 334433211            1111


Q ss_pred             ChHHHHHHHHHHhC---CceEEEEEECCC
Q 046770          288 DLNLLQWKLKKQLF---GKRFLLVLDDVW  313 (475)
Q Consensus       288 ~~~~l~~~l~~~l~---~kr~LlVlDdv~  313 (475)
                      ....+...+...+.   .+.-+||+|.+.
T Consensus       201 ~~~~ll~~l~~~i~~~~~~~~lvVIDsl~  229 (343)
T 1v5w_A          201 HQMELLDYVAAKFHEEAGIFKLLIIDSIM  229 (343)
T ss_dssp             HHHHHHHHHHHHHHHSCSSEEEEEEETSG
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEechH
Confidence            22233334444443   456699999983

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.57  E-value=0.006  Score=58.90  Aligned_cols=83  Identities=17%  Similarity=0.141  Sum_probs=53.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~~~  299 (475)
                      +++.|.|++|+||||||.+++....  ..=..++|++....++..     ..+.++...     ....+.++....+...
T Consensus        62 ~iv~I~G~pGsGKTtLal~la~~~~--~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l  134 (349)
T 2zr9_A           62 RVIEIYGPESSGKTTVALHAVANAQ--AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADML  134 (349)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            6899999999999999999876422  112357888888777643     233343221     1233456665556555


Q ss_pred             hC-CceEEEEEECCCC
Q 046770          300 LF-GKRFLLVLDDVWN  314 (475)
Q Consensus       300 l~-~kr~LlVlDdv~~  314 (475)
                      .. .+.-+||+|.+..
T Consensus       135 ~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          135 VRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HTTTCCSEEEEECGGG
T ss_pred             HhcCCCCEEEEcChHh
Confidence            53 3466999999843

>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=96.51  E-value=0.0051  Score=55.83  Aligned_cols=88  Identities=11%  Similarity=0.131  Sum_probs=51.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCCChHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------VDHNDLNL  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------~~~~~~~~  291 (475)
                      .++.|+|++|+|||||+..++.......    .-..++|++....++...+. .++..++...         ....+...
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~~  103 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTDH  103 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHHH
Confidence            5899999999999999999876321111    12467888877755554432 3333333211         01222222


Q ss_pred             H---HHHHHHHhC-CceEEEEEECCC
Q 046770          292 L---QWKLKKQLF-GKRFLLVLDDVW  313 (475)
Q Consensus       292 l---~~~l~~~l~-~kr~LlVlDdv~  313 (475)
                      .   ...+...+. .+.-+||||++.
T Consensus       104 ~~~~~~~~~~~~~~~~~~lliiD~~~  129 (243)
T 1n0w_A          104 QTQLLYQASAMMVESRYALLIVDSAT  129 (243)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHHHhcCCceEEEEeCch
Confidence            2   223444443 467799999984

>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=96.48  E-value=0.0086  Score=56.40  Aligned_cols=84  Identities=13%  Similarity=0.086  Sum_probs=54.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHH-HHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLL-QWKLKKQ  299 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l-~~~l~~~  299 (475)
                      ++.|.|++|+|||||+.+++........=..++|++..+.++..     .++.++....     ...+.++. ...+...
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            68999999999999998887643211112467899988888754     2555554321     23445554 4433333


Q ss_pred             --h-CCceEEEEEECCCC
Q 046770          300 --L-FGKRFLLVLDDVWN  314 (475)
Q Consensus       300 --l-~~kr~LlVlDdv~~  314 (475)
                        + .++.-|||+|-+..
T Consensus       105 ~~i~~~~~~lvVIDSI~a  122 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGN  122 (333)
T ss_dssp             HTCCTTCCEEEEEECSTT
T ss_pred             HHhhccCceEEEEecccc
Confidence              3 45678999999854

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.48  E-value=0.018  Score=53.50  Aligned_cols=179  Identities=12%  Similarity=0.060  Sum_probs=85.0

Q ss_pred             ccccccchhHHHHHHHHhcCCC------CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVELLLKEDG------TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~------~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|.+..+.++.+....-..      -+-  .-.+-+.|+|++|+|||||++.++...  .   ...+.+...     
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~--~~~~gvll~Gp~GtGKTtl~~~i~~~~--~---~~~i~~~~~-----  107 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGA--RIPKGVLLVGPPGVGKTHLARAVAGEA--R---VPFITASGS-----  107 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTC--CCCCEEEEECCTTSSHHHHHHHHHHHT--T---CCEEEEEHH-----
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCC--CCCCeEEEECCCcChHHHHHHHHHHHc--C---CCEEEecHH-----
Confidence            4678877666555544321000      000  001228899999999999999998743  2   122233221     


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCC----------Chhh----HhHhhCcCCCCC--C
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNE----------NYND----WIDLSRPFQDGA--P  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~----------~~~~----~~~l~~~l~~~~--~  332 (475)
                       .+    ....     .......+...++..-...+.++++||+...          ....    ...+...+..+.  .
T Consensus       108 -~~----~~~~-----~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~  177 (278)
T 1iy2_A          108 -DF----VEMF-----VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  177 (278)
T ss_dssp             -HH----HHST-----TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTC
T ss_pred             -HH----HHHH-----hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCC
Confidence             11    1000     0000011112222222345689999998310          0011    122322332221  2


Q ss_pred             CcEEEEecCChHHHH---h--cCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          333 GSKIIITTRNADAAL---I--MGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       333 gs~ilvTtR~~~v~~---~--~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      ...++.||..+....   .  ..-...+.+...+.++-.+++..++-.. .......    ...|+..+.|..
T Consensus       178 ~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~-~~~~~~~----~~~la~~~~G~~  245 (278)
T 1iy2_A          178 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGK-PLAEDVD----LALLAKRTPGFV  245 (278)
T ss_dssp             CEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHTCTTCC
T ss_pred             CEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccC-CCCcccC----HHHHHHHcCCCC
Confidence            234455666543311   1  1233568888888888888887654221 1111112    234777777765

>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=96.45  E-value=0.0054  Score=58.60  Aligned_cols=87  Identities=16%  Similarity=0.177  Sum_probs=54.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccccc---------Cc-----CeEEEEEecCCCCHHHHHHHHHHHhhcCC-------
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQC---------HF-----DLKAWTYVSQDFDIIRVTKSILRSVAMGI-------  283 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~---------~F-----~~~~wv~v~~~~~~~~~l~~il~~l~~~~-------  283 (475)
                      .++.|.|.+|+|||+||.+++.+.....         ..     ..++|++....++..++.. ++..++...       
T Consensus        99 ~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l  177 (322)
T 2i1q_A           99 SVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDNT  177 (322)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHTE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcCE
Confidence            6899999999999999999876421111         11     4678999888877766653 344443221       


Q ss_pred             --CCCCChH---HHHHHHHHHhC--CceEEEEEECC
Q 046770          284 --VDHNDLN---LLQWKLKKQLF--GKRFLLVLDDV  312 (475)
Q Consensus       284 --~~~~~~~---~l~~~l~~~l~--~kr~LlVlDdv  312 (475)
                        ....+.+   .+...+...+.  .+.-+||+|.+
T Consensus       178 ~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl  213 (322)
T 2i1q_A          178 FVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSL  213 (322)
T ss_dssp             EEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECS
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECc
Confidence              1122333   23344555553  45669999998

>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=96.44  E-value=0.0079  Score=57.49  Aligned_cols=88  Identities=16%  Similarity=0.215  Sum_probs=54.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCCChH-
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------VDHNDLN-  290 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------~~~~~~~-  290 (475)
                      .++.|+|++|+||||||.+++........    -..++|++....++..++.. ++..++...         ....+.+ 
T Consensus       108 ~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~~  186 (324)
T 2z43_A          108 TMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTDH  186 (324)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             cEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHHH
Confidence            58999999999999999998764211110    24678999888877666543 344443221         1122223 


Q ss_pred             --HHHHHHHHHhC--CceEEEEEECCC
Q 046770          291 --LLQWKLKKQLF--GKRFLLVLDDVW  313 (475)
Q Consensus       291 --~l~~~l~~~l~--~kr~LlVlDdv~  313 (475)
                        .+...+...+.  .+.-+||+|.+.
T Consensus       187 ~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          187 QIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence              23344555553  456799999983

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.41  E-value=0.0039  Score=56.07  Aligned_cols=114  Identities=14%  Similarity=-0.002  Sum_probs=59.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC--------------------
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV--------------------  284 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~--------------------  284 (475)
                      .++.|+|++|+|||||+..++......  -..+.|++...  ....+...+. .++....                    
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEKEDQ   98 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC----CT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEeccccccCce
Confidence            589999999999999999988532211  12355555433  3334333322 3221100                    


Q ss_pred             ---CCCChHHHHHHHHHHh---CCceEEEEEECCCCC---ChhhHhHhhCcCCC--CCCCcEEEEecCCh
Q 046770          285 ---DHNDLNLLQWKLKKQL---FGKRFLLVLDDVWNE---NYNDWIDLSRPFQD--GAPGSKIIITTRNA  343 (475)
Q Consensus       285 ---~~~~~~~l~~~l~~~l---~~kr~LlVlDdv~~~---~~~~~~~l~~~l~~--~~~gs~ilvTtR~~  343 (475)
                         ...+..++...+...+   .-+..+||||.....   +......+...+..  ...|..||++|...
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           99 WSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             TBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             eeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence               1114445555554444   222349999998421   22222333222221  12477888888865

>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=96.37  E-value=0.0011  Score=59.69  Aligned_cols=110  Identities=12%  Similarity=-0.039  Sum_probs=57.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC--CCCChHHHHHHHHHHhCC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV--DHNDLNLLQWKLKKQLFG  302 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~--~~~~~~~l~~~l~~~l~~  302 (475)
                      .++.|+|..|+||||++..+....  ..+-..++.+.......   ....++..++....  .......+...+.+.+.+
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~--~~~g~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~   87 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRL--EYADVKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFN   87 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH--HHTTCCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHhhC
Confidence            688999999999999998877632  22222233332222111   11122222222111  112234455555555544


Q ss_pred             ceE-EEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          303 KRF-LLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       303 kr~-LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      .++ +||+|.+...+.+..+.+ ..+.+  .|..||+|.+.
T Consensus        88 ~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           88 DETKVIGIDEVQFFDDRICEVA-NILAE--NGFVVIISGLD  125 (223)
T ss_dssp             TTCCEEEECSGGGSCTHHHHHH-HHHHH--TTCEEEEECCS
T ss_pred             CCCCEEEEecCccCcHHHHHHH-HHHHh--CCCeEEEEecc
Confidence            444 999999965433333333 22222  27789999984

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.37  E-value=0.0037  Score=55.24  Aligned_cols=42  Identities=24%  Similarity=0.217  Sum_probs=32.7

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          200 RSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       200 R~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      |++.++.|.+.+.....     ....+++|+|+.|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~-----~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKT-----AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCC-----SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            55667788887765221     3457999999999999999999876

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.15  E-value=0.011  Score=57.05  Aligned_cols=82  Identities=22%  Similarity=0.148  Sum_probs=52.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~~  299 (475)
                      +++.|.|.+|+||||||.+++.....  .=..++|++....++...     ...++....     ...+.+++...+...
T Consensus        64 ~ii~I~G~pGsGKTtLal~la~~~~~--~g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~~l  136 (356)
T 1u94_A           64 RIVEIYGPESSGKTTLTLQVIAAAQR--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDAL  136 (356)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHH--TTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHHHH
Confidence            58999999999999999998764321  123588998887776432     333432211     223445555555444


Q ss_pred             h-CCceEEEEEECCC
Q 046770          300 L-FGKRFLLVLDDVW  313 (475)
Q Consensus       300 l-~~kr~LlVlDdv~  313 (475)
                      . ..+.-+||+|.+.
T Consensus       137 ~~~~~~~lVVIDsl~  151 (356)
T 1u94_A          137 ARSGAVDVIVVDSVA  151 (356)
T ss_dssp             HHHTCCSEEEEECGG
T ss_pred             HhccCCCEEEEcCHH
Confidence            3 2445599999984

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.10  E-value=0.014  Score=54.99  Aligned_cols=24  Identities=25%  Similarity=0.239  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++.|+|++|+||||++..++..
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            369999999999999999988763

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=96.06  E-value=0.012  Score=51.31  Aligned_cols=51  Identities=20%  Similarity=0.218  Sum_probs=30.5

Q ss_pred             HHHHHHHhCCceE-EEEEECCCC---CChhhHhHhhCcCCCCCCCcEEEEecCCh
Q 046770          293 QWKLKKQLFGKRF-LLVLDDVWN---ENYNDWIDLSRPFQDGAPGSKIIITTRNA  343 (475)
Q Consensus       293 ~~~l~~~l~~kr~-LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~ilvTtR~~  343 (475)
                      ....++.+.+.+| |||||++-.   -.....+++...+........||+|+|..
T Consensus       109 l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          109 WQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            3345555655555 999999821   11123334444444444577999999984

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.05  E-value=0.017  Score=54.86  Aligned_cols=46  Identities=13%  Similarity=0.158  Sum_probs=33.1

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|-...+..+...+......    ....+++|.|+.|+|||||++.+..
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~~----~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPEP----KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCC----CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHHhccCCC----CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            455556666666655552211    4567999999999999999998865

>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=96.03  E-value=0.077  Score=47.76  Aligned_cols=23  Identities=26%  Similarity=0.596  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999864

>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=95.83  E-value=0.0045  Score=52.90  Aligned_cols=20  Identities=45%  Similarity=0.743  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCcHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLV  244 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v  244 (475)
                      .+|.|.|++|+||||+|+.+
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            37899999999999999999

>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=95.82  E-value=0.0042  Score=53.48  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|+|++|+||||+|+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999987

>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=95.81  E-value=0.0043  Score=52.94  Aligned_cols=22  Identities=18%  Similarity=0.155  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
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            4789999999999999999986

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.74  E-value=0.0085  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-.+|+|+|+.|+|||||++.+..-
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4479999999999999999998763

>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=95.71  E-value=0.0059  Score=53.23  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|++|+|||||++.+...
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            68999999999999999999874

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.67  E-value=0.0059  Score=52.52  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999986

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.64  E-value=0.012  Score=55.19  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|.|.|++|+||||+|+.+..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999999986

>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=95.64  E-value=0.018  Score=55.73  Aligned_cols=54  Identities=13%  Similarity=-0.028  Sum_probs=34.3

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc-cCcCeEEEEEecCCC
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFDLKAWTYVSQDF  266 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~wv~v~~~~  266 (475)
                      -++++.+.....       -..++|+|++|+|||||++.+.+..... ..+. ++++-+.+..
T Consensus       162 iraID~~~pi~r-------GQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~  216 (422)
T 3ice_A          162 ARVLDLASPIGR-------GQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERP  216 (422)
T ss_dssp             HHHHHHHSCCBT-------TCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCH
T ss_pred             ceeeeeeeeecC-------CcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCCh
Confidence            346676665322       1478999999999999999887632111 1222 3456677654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.59  E-value=0.0058  Score=52.93  Aligned_cols=22  Identities=14%  Similarity=0.480  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5899999999999999999976

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.53  E-value=0.0066  Score=53.48  Aligned_cols=22  Identities=32%  Similarity=0.389  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|+|++|+||||+++.+..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5899999999999999999986

>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=95.52  E-value=0.084  Score=49.76  Aligned_cols=90  Identities=14%  Similarity=0.078  Sum_probs=47.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH--HHHHHHHHHhhcCC---CCCCChHH-HHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII--RVTKSILRSVAMGI---VDHNDLNL-LQWK  295 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~--~~l~~il~~l~~~~---~~~~~~~~-l~~~  295 (475)
                      ....++.|+|++|+||||++..++.......  ..+.++.. +.+...  +-+...++..+...   ....+... ....
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 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAA-DTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEE-CTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcC--CEEEEEcc-ccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            3457999999999999999999876432111  12333433 233221  22333344433221   11122222 2334


Q ss_pred             HHHHhCCceEEEEEECCCC
Q 046770          296 LKKQLFGKRFLLVLDDVWN  314 (475)
Q Consensus       296 l~~~l~~kr~LlVlDdv~~  314 (475)
                      +...+....-++|+|....
T Consensus       179 l~~a~~~~~dvvIiDtpg~  197 (306)
T 1vma_A          179 VAHALARNKDVVIIDTAGR  197 (306)
T ss_dssp             HHHHHHTTCSEEEEEECCC
T ss_pred             HHHHHhcCCCEEEEECCCc
Confidence            5554444455888897743

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.52  E-value=0.0064  Score=58.57  Aligned_cols=45  Identities=16%  Similarity=0.214  Sum_probs=32.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.+..+..+...+.. .       ...-+.|+|++|+|||+||+.+.+.
T Consensus        24 ~~i~G~~~~~~~l~~~~~~-~-------~~~~vLl~G~~GtGKT~la~~la~~   68 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVD-P-------GIGGVLVFGDRGTGKSTAVRALAAL   68 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHC-G-------GGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhC-C-------CCceEEEECCCCccHHHHHHHHHHh
Confidence            3588988766555444433 1       1123889999999999999999874

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.49  E-value=0.0057  Score=52.35  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|+.|+|||||++.+..
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            4789999999999999999987

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.44  E-value=0.007  Score=52.44  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.|.|+|++|+||||+|+.+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999999986

>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=95.43  E-value=0.0097  Score=52.42  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -.+|.|+|+.|+|||||++.+...
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            378999999999999999999873

>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=95.40  E-value=0.06  Score=53.33  Aligned_cols=24  Identities=25%  Similarity=0.425  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.++|.+|+||||++..++.
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            468999999999999999988765

>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=95.40  E-value=0.043  Score=53.82  Aligned_cols=87  Identities=16%  Similarity=0.159  Sum_probs=49.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccc----cCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC---------CCCCChHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQ----CHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI---------VDHNDLNL  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~---------~~~~~~~~  291 (475)
                      .++.|+|++|+|||||+..++-.....    ..-..++|++....+....+ ..+.+.++...         ....+...
T Consensus       179 ei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~~  257 (400)
T 3lda_A          179 SITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNADH  257 (400)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChHH
Confidence            589999999999999999765211111    12245888887776665543 23444443211         11122222


Q ss_pred             ---HHHHHHHHh-CCceEEEEEECC
Q 046770          292 ---LQWKLKKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       292 ---l~~~l~~~l-~~kr~LlVlDdv  312 (475)
                         ....+...+ ..+.-+||+|.+
T Consensus       258 ~~~~l~~~~~~l~~~~~~llVIDs~  282 (400)
T 3lda_A          258 QLRLLDAAAQMMSESRFSLIVVDSV  282 (400)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETG
T ss_pred             HHHHHHHHHHHHHhcCCceEEecch
Confidence               222222332 245679999997

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.38  E-value=0.014  Score=53.50  Aligned_cols=25  Identities=24%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|.|+|++|+||||+|+.+..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4557899999999999999999976

>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=95.37  E-value=0.029  Score=54.10  Aligned_cols=46  Identities=20%  Similarity=0.212  Sum_probs=31.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCc---C-eEEEEEecCCCCHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHF---D-LKAWTYVSQDFDII  269 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F---~-~~~wv~v~~~~~~~  269 (475)
                      -.++.|+|++|+|||||+..++.........   . .++|++....+...
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~  180 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE  180 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHH
Confidence            3799999999999999999987642111111   2 34888876655433

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.36  E-value=0.0085  Score=52.12  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|.|.|++|+||||+|+.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999873

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.35  E-value=0.0093  Score=51.93  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|.|++|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999986

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.34  E-value=0.0072  Score=53.28  Aligned_cols=24  Identities=17%  Similarity=0.466  Sum_probs=21.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.|.|+.|+||||+|+.+...
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999763

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.32  E-value=0.071  Score=50.57  Aligned_cols=50  Identities=16%  Similarity=0.126  Sum_probs=35.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS  278 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~  278 (475)
                      .++.|.|.+|+||||||.+++.+.....  ..++|++..  .+..++...++..
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            5899999999999999999876432222  467777655  4556666666554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.30  E-value=0.0091  Score=52.59  Aligned_cols=22  Identities=27%  Similarity=0.407  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHh
Confidence            5899999999999999999876

>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=95.29  E-value=0.014  Score=54.84  Aligned_cols=81  Identities=15%  Similarity=0.113  Sum_probs=44.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCccccc-CcCeEEEEEecCCCCHHHHHHHHHHHh-----hc--CCCCCCChHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC-HFDLKAWTYVSQDFDIIRVTKSILRSV-----AM--GIVDHNDLNLLQ  293 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~wv~v~~~~~~~~~l~~il~~l-----~~--~~~~~~~~~~l~  293 (475)
                      ....+|+|+|+.|+||||||+.+........ .......|+...-+-.......+....     ..  ..+...+...+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l~~~~~~~~l~~~~g~p~a~d~~~l~  108 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  108 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHHhccccccchhhhccCcchhHHHHHH
Confidence            4567999999999999999998876332211 122344434444333333333332221     00  124455666666


Q ss_pred             HHHHHHhCC
Q 046770          294 WKLKKQLFG  302 (475)
Q Consensus       294 ~~l~~~l~~  302 (475)
                      +.+.....+
T Consensus       109 ~~l~~l~~g  117 (290)
T 1odf_A          109 EVLNTIFNN  117 (290)
T ss_dssp             HHHHHHTC-
T ss_pred             HHHHHhhcc
Confidence            666666554

>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=95.27  E-value=0.013  Score=50.20  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.++.|+|+.|+||||+++.+..
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            36899999999999999999876

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.24  E-value=0.021  Score=57.38  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.|.|.+|+||||++..+...
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            8899999999999999988764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.24  E-value=0.0096  Score=51.06  Aligned_cols=22  Identities=41%  Similarity=0.679  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.++.
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHcc
Confidence            6899999999999999997553

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.24  E-value=0.015  Score=52.00  Aligned_cols=39  Identities=23%  Similarity=0.311  Sum_probs=28.7

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++..+.+...+..        .....|.|+|.+|+|||||+..+...
T Consensus        23 ~~~a~~~r~~~~~--------~~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           23 KRLADKNRKLLNK--------HGVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             HHHHHHHHHHHHH--------TTCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--------CCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3344555555544        45688999999999999999998864

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.24  E-value=0.0091  Score=50.86  Aligned_cols=25  Identities=36%  Similarity=0.503  Sum_probs=20.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|.|.|+.|+||||+|+.+..
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999987

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.21  E-value=0.014  Score=56.79  Aligned_cols=52  Identities=23%  Similarity=0.242  Sum_probs=34.9

Q ss_pred             cccccchhHHHHHHHHhcC------CCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKE------DGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~------~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|.+..++.+...+...      ... .........+.++|++|+|||++|+.+++.
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            4688888888887777210      000 000012356889999999999999999874

>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=95.21  E-value=0.03  Score=55.71  Aligned_cols=50  Identities=18%  Similarity=0.239  Sum_probs=33.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSIL  276 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il  276 (475)
                      .++|+|.+|+|||||++.+..+.... +-+.++++.+.+..+ ..+++..+.
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~  203 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMK  203 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhh
Confidence            57899999999999999988753222 234556777766553 334444443

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.19  E-value=0.011  Score=52.33  Aligned_cols=24  Identities=42%  Similarity=0.378  Sum_probs=21.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++|+|+.|+|||||++.+..
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            346899999999999999999876

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.19  E-value=0.0098  Score=51.64  Aligned_cols=22  Identities=41%  Similarity=0.650  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+++.+..
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            4789999999999999999987

>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=95.18  E-value=0.03  Score=59.82  Aligned_cols=159  Identities=15%  Similarity=0.090  Sum_probs=75.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCC-----CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGT-----SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~-----~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|-+..+++|.+.+.-.-..     .......+-+.++|++|.|||.||+.+++..  ...     ++.++.     
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~--~~~-----f~~v~~-----  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC--QAN-----FISIKG-----  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT--TCE-----EEECCH-----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh--CCc-----eEEecc-----
Confidence            45677777777776655321000     0001233557899999999999999999853  222     222321     


Q ss_pred             HHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------hh----hHhHhhCcCC--CCCCC
Q 046770          270 RVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------YN----DWIDLSRPFQ--DGAPG  333 (475)
Q Consensus       270 ~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~~----~~~~l~~~l~--~~~~g  333 (475)
                         .+++..     ........+.......-+..+++|+||++..--          ..    ...+++..+.  ....+
T Consensus       545 ---~~l~s~-----~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~  616 (806)
T 3cf2_A          545 ---PELLTM-----WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  616 (806)
T ss_dssp             ---HHHHTT-----TCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSS
T ss_pred             ---chhhcc-----ccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCC
Confidence               112211     122233333333333335678999999984310          00    1222332222  12233


Q ss_pred             cEEEEecCChHH---HHhc--CCCceeeCCCCCHHHHHHHHhhcc
Q 046770          334 SKIIITTRNADA---ALIM--GTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       334 s~ilvTtR~~~v---~~~~--~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      .-||-||..++.   +..-  .-...+.+..-+.++-.++|+.+.
T Consensus       617 V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l  661 (806)
T 3cf2_A          617 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  661 (806)
T ss_dssp             EEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTS
T ss_pred             EEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHh
Confidence            345556654322   2211  123556676666666667776554

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.18  E-value=0.011  Score=52.13  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999986

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.18  E-value=0.011  Score=52.61  Aligned_cols=23  Identities=30%  Similarity=0.619  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.+...
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            68999999999999999999874

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.16  E-value=0.012  Score=51.23  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
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            4789999999999999999975

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.13  E-value=0.011  Score=54.35  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|.|++|+||||||+.++..
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999999763

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.12  E-value=0.013  Score=51.60  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=22.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|+|.|+.|+||||+++.+.+
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            3457899999999999999999986

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.12  E-value=0.012  Score=51.62  Aligned_cols=25  Identities=36%  Similarity=0.511  Sum_probs=22.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+..+|+|+|+.|+||||+++.+..
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            3457999999999999999999987

>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=95.10  E-value=0.0084  Score=52.22  Aligned_cols=22  Identities=32%  Similarity=0.528  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.|.|+|++|+|||||++.+..
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999876

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.09  E-value=0.0091  Score=51.51  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++|.|+|++|+||||+++.+..
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            35788999999999999999986

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=95.09  E-value=0.14  Score=50.88  Aligned_cols=65  Identities=20%  Similarity=0.280  Sum_probs=44.7

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRS  278 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~  278 (475)
                      +.++.|.....+       .-++|.|..|+|||+|++.+.++. .+.+-+.++++-+.+... ..+++.++...
T Consensus       142 r~ID~l~pigkG-------Qr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPYAKG-------GKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCEETT-------CEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecccccccC-------CeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            467777663322       357899999999999999988742 123446678888887654 45566666654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.07  E-value=0.012  Score=51.17  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.07  E-value=0.063  Score=51.31  Aligned_cols=49  Identities=18%  Similarity=0.028  Sum_probs=33.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      .++.|.|.+|+||||||..++.+...  .=..++|++..  .+..++...++.
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHH
Confidence            58899999999999999998775322  11345666553  445566666544

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.05  E-value=0.013  Score=50.76  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|+|+.|+|||||++.++..
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            5789999999999999998764

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.04  E-value=0.014  Score=52.24  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=23.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.++|.|.|++|+||||.|+.+.+.
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56689999999999999999999873

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.03  E-value=0.015  Score=51.48  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|+|+|++|+|||||++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999874

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.01  E-value=0.012  Score=51.93  Aligned_cols=23  Identities=26%  Similarity=0.599  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.+...
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999764

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.01  E-value=0.014  Score=51.55  Aligned_cols=22  Identities=41%  Similarity=0.537  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.01  E-value=0.012  Score=51.33  Aligned_cols=22  Identities=23%  Similarity=0.439  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+.+
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999986

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.00  E-value=0.013  Score=50.86  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...|.|+|+.|+||||+++.+..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999987

>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=94.99  E-value=0.012  Score=52.82  Aligned_cols=22  Identities=36%  Similarity=0.530  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|+.|+||||+++.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=94.98  E-value=0.012  Score=51.65  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|+|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            5889999999999999999873

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.98  E-value=0.0097  Score=51.09  Aligned_cols=22  Identities=36%  Similarity=0.533  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..|.|.|++|+||||+|+.+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3588999999999999999987

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=94.97  E-value=0.0096  Score=52.65  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.|+|++|+|||||++.+...
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            368899999999999999999863

>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=94.93  E-value=0.012  Score=51.80  Aligned_cols=22  Identities=32%  Similarity=0.478  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3689999999999999999986

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.91  E-value=0.011  Score=52.07  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999999875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.90  E-value=0.017  Score=51.56  Aligned_cols=41  Identities=27%  Similarity=0.254  Sum_probs=30.1

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          199 GRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       199 GR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +..+..+.+...+..        ...++|.|+|.+|+|||||+..+...
T Consensus        13 ~~~~~~~~~~~~~~~--------~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           13 ENKRLAEKNREALRE--------SGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HHHHHHHHHHHHHHH--------HTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHhhcc--------cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            334445555555543        45689999999999999999998764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=94.89  E-value=0.0096  Score=51.52  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +|.|+|++|+||||+|+.+..
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            589999999999999999987

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.89  E-value=0.015  Score=50.39  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+++.+.+
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999986

>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=94.86  E-value=0.015  Score=53.62  Aligned_cols=23  Identities=22%  Similarity=0.535  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|.|++|+||||+|+.+..
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            46899999999999999999986

>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=94.82  E-value=0.12  Score=51.01  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=21.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++.++|++|+||||++..++..
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

>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=94.80  E-value=0.019  Score=49.84  Aligned_cols=23  Identities=30%  Similarity=0.323  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|.|++|+||||+|+.+..
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            46899999999999999999986

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.79  E-value=0.012  Score=50.30  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
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            3689999999999999999987

>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=94.77  E-value=0.018  Score=50.44  Aligned_cols=25  Identities=32%  Similarity=0.603  Sum_probs=22.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999987

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.77  E-value=0.22  Score=49.37  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=21.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...++|.++|.+|+||||++..++.
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            3568999999999999999988875

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.77  E-value=0.016  Score=51.21  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|.|.|++|+||||+|+.+...
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            58999999999999999999874

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.76  E-value=0.014  Score=51.07  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>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=94.75  E-value=0.016  Score=49.58  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+++.|+|+.|+|||||+..+...
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            4579999999999999999998874

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.75  E-value=0.019  Score=49.75  Aligned_cols=25  Identities=36%  Similarity=0.364  Sum_probs=21.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|.|.|++|+||||+++.+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999874

>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=94.75  E-value=0.016  Score=52.87  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+++|+|+.|+|||||++.+..
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            35899999999999999999984

>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=94.74  E-value=0.015  Score=51.04  Aligned_cols=23  Identities=17%  Similarity=0.498  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -++++|+|+.|+|||||++.+..
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECcCCCCHHHHHHHHHh
Confidence            36899999999999999999986

>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=94.70  E-value=0.019  Score=50.51  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|+|++|+||||+|+.+..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999986

>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=94.69  E-value=0.017  Score=51.14  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5899999999999999999876

>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=94.69  E-value=0.018  Score=52.81  Aligned_cols=25  Identities=12%  Similarity=0.224  Sum_probs=21.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|+|.|+.|+||||+|+.+..
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            3457899999999999999999876

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.67  E-value=0.017  Score=49.04  Aligned_cols=21  Identities=29%  Similarity=0.431  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.|.|+.|+||||+|+.+..
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            588999999999999999987

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.67  E-value=0.016  Score=50.32  Aligned_cols=21  Identities=38%  Similarity=0.691  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +|+|.|+.|+||||+++.+.+
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            689999999999999999987

>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=94.63  E-value=0.12  Score=51.63  Aligned_cols=98  Identities=19%  Similarity=0.264  Sum_probs=60.2

Q ss_pred             HHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcC---
Q 046770          207 IVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMG---  282 (475)
Q Consensus       207 l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~---  282 (475)
                      .++.|.....+       .-++|.|..|+|||+|+..+.++. .+.+-+.++++-+.+... ..+++.++...-...   
T Consensus       155 vID~l~pigkG-------qr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~  226 (498)
T 1fx0_B          155 VVNLLAPYRRG-------GKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQN  226 (498)
T ss_dssp             THHHHSCCCTT-------CCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSST
T ss_pred             EeeeecccccC-------CeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhccccccccc
Confidence            57777663322       247899999999999999988742 223457788888887764 455666665431111   


Q ss_pred             ----CC-----CCCC-------hHHHHHHHHHHh---CCceEEEEEECC
Q 046770          283 ----IV-----DHND-------LNLLQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       283 ----~~-----~~~~-------~~~l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                          ..     ..++       .....-.+.+++   +++.+||++||+
T Consensus       227 l~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsi  275 (498)
T 1fx0_B          227 IAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNI  275 (498)
T ss_dssp             TCCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECS
T ss_pred             ccccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence                00     1111       111222344555   468999999998

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.62  E-value=0.11  Score=52.73  Aligned_cols=50  Identities=6%  Similarity=0.054  Sum_probs=33.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      .++.|.|.+|+||||||.+++.+.... +=..++|++...  +..++...++.
T Consensus       243 ~l~li~G~pG~GKT~lal~~a~~~a~~-~g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          243 EVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             eEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHHH
Confidence            588999999999999999987743222 113567776644  44555555543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.56  E-value=0.022  Score=51.88  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+|+|.|+.|+|||||++.+..
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999876

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.55  E-value=0.012  Score=50.83  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=16.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|.|++|+||||+|+.+..
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            35899999999999999999976

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.52  E-value=0.099  Score=52.32  Aligned_cols=49  Identities=12%  Similarity=0.135  Sum_probs=32.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSIL  276 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il  276 (475)
                      .++.|.|.+|+|||||+..++.+..... =..++|++...  +...+...++
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~~~~-g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVATKT-NENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHHS-SCCEEEEESSS--CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECCC--CHHHHHHHHH
Confidence            5899999999999999999887532221 12466766543  3345554443

>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=94.52  E-value=0.022  Score=53.95  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++|+|+.|+|||||++.+..
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~g  112 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQA  112 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHh
Confidence            447999999999999999999876

>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=94.52  E-value=0.023  Score=48.01  Aligned_cols=22  Identities=36%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||++.++.
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g   55 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQ   55 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.49  E-value=0.037  Score=53.01  Aligned_cols=42  Identities=26%  Similarity=0.359  Sum_probs=28.6

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.-.+.+.+.+...-..    +....+.|+|++|+||||+++.++.
T Consensus         5 ~~L~~~il~~l~~~i~~----g~~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIED----NYRVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             HHHHHHHHHHHHHTTTT----CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc----CCeeEEEEECCCCCcHHHHHHHHHH
Confidence            34455565555421111    3456789999999999999998876

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.47  E-value=0.02  Score=50.75  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.|.|+.|+||||+++.+.+.
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            358999999999999999999873

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.43  E-value=0.017  Score=51.75  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999999876

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=94.41  E-value=0.24  Score=47.85  Aligned_cols=53  Identities=17%  Similarity=0.193  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCC
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQD  265 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~  265 (475)
                      -++++.|.....+       .-++|+|.+|+|||+|+..+.+.... .+-+ .++++-+.+.
T Consensus       163 iraID~l~PigrG-------QR~lIfg~~g~GKT~Ll~~Ia~~i~~-~~~dv~~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIGKG-------QRGMIVAPPKAGKTTILKEIANGIAE-NHPDTIRIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCBTT-------CEEEEEECTTCCHHHHHHHHHHHHHH-HCTTSEEEEEECSCC
T ss_pred             chhhhhcccccCC-------ceEEEecCCCCChhHHHHHHHHHHhh-cCCCeEEEEEEeccC
Confidence            4677888763322       35789999999999999988874221 1222 2345666554

>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=94.40  E-value=0.021  Score=51.15  Aligned_cols=23  Identities=22%  Similarity=0.374  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.+...
T Consensus        17 ~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           17 TLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999998763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.38  E-value=0.02  Score=50.63  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            368999999999999999999873

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.37  E-value=0.021  Score=50.80  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.|.|++|+||||+|+.+..
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            478999999999999999976

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.37  E-value=0.033  Score=48.99  Aligned_cols=37  Identities=11%  Similarity=0.072  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +..+..++...       ++-..+.|+|++|+||||+|..+++.
T Consensus        45 ~~~l~~~~~~i-------Pkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           45 LGALKSFLKGT-------PKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHTC-------TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-------CcccEEEEECCCCCCHHHHHHHHHHH
Confidence            45566666441       22346899999999999999888874

>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=94.36  E-value=0.013  Score=52.07  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999998763

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.36  E-value=0.022  Score=52.22  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|+.|+|||||++.+..
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~   49 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAE   49 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999985

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=94.32  E-value=0.022  Score=50.91  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..|.|.|++|+||||+|+.+..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999987

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.31  E-value=0.02  Score=51.40  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...|.|.|++|+||||+|+.+..
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            35799999999999999999986

>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=94.31  E-value=0.02  Score=52.46  Aligned_cols=149  Identities=12%  Similarity=0.088  Sum_probs=72.5

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEE
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFL  306 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~L  306 (475)
                      +.|+|++|+|||||++.++...  ..   ..+.++..      .+    ....     .......+...++..-...+.+
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~--~~---~~i~~~~~------~~----~~~~-----~~~~~~~i~~~~~~~~~~~~~i  111 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEA--RV---PFITASGS------DF----VEMF-----VGVGAARVRDLFETAKRHAPCI  111 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT--TC---CEEEEEHH------HH----HHSC-----TTHHHHHHHHHHHHHTTSSSEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHh--CC---CEEEeeHH------HH----HHHH-----hhHHHHHHHHHHHHHHhcCCeE
Confidence            8899999999999999999743  21   12222211      11    1000     0000111112222222345689


Q ss_pred             EEEECCCCC----------Chhh----HhHhhCcCCCC--CCCcEEEEecCChHHHH--hc---CCCceeeCCCCCHHHH
Q 046770          307 LVLDDVWNE----------NYND----WIDLSRPFQDG--APGSKIIITTRNADAAL--IM---GTVQAYPLKGLSNDDC  365 (475)
Q Consensus       307 lVlDdv~~~----------~~~~----~~~l~~~l~~~--~~gs~ilvTtR~~~v~~--~~---~~~~~~~l~~L~~~~~  365 (475)
                      +++||+...          ....    ...+...+..+  .....++.||..+....  ..   .-...+.+...+.++-
T Consensus       112 ~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r  191 (254)
T 1ixz_A          112 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGR  191 (254)
T ss_dssp             EEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHH
T ss_pred             EEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHH
Confidence            999998311          0011    12232222221  12334555666654321  11   1235678888888888


Q ss_pred             HHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCch
Q 046770          366 MCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLP  400 (475)
Q Consensus       366 ~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~P  400 (475)
                      .+++....-... ......+    ..|++.+.|.-
T Consensus       192 ~~il~~~~~~~~-~~~~~~~----~~la~~~~G~~  221 (254)
T 1ixz_A          192 EQILRIHARGKP-LAEDVDL----ALLAKRTPGFV  221 (254)
T ss_dssp             HHHHHHHHTTSC-BCTTCCH----HHHHHTCTTCC
T ss_pred             HHHHHHHHcCCC-CCcccCH----HHHHHHcCCCC
Confidence            888876542211 1111122    34777777754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.27  E-value=0.028  Score=52.45  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=21.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|+|+|+.|+||||+|+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999873

>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=94.25  E-value=0.027  Score=53.48  Aligned_cols=25  Identities=28%  Similarity=0.474  Sum_probs=21.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+.+||+|.|-||+||||.+-.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            3568999999999999999977754

>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=94.23  E-value=0.023  Score=50.50  Aligned_cols=21  Identities=24%  Similarity=0.471  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.|.|++|+||||+|+.+..
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            478999999999999999976

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.22  E-value=0.028  Score=48.36  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+|.|+|+.|+||||+++.+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999999977

>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=94.20  E-value=0.024  Score=49.77  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|+|.|+.|+||||+++.+.+.
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999874

>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=94.19  E-value=0.027  Score=50.46  Aligned_cols=44  Identities=20%  Similarity=0.257  Sum_probs=30.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccc---cc-CcCeEEEEEecCCCCH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRV---QC-HFDLKAWTYVSQDFDI  268 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~---~~-~F~~~~wv~v~~~~~~  268 (475)
                      .+++|+|+.|+|||||++.++.....   .. .-...+|+.....+..
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~   73 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP   73 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCH
Confidence            68999999999999999999752111   11 1235777776554443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.19  E-value=0.075  Score=61.96  Aligned_cols=83  Identities=23%  Similarity=0.147  Sum_probs=54.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCC-----CCCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGI-----VDHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~-----~~~~~~~~l~~~l~  297 (475)
                      .-+++.|+|++|+|||+||.++....  ...=..++|+++...++...     ++.++...     ......+...+.++
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea--~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            34689999999999999999987742  22223578888888777655     33443211     12233455555565


Q ss_pred             HHh-CCceEEEEEECC
Q 046770          298 KQL-FGKRFLLVLDDV  312 (475)
Q Consensus       298 ~~l-~~kr~LlVlDdv  312 (475)
                      ... +.+.-+||+|.+
T Consensus      1499 ~lvr~~~~~lVVIDsi 1514 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSV 1514 (2050)
T ss_dssp             HHHHHTCCSEEEESCG
T ss_pred             HHHhcCCCCEEEEcCh
Confidence            554 356779999998

>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=94.18  E-value=0.028  Score=53.07  Aligned_cols=23  Identities=35%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+++|+|++|+|||||+..++.
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lag  124 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGR  124 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            46999999999999999999875

>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=94.13  E-value=0.029  Score=51.08  Aligned_cols=24  Identities=21%  Similarity=0.129  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.|.|++|+||||+|+.+.+
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            346899999999999999999976

>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=94.12  E-value=0.18  Score=49.82  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|+|++|+||||++..++..
T Consensus        99 ~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           99 NLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999999888753

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.12  E-value=0.056  Score=51.07  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=21.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|+|+|+.|+|||||++.+..
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            347999999999999999999876

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.09  E-value=0.031  Score=49.79  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|.|+.|+||||+++.+..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.09  E-value=0.022  Score=51.00  Aligned_cols=23  Identities=30%  Similarity=0.242  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...|.|.|++|+||||+++.+..
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            35789999999999999999987

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.05  E-value=0.018  Score=49.40  Aligned_cols=23  Identities=35%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|..|+|||||++.+..-
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998763

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.01  E-value=0.032  Score=49.44  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998773

>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=93.99  E-value=0.11  Score=53.48  Aligned_cols=103  Identities=16%  Similarity=0.094  Sum_probs=51.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHH-HHh---
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLK-KQL---  300 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~-~~l---  300 (475)
                      +++.|+|++|+||||++..+.......   ...+.+......-..    .+-+.++..   ..+...+..... .+.   
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~---g~~Vl~~ApT~~Aa~----~L~e~~~~~---a~Tih~ll~~~~~~~~~~~  274 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESL---GLEVGLCAPTGKAAR----RLGEVTGRT---ASTVHRLLGYGPQGFRHNH  274 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEEESSHHHHH----HHHHHHTSC---EEEHHHHTTEETTEESCSS
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhc---CCeEEEecCcHHHHH----HhHhhhccc---HHHHHHHHcCCcchhhhhh
Confidence            588899999999999998887632211   123334333321111    221221111   011110000000 000   


Q ss_pred             --CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec
Q 046770          301 --FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       301 --~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                        ..+.-+||+|++...+...+..+...++   .+.++|+.-
T Consensus       275 ~~~~~~dvlIIDEasml~~~~~~~Ll~~~~---~~~~lilvG  313 (574)
T 3e1s_A          275 LEPAPYDLLIVDEVSMMGDALMLSLLAAVP---PGARVLLVG  313 (574)
T ss_dssp             SSCCSCSEEEECCGGGCCHHHHHHHHTTSC---TTCEEEEEE
T ss_pred             cccccCCEEEEcCccCCCHHHHHHHHHhCc---CCCEEEEEe
Confidence              0012389999997666666777776665   456676654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.97  E-value=0.018  Score=51.85  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=15.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHH-c
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY-N  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~-~  246 (475)
                      .+++|+|+.|+|||||++.+. .
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~   50 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEK   50 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            589999999999999999998 5

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.95  E-value=0.37  Score=48.59  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=20.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...++|.|+|.+|+||||++..++.
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            3567999999999999999998874

>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=93.95  E-value=0.028  Score=50.91  Aligned_cols=22  Identities=36%  Similarity=0.572  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            4899999999999999999865

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.95  E-value=0.03  Score=50.86  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
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            6899999999999999999975

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.90  E-value=0.027  Score=49.16  Aligned_cols=22  Identities=36%  Similarity=0.381  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +++|+|+.|+|||||++.++..
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            6899999999999999988764

>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=93.88  E-value=0.031  Score=48.05  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+++.|+|+.|+|||||+..+...
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            3578999999999999999998864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.87  E-value=0.029  Score=50.41  Aligned_cols=22  Identities=45%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4899999999999999999875

>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=93.84  E-value=0.031  Score=49.18  Aligned_cols=21  Identities=33%  Similarity=0.452  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +|+|.|+.|+||||+++.+..
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            899999999999999999976

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.77  E-value=0.028  Score=50.10  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..|.|.|++|+||||+|+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4688999999999999999987

>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=93.75  E-value=0.031  Score=55.45  Aligned_cols=53  Identities=17%  Similarity=0.268  Sum_probs=34.6

Q ss_pred             ccccccchhHHHHHHHHhcC------CCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKE------DGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~------~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|-+..++.|...+...      ..........+-+.++|++|+||||+|+.++..
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~   73 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   73 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHH
Confidence            35788887777776665320      000000012345889999999999999999873

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=93.73  E-value=0.16  Score=51.29  Aligned_cols=58  Identities=12%  Similarity=0.146  Sum_probs=40.5

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH-HHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI-IRVTKS  274 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~-~~~l~~  274 (475)
                      ++++.|.....+       .-++|.|..|+|||+|++.+.+.    .+-+.++++-+.+.... .+++..
T Consensus       216 rvID~l~PigkG-------qr~~I~g~~g~GKT~L~~~ia~~----~~~~~~V~~~iGER~~Ev~e~~~~  274 (588)
T 3mfy_A          216 RVIDTFFPQAKG-------GTAAIPGPAGSGKTVTQHQLAKW----SDAQVVIYIGCGERGNEMTDVLEE  274 (588)
T ss_dssp             HHHHHHSCEETT-------CEEEECSCCSHHHHHHHHHHHHH----SSCSEEEEEECCSSSSHHHHHHHH
T ss_pred             chhhccCCcccC-------CeEEeecCCCCCHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHH
Confidence            467777663322       36799999999999999998763    23357888888877654 344433

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.65  E-value=0.036  Score=52.90  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|+|.|+.|+||||||..++..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            58999999999999999998873

>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=93.64  E-value=0.2  Score=48.95  Aligned_cols=46  Identities=28%  Similarity=0.306  Sum_probs=31.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|....+.++.+.+.....     .+.+ |.|.|..|+|||++|+.+...
T Consensus       138 ~~ig~s~~m~~l~~~i~~~a~-----~~~~-vli~Ge~GtGK~~lAr~ih~~  183 (387)
T 1ny5_A          138 EYVFESPKMKEILEKIKKISC-----AECP-VLITGESGVGKEVVARLIHKL  183 (387)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT-----CCSC-EEEECSTTSSHHHHHHHHHHH
T ss_pred             hhhhccHHhhHHHHHHHHhcC-----CCCC-eEEecCCCcCHHHHHHHHHHh
Confidence            356666667777666554221     2334 489999999999999998763

>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=93.64  E-value=0.036  Score=49.10  Aligned_cols=22  Identities=27%  Similarity=0.457  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|.|.|++|+||||.|+.+...
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999873

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.64  E-value=0.044  Score=52.14  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|.|+|+.|+||||||..++..
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999874

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.63  E-value=0.029  Score=49.81  Aligned_cols=23  Identities=35%  Similarity=0.322  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.++.-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            37999999999999999998753

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.62  E-value=0.043  Score=51.72  Aligned_cols=23  Identities=35%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+++|+|+.|+||||++..++.
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            36999999999999999998876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.61  E-value=0.036  Score=49.70  Aligned_cols=21  Identities=38%  Similarity=0.496  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.|.|++|+||||+|+.+..
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            578999999999999999986

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.60  E-value=0.057  Score=46.69  Aligned_cols=25  Identities=32%  Similarity=0.352  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|.|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457889999999999999998874

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.60  E-value=0.028  Score=51.41  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|+|+.|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999987

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=93.60  E-value=0.036  Score=50.30  Aligned_cols=23  Identities=26%  Similarity=0.577  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999999764

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.59  E-value=0.035  Score=51.55  Aligned_cols=22  Identities=41%  Similarity=0.572  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            4899999999999999999865

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.55  E-value=0.036  Score=51.11  Aligned_cols=22  Identities=41%  Similarity=0.614  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        33 e~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4899999999999999999865

>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=93.55  E-value=0.036  Score=49.24  Aligned_cols=21  Identities=29%  Similarity=0.401  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.|.|++|+||||+|+.+..
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            378999999999999999987

>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=93.54  E-value=0.037  Score=49.90  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+|.|.|++|+||||+++.+..
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            35899999999999999999986

>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=93.47  E-value=0.043  Score=51.59  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|.|+|+.|+||||||..++..
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHh
Confidence            68999999999999999999864

>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=93.45  E-value=0.081  Score=51.09  Aligned_cols=37  Identities=27%  Similarity=0.381  Sum_probs=27.5

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+...+.. ..     .+..+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~-~~-----~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLP-DS-----GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGG-GC-----CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHh-hc-----CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4455555543 11     4568999999999999999998865

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.45  E-value=0.039  Score=50.15  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999965

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.44  E-value=0.041  Score=52.12  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+|.|+|+.|+||||||..++..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999873

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.43  E-value=0.23  Score=49.50  Aligned_cols=51  Identities=16%  Similarity=0.090  Sum_probs=34.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRS  278 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~  278 (475)
                      .++.|.|.+|+||||||..++.+..... =..++|++..  .+..++...++..
T Consensus       201 ~l~ii~G~pg~GKT~lal~ia~~~a~~~-g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          201 SLNIIAARPAMGKTAFALTIAQNAALKE-GVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEECC--CCHHHHHHHHHHH
Confidence            5889999999999999999877432211 1346776654  3455666666543

>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=93.43  E-value=0.43  Score=43.00  Aligned_cols=101  Identities=14%  Similarity=0.154  Sum_probs=53.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhc---C-C---C----CC-----CChH
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAM---G-I---V----DH-----NDLN  290 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~---~-~---~----~~-----~~~~  290 (475)
                      +.|+|+.|.|||.+|..+....    . ..++++ +...    .+..++.+.+..   . .   .    ..     .+.+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~----~-~~~liv-~P~~----~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~  180 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL----S-TPTLIV-VPTL----ALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYD  180 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS----C-SCEEEE-ESSH----HHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc----C-CCEEEE-eCCH----HHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHH
Confidence            7789999999999998877632    1 123333 2221    233333333322   1 0   0    00     1123


Q ss_pred             HHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecC
Q 046770          291 LLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTR  341 (475)
Q Consensus       291 ~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR  341 (475)
                      .+..... .+..+--+||+|+++......+..+...+.   ...++++|..
T Consensus       181 ~l~~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSAT  227 (237)
T 2fz4_A          181 SAYVNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTAT  227 (237)
T ss_dssp             HHHHTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEES
T ss_pred             HHHhhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEecC
Confidence            3333332 333445699999998765556777665554   2345665654

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=93.43  E-value=0.039  Score=51.00  Aligned_cols=22  Identities=45%  Similarity=0.708  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        38 e~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            4899999999999999999975

>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=93.42  E-value=0.054  Score=49.61  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....++.+.|.||+||||++..+..
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~   36 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGR   36 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHH
Confidence            4567899999999999999999875

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.41  E-value=0.039  Score=50.69  Aligned_cols=22  Identities=41%  Similarity=0.607  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        34 e~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999865

>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=93.40  E-value=0.042  Score=49.53  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|.|+.|+||||+|+.+...
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~   39 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKN   39 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999873

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.40  E-value=0.043  Score=50.21  Aligned_cols=22  Identities=32%  Similarity=0.616  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999987

>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=93.39  E-value=0.21  Score=46.76  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++.++|.+|+||||++..++..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~  121 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYF  121 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999988763

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=93.37  E-value=0.051  Score=51.79  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=21.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+++|+|+.|+||||++..++..
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3479999999999999999998763

>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=93.36  E-value=0.2  Score=50.84  Aligned_cols=50  Identities=16%  Similarity=0.205  Sum_probs=36.9

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      ++++.|.....+       .-++|.|..|+|||+|+..+.+..    +-+.++++-+.+..
T Consensus       221 rvID~l~PigrG-------qr~~Ifgg~g~GKT~L~~~ia~~~----~~~v~V~~~iGER~  270 (600)
T 3vr4_A          221 RVIDTFFPVTKG-------GAAAVPGPFGAGKTVVQHQIAKWS----DVDLVVYVGCGERG  270 (600)
T ss_dssp             HHHHHHSCCBTT-------CEEEEECCTTSCHHHHHHHHHHHS----SCSEEEEEEEEECH
T ss_pred             hhhhccCCccCC-------CEEeeecCCCccHHHHHHHHHhcc----CCCEEEEEEecccH
Confidence            467777663322       367899999999999999998742    33578888887764

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=93.35  E-value=0.044  Score=49.88  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999999865

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.34  E-value=0.041  Score=50.73  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        51 ei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEcCCCCcHHHHHHHHHc
Confidence            4899999999999999999875

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.33  E-value=0.035  Score=49.48  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            47899999999999999999763

>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=93.33  E-value=0.043  Score=51.52  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+..
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            5789999999999999999986

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.30  E-value=0.023  Score=53.34  Aligned_cols=24  Identities=21%  Similarity=0.457  Sum_probs=18.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +..+|+|.|+.|+||||+|+.+.+
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            346899999999999999999876

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.29  E-value=0.042  Score=50.13  Aligned_cols=22  Identities=41%  Similarity=0.752  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4899999999999999999965

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=93.29  E-value=0.045  Score=56.98  Aligned_cols=43  Identities=28%  Similarity=0.302  Sum_probs=35.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.+.-++.+...+..        +  ..+.|+|++|+||||||+.+...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~--------g--~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQ--------K--RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHT--------T--CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchhhHhhccccccC--------C--CEEEEEeCCCCCHHHHHHHHhcc
Confidence            4689988888877777655        1  36899999999999999999874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.27  E-value=0.046  Score=50.56  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999873

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=93.27  E-value=0.16  Score=50.65  Aligned_cols=96  Identities=21%  Similarity=0.272  Sum_probs=54.5

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHH-HHHHcCcccccCcC-eEEEEEecCCCC-HHHHHHHHHHHhhcC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA-QLVYNDSRVQCHFD-LKAWTYVSQDFD-IIRVTKSILRSVAMG  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~v~~~~~-~~~~l~~il~~l~~~  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|| ..+.+..    .-+ .++++-+.+... +.+++..+...-...
T Consensus       151 raID~l~PigrG-------QR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~  219 (502)
T 2qe7_A          151 KAIDSMIPIGRG-------QRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALD  219 (502)
T ss_dssp             HHHHHSSCCBTT-------CBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCST
T ss_pred             eecccccccccC-------CEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcc
Confidence            367777663322       24689999999999995 5677642    245 357777777654 445555554321111


Q ss_pred             C-----CCCCC--hHH-----HHHHHHHHh--CCceEEEEEECC
Q 046770          283 I-----VDHND--LNL-----LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       283 ~-----~~~~~--~~~-----l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .     ...++  ...     ..-.+-+++  +|+.+||++||+
T Consensus       220 ~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          220 YTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             TEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             eeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecH
Confidence            1     01111  111     011233333  689999999998

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.25  E-value=0.043  Score=47.29  Aligned_cols=22  Identities=41%  Similarity=0.527  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|+|+|.+|+|||||.+.+...
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            4789999999999999999874

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=93.24  E-value=0.055  Score=50.79  Aligned_cols=25  Identities=24%  Similarity=0.178  Sum_probs=21.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|.|+|+.|+||||||..++..
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHh
Confidence            3478999999999999999999863

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.23  E-value=0.044  Score=50.31  Aligned_cols=22  Identities=32%  Similarity=0.590  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            4899999999999999999975

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.19  E-value=0.059  Score=45.41  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=93.19  E-value=0.045  Score=47.55  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-.|+|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999999864

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.18  E-value=0.056  Score=44.99  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +-|.|+|.+|+|||||+..+...
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            46889999999999999998764

>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=93.17  E-value=0.047  Score=54.00  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=22.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....+|.|+|++|+||||+|+.+...
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            44579999999999999999999873

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.15  E-value=0.045  Score=50.70  Aligned_cols=22  Identities=41%  Similarity=0.687  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4899999999999999999975

>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=93.13  E-value=0.3  Score=58.89  Aligned_cols=139  Identities=12%  Similarity=0.036  Sum_probs=71.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      +-|.++|++|+|||++|+.+....   ..+ ....++.+...+...+...+-..+..........      ..-.-.+++
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            357899999999999997776632   122 2345666766666554444433322110000000      000003678


Q ss_pred             EEEEEECCCCCChh------hHhHhhCcCCCC-----C-------CCcEEEEecCChH------H-HHhcCCCceeeCCC
Q 046770          305 FLLVLDDVWNENYN------DWIDLSRPFQDG-----A-------PGSKIIITTRNAD------A-ALIMGTVQAYPLKG  359 (475)
Q Consensus       305 ~LlVlDdv~~~~~~------~~~~l~~~l~~~-----~-------~gs~ilvTtR~~~------v-~~~~~~~~~~~l~~  359 (475)
                      ++|.+||+.-...+      ..+.++..+..+     .       .+..+|.++..+.      + .........+.+..
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            89999996322111      222222222111     1       1234555554331      1 11223346788888


Q ss_pred             CCHHHHHHHHhhcc
Q 046770          360 LSNDDCMCLFTQHS  373 (475)
Q Consensus       360 L~~~~~~~lf~~~~  373 (475)
                      .+.++-..+|....
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            88888888887654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.13  E-value=0.053  Score=49.92  Aligned_cols=111  Identities=16%  Similarity=0.097  Sum_probs=54.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC-CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD-FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~-~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      .+++|+|+.|+|||||++.+..-..  ..+...+++.-... +-.... ..+   +.....+. +...+...+...+..+
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~~~--~~~~G~I~~~g~~i~~~~~~~-~~~---v~q~~~gl-~~~~l~~~la~aL~~~   98 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDYIN--QTKSYHIITIEDPIEYVFKHK-KSI---VNQREVGE-DTKSFADALRAALRED   98 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHHHH--HHCCCEEEEEESSCCSCCCCS-SSE---EEEEEBTT-TBSCHHHHHHHHHHHC
T ss_pred             CEEEEECCCCccHHHHHHHHHHhCC--CCCCCEEEEcCCcceeecCCc-cee---eeHHHhCC-CHHHHHHHHHHHHhhC
Confidence            6899999999999999999876321  11122332211100 000000 000   00000000 0012234556666556


Q ss_pred             eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH
Q 046770          304 RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL  347 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~  347 (475)
                      +=+|++|+..  +.+....+....   ..|..|++||...+...
T Consensus        99 p~illlDEp~--D~~~~~~~l~~~---~~g~~vl~t~H~~~~~~  137 (261)
T 2eyu_A           99 PDVIFVGEMR--DLETVETALRAA---ETGHLVFGTLHTNTAID  137 (261)
T ss_dssp             CSEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEECCSSHHH
T ss_pred             CCEEEeCCCC--CHHHHHHHHHHH---ccCCEEEEEeCcchHHH
Confidence            6688899985  333333333221   24667888888765443

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.12  E-value=0.046  Score=50.30  Aligned_cols=23  Identities=35%  Similarity=0.683  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            48999999999999999999753

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.09  E-value=0.047  Score=49.85  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            48999999999999999998763

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.07  E-value=0.067  Score=48.32  Aligned_cols=38  Identities=21%  Similarity=0.186  Sum_probs=27.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ  264 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~  264 (475)
                      .++.|.|++|+|||||+.+++....  ..=..++|++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~--~~~~~v~~~~~e~   61 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGL--KMGEPGIYVALEE   61 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEESSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccC
Confidence            5899999999999999988765321  1123567776554

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=93.06  E-value=0.2  Score=48.62  Aligned_cols=46  Identities=28%  Similarity=0.330  Sum_probs=31.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|....+.++...+.....     .. ..|.|.|.+|+||+++|+.+...
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~-----~~-~~vli~GesGtGKe~lAr~ih~~  175 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAK-----SK-APVLITGESGTGKEIVARLIHRY  175 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHT-----SC-SCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccccchHHHHHHhhhhhhhc-----cc-hhheEEeCCCchHHHHHHHHHHh
Confidence            467777666666555533111     12 23679999999999999999764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=93.05  E-value=0.096  Score=47.12  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=22.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      -.+|.|.|+.|+||||+++.+.+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998743

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.04  E-value=0.059  Score=52.00  Aligned_cols=24  Identities=33%  Similarity=0.419  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++|+|+.|+||||++..++.
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            347999999999999999998876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.03  E-value=0.049  Score=49.87  Aligned_cols=23  Identities=30%  Similarity=0.629  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.01  E-value=0.049  Score=50.31  Aligned_cols=22  Identities=36%  Similarity=0.511  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        34 e~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999999875

>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=92.99  E-value=0.098  Score=47.15  Aligned_cols=90  Identities=20%  Similarity=0.176  Sum_probs=45.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC-cccccCc-CeEEEEEecCCCCHHHHHHHHHHHhhcCCC---------------CC-
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND-SRVQCHF-DLKAWTYVSQDFDIIRVTKSILRSVAMGIV---------------DH-  286 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~-~~~~~~F-~~~~wv~v~~~~~~~~~l~~il~~l~~~~~---------------~~-  286 (475)
                      ..+.|.|+.|+||||+.....-+ ....... ...+.+..........+...+...+.....               .. 
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            47899999999999876554322 1111111 223333333333333444444333322110               00 


Q ss_pred             ----CChHHHHHHHHHHhCCceEEEEEECCCCC
Q 046770          287 ----NDLNLLQWKLKKQLFGKRFLLVLDDVWNE  315 (475)
Q Consensus       287 ----~~~~~l~~~l~~~l~~kr~LlVlDdv~~~  315 (475)
                          .+...+.+.+...+.+- -+||+|+++..
T Consensus       157 ~Ivv~Tpg~l~~~l~~~l~~~-~~lVlDEah~~  188 (235)
T 3llm_A          157 SIMFCTVGVLLRKLEAGIRGI-SHVIVDEIHER  188 (235)
T ss_dssp             EEEEEEHHHHHHHHHHCCTTC-CEEEECCTTSC
T ss_pred             eEEEECHHHHHHHHHhhhcCC-cEEEEECCccC
Confidence                12345555665544333 37899999763

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.96  E-value=0.05  Score=50.62  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            48999999999999999999753

>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=92.94  E-value=0.058  Score=47.11  Aligned_cols=23  Identities=30%  Similarity=0.302  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.|.|+.|+||||||..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999999874

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=92.91  E-value=0.079  Score=49.90  Aligned_cols=33  Identities=21%  Similarity=0.395  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      +++|.+.+..           .+++|+|+.|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~G-----------~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLEG-----------FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTTT-----------CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhccC-----------cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            5667766543           488999999999999999998 53

>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=92.91  E-value=0.049  Score=50.62  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++.|+|++|+|||||+..++.
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5899999999999999998875

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=92.89  E-value=0.053  Score=51.55  Aligned_cols=25  Identities=36%  Similarity=0.541  Sum_probs=22.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++++.|+|+.|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4789999999999999999999854

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.89  E-value=0.37  Score=47.90  Aligned_cols=49  Identities=16%  Similarity=0.092  Sum_probs=33.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILR  277 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~  277 (475)
                      .++.|.|.+|+||||||.+++.+....  =..++|++...  +..++...++.
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEm--s~~ql~~R~~~  246 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEM--GKKENIKRLIV  246 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSS--CTTHHHHHHHH
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCC--CHHHHHHHHHH
Confidence            588999999999999999988753322  13466665543  33455555544

>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=92.88  E-value=0.053  Score=47.35  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-.|+|+|..|+|||||.+.+...
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            456889999999999999999875

>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=92.87  E-value=0.057  Score=50.81  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||++.+..
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhh
Confidence            5899999999999999999875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.77  E-value=0.18  Score=58.89  Aligned_cols=82  Identities=22%  Similarity=0.148  Sum_probs=55.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~~  299 (475)
                      +++.|.|++|+||||||.+++.+...  .=..++|++....++...     .+.++....     ...+.+++...++..
T Consensus       384 ~lilI~G~pGsGKTtLaLqia~~~a~--~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~~l  456 (2050)
T 3cmu_A          384 RIVEIYGPESSGKTTLTLQVIAAAQR--EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDAL  456 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHT--TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHh--cCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHHHH
Confidence            68999999999999999999874322  223678988888777542     344443221     345566666666654


Q ss_pred             h-CCceEEEEEECCC
Q 046770          300 L-FGKRFLLVLDDVW  313 (475)
Q Consensus       300 l-~~kr~LlVlDdv~  313 (475)
                      . +.+.-+||+|-+.
T Consensus       457 v~~~~~~lIVIDSL~  471 (2050)
T 3cmu_A          457 ARSGAVDVIVVDSVA  471 (2050)
T ss_dssp             HHHTCCSEEEESCGG
T ss_pred             HHhcCCcEEEECCHH
Confidence            4 3445699999984

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=92.72  E-value=0.071  Score=50.66  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=21.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++.|+|++|+||||++..++..
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3479999999999999999988763

>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=92.71  E-value=0.058  Score=50.55  Aligned_cols=23  Identities=22%  Similarity=0.356  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|.|++|+|||||+..++..
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            58999999999999999998764

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=92.69  E-value=0.16  Score=58.37  Aligned_cols=83  Identities=22%  Similarity=0.145  Sum_probs=55.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~~  299 (475)
                      +++.|.|++|+||||||.+++.+..  ..=..++|++....++...     .+.++....     ...+.+++...+...
T Consensus       384 ~lilI~G~pGsGKTtLaLq~a~~~~--~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l~~l  456 (1706)
T 3cmw_A          384 RIVEIYGPESSGKTTLTLQVIAAAQ--REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDAL  456 (1706)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH--HTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH--HhCCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHHHHH
Confidence            6899999999999999999877432  2224688998888777542     344433221     234556666666554


Q ss_pred             h-CCceEEEEEECCCC
Q 046770          300 L-FGKRFLLVLDDVWN  314 (475)
Q Consensus       300 l-~~kr~LlVlDdv~~  314 (475)
                      . +.+.-+||+|-+..
T Consensus       457 v~~~~~~lVVIDSL~a  472 (1706)
T 3cmw_A          457 ARSGAVDVIVVDSVAA  472 (1706)
T ss_dssp             HHHTCCSEEEESCSTT
T ss_pred             HHhcCCCEEEECCHHH
Confidence            4 34456999999854

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=92.62  E-value=0.24  Score=49.55  Aligned_cols=96  Identities=20%  Similarity=0.230  Sum_probs=54.7

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHH-HHHHcCcccccCcC-eEEEEEecCCCC-HHHHHHHHHHHhhcC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA-QLVYNDSRVQCHFD-LKAWTYVSQDFD-IIRVTKSILRSVAMG  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~v~~~~~-~~~~l~~il~~l~~~  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|| ..+.+..    .-+ .++++-+.+... +.+++..+...-...
T Consensus       164 raID~l~PigrG-------QR~~I~g~~g~GKT~Lal~~I~~~~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~  232 (515)
T 2r9v_A          164 KAIDSMIPIGRG-------QRELIIGDRQTGKTAIAIDTIINQK----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAME  232 (515)
T ss_dssp             HHHHHHSCEETT-------CBEEEEEETTSSHHHHHHHHHHTTT----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGG
T ss_pred             cccccccccccC-------CEEEEEcCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcc
Confidence            456777653322       24789999999999995 5777743    245 357777777654 445555554321111


Q ss_pred             C-----CCCCC--hHH-----HHHHHHHHh--CCceEEEEEECC
Q 046770          283 I-----VDHND--LNL-----LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       283 ~-----~~~~~--~~~-----l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .     ...++  ...     ..-.+-+++  +|+.+||++||+
T Consensus       233 rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  276 (515)
T 2r9v_A          233 YTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDL  276 (515)
T ss_dssp             GEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             eeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccH
Confidence            0     01111  111     111233333  689999999998

>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=92.60  E-value=0.061  Score=44.79  Aligned_cols=22  Identities=27%  Similarity=0.655  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.++|.+|+|||||+..+...
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            4789999999999999999764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=92.54  E-value=0.081  Score=45.42  Aligned_cols=24  Identities=21%  Similarity=0.365  Sum_probs=21.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            7 SYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            357899999999999999999874

>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=92.52  E-value=0.071  Score=45.04  Aligned_cols=24  Identities=38%  Similarity=0.552  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
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            346789999999999999999764

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=92.48  E-value=0.2  Score=44.39  Aligned_cols=23  Identities=26%  Similarity=0.336  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|.|+.|+||||+++.+.+.
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            58899999999999999999874

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=92.47  E-value=0.39  Score=48.10  Aligned_cols=100  Identities=21%  Similarity=0.242  Sum_probs=55.4

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHH-HHHHcCccc----ccCcC-eEEEEEecCCCC-HHHHHHHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA-QLVYNDSRV----QCHFD-LKAWTYVSQDFD-IIRVTKSILRS  278 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~----~~~F~-~~~wv~v~~~~~-~~~~l~~il~~  278 (475)
                      +.++.|.....+       .-++|.|..|+|||+|| ..+.+....    .++-+ .++++-+.+... +.++...+...
T Consensus       151 raID~l~PigrG-------QR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~  223 (510)
T 2ck3_A          151 KAVDSLVPIGRG-------QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDA  223 (510)
T ss_dssp             HHHHHHSCCBTT-------CBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHT
T ss_pred             eeeccccccccC-------CEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhc
Confidence            467777663332       24689999999999995 566664321    12344 477788877654 44555555432


Q ss_pred             hhcCC-----CCCCC--hHH-----HHHHHHHHh--CCceEEEEEECC
Q 046770          279 VAMGI-----VDHND--LNL-----LQWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       279 l~~~~-----~~~~~--~~~-----l~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      -....     ...++  ...     ..-.+-+++  +|+.+||++||+
T Consensus       224 g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsl  271 (510)
T 2ck3_A          224 DAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDL  271 (510)
T ss_dssp             TCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETH
T ss_pred             CCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCH
Confidence            11000     01111  111     111233333  689999999998

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=92.47  E-value=0.068  Score=49.46  Aligned_cols=21  Identities=33%  Similarity=0.751  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++|+|+.|+|||||.+.++.
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            578999999999999999875

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=92.47  E-value=0.065  Score=48.22  Aligned_cols=23  Identities=35%  Similarity=0.161  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+|+|.|+.|+|||||++.+..
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999887

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=92.45  E-value=0.065  Score=49.36  Aligned_cols=22  Identities=41%  Similarity=0.539  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999975

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.44  E-value=0.071  Score=48.13  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+|+|+|+.|+||||+++.+..
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            3446899999999999999999876

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=92.43  E-value=0.086  Score=57.38  Aligned_cols=20  Identities=25%  Similarity=0.134  Sum_probs=19.0

Q ss_pred             EEEEEEccCCCcHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLV  244 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v  244 (475)
                      .+++|+|+.|.||||+.+.+
T Consensus       663 ~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            68999999999999999988

>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=92.43  E-value=0.067  Score=44.77  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998764

>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=92.42  E-value=0.078  Score=53.13  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-.+++|+|..|+|||||++.++..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHH
Confidence            4579999999999999999998763

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.38  E-value=0.091  Score=44.53  Aligned_cols=25  Identities=36%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|.|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4467889999999999999999764

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.30  E-value=0.17  Score=45.22  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=22.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ....|.|.|+.|+||||+++.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34789999999999999999998743

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=92.30  E-value=0.057  Score=50.88  Aligned_cols=22  Identities=27%  Similarity=0.714  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||++.+..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            4899999999999999999865

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=92.29  E-value=0.14  Score=47.06  Aligned_cols=37  Identities=16%  Similarity=0.202  Sum_probs=27.3

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-+..||....      ++...+.++|++|+|||.+|..+++.
T Consensus        91 ~~l~~~l~~~~------~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKKF------GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTCS------TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCC------CCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            44666765511      22356899999999999999999873

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=92.22  E-value=0.71  Score=46.07  Aligned_cols=94  Identities=19%  Similarity=0.220  Sum_probs=54.2

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHH-HHHHcCcccccCcC-eEEEEEecCCCC-HHHHHHHHHHHhhcC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLA-QLVYNDSRVQCHFD-LKAWTYVSQDFD-IIRVTKSILRSVAMG  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~v~~~~~-~~~~l~~il~~l~~~  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+ ..+.+.    .+-+ .++++-+.+... +.+++..+.+.-...
T Consensus       151 kaID~l~PigrG-------QR~~Ifg~~g~GKT~l~l~~I~n~----~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~  219 (513)
T 3oaa_A          151 KAVDSMIPIGRG-------QRELIIGDRQTGKTALAIDAIINQ----RDSGIKCIYVAIGQKASTISNVVRKLEEHGALA  219 (513)
T ss_dssp             HHHHHHSCCBTT-------CBCEEEESSSSSHHHHHHHHHHTT----SSSSCEEEEEEESCCHHHHHHHHHHHHHHSCST
T ss_pred             eeeccccccccC-------CEEEeecCCCCCcchHHHHHHHhh----ccCCceEEEEEecCChHHHHHHHHHHhhcCccc
Confidence            356777663322       24689999999999996 566663    2234 367888887654 445555544321111


Q ss_pred             C-----CCCCChH-----------HHHHHHHHHhCCceEEEEEECC
Q 046770          283 I-----VDHNDLN-----------LLQWKLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       283 ~-----~~~~~~~-----------~l~~~l~~~l~~kr~LlVlDdv  312 (475)
                      .     ...++..           ...+.+++  +|+..||++||+
T Consensus       220 ~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd--~G~dVLli~Dsl  263 (513)
T 3oaa_A          220 NTIVVVATASESAALQYLAPYAGCAMGEYFRD--RGEDALIIYDDL  263 (513)
T ss_dssp             TEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH--TTCEEEEEEETH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHHHHHHHHHh--cCCCEEEEecCh
Confidence            1     0111111           12223332  689999999998

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=92.21  E-value=0.08  Score=47.91  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|.|..|+||||+++.+.+.
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            57999999999999999999873

>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=92.09  E-value=0.077  Score=45.67  Aligned_cols=23  Identities=26%  Similarity=0.599  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||+..+...
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            35789999999999999999764

>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=92.07  E-value=0.083  Score=51.34  Aligned_cols=23  Identities=30%  Similarity=0.144  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+++|+|++|+|||||++.+..
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35899999999999999999986

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.07  E-value=0.083  Score=44.33  Aligned_cols=22  Identities=32%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4679999999999999999864

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=92.05  E-value=0.099  Score=45.14  Aligned_cols=25  Identities=16%  Similarity=0.401  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|.|+|.+|+|||||...+...
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            3457889999999999999999865

>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=92.03  E-value=0.081  Score=44.14  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|.|+|.+|+|||||...+...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999999764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=92.02  E-value=0.086  Score=45.24  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+.+|+|+.|+|||||+..++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999998864

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=92.02  E-value=0.08  Score=51.00  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        31 e~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            4899999999999999999975

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=91.99  E-value=0.24  Score=48.94  Aligned_cols=100  Identities=13%  Similarity=0.173  Sum_probs=55.9

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc-cCcC-eEEEEEecCCC-CHHHHHHHHHHHhhcC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ-CHFD-LKAWTYVSQDF-DIIRVTKSILRSVAMG  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~-~~~wv~v~~~~-~~~~~l~~il~~l~~~  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+.++.+..... ++-+ .++++-+.+.. .+.+++..+...=...
T Consensus       140 raID~l~pigrG-------Qr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~  212 (465)
T 3vr4_D          140 SAIDHLNTLVRG-------QKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAID  212 (465)
T ss_dssp             HHHHTTSCCBTT-------CBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGG
T ss_pred             eEEecccccccC-------CEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCcc
Confidence            356666653322       236788999999999999998854321 1111 56777777654 3455555554431111


Q ss_pred             C-------CCCCChHH-----HHHHHHHHh---CCceEEEEEECC
Q 046770          283 I-------VDHNDLNL-----LQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       283 ~-------~~~~~~~~-----l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      .       .+......     ..-.+.+++   +++.+||++||+
T Consensus       213 rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~Dsl  257 (465)
T 3vr4_D          213 RSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDM  257 (465)
T ss_dssp             GEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            0       11111111     111234444   388999999998

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=91.99  E-value=0.082  Score=51.53  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|+|.|+.|+||||||..++.
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5899999999999999999876

>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=91.99  E-value=0.087  Score=44.22  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      --|.|+|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3478999999999999999864

>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=91.98  E-value=0.076  Score=44.43  Aligned_cols=22  Identities=32%  Similarity=0.517  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+.+.
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            4789999999999999998753

>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=91.97  E-value=0.088  Score=44.76  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45789999999999999999864

>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=91.95  E-value=0.078  Score=49.59  Aligned_cols=23  Identities=26%  Similarity=0.596  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            48999999999999999999764

>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=91.93  E-value=0.094  Score=46.36  Aligned_cols=25  Identities=32%  Similarity=0.352  Sum_probs=21.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|.|+|.+|+|||||+..+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4467889999999999999999875

>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=91.91  E-value=0.11  Score=44.60  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|.|+|.+|+|||||...+...
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            3457889999999999999999875

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=91.91  E-value=0.12  Score=48.59  Aligned_cols=33  Identities=27%  Similarity=0.505  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++++..++..           .+++|+|+.|+|||||.+.+...
T Consensus       160 v~~lf~~l~g-----------eiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYLKG-----------KISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHHSS-----------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHhcC-----------CeEEEECCCCCcHHHHHHHhccc
Confidence            5667766644           47899999999999999999863

>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=91.90  E-value=0.085  Score=44.28  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            356789999999999999998864

>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=91.88  E-value=0.086  Score=44.13  Aligned_cols=22  Identities=14%  Similarity=0.397  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+.+.
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            4789999999999999998764

>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=91.84  E-value=0.1  Score=49.00  Aligned_cols=23  Identities=30%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|.+|+||||++..++..
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58899999999999999998764

>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=91.84  E-value=0.088  Score=43.87  Aligned_cols=22  Identities=32%  Similarity=0.604  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999988754

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.83  E-value=0.11  Score=44.68  Aligned_cols=24  Identities=25%  Similarity=0.512  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...|.|+|.+|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999999875

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=91.83  E-value=0.048  Score=56.61  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.++|++|+|||+||+.+++.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~  350 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRV  350 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTT
T ss_pred             ceEEECCCchHHHHHHHHHHHh
Confidence            4789999999999999999874

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=91.80  E-value=0.25  Score=43.19  Aligned_cols=49  Identities=18%  Similarity=0.137  Sum_probs=29.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSIL  276 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il  276 (475)
                      .|+|-|.-|+||||.++.+++..  ...-..+.+..-.......+.++.++
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L--~~~g~~v~~treP~~t~~~~~ir~~l   50 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL--EKRGKKVILKREPGGTETGEKIRKIL   50 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH--HHCCCcEEEEECCCCCcHHHHHHHHh
Confidence            46788999999999999998743  22222233333333333444455544

>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=91.80  E-value=0.089  Score=43.96  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4789999999999999998764

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=91.78  E-value=0.091  Score=50.69  Aligned_cols=54  Identities=15%  Similarity=0.164  Sum_probs=32.5

Q ss_pred             HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHh
Q 046770          295 KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD--GAPGSKIIITTRNADAALI  348 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~  348 (475)
                      .|.+.|..++=+|++|+--.. +...-..+...+..  ...|..||++|.+-+.+..
T Consensus       173 aIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~~~~  229 (366)
T 3tui_C          173 AIARALASNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKR  229 (366)
T ss_dssp             HHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHHHH
T ss_pred             HHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHHHHH
Confidence            466777788889999997432 22222233333321  1237788888888666543

>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=91.76  E-value=0.089  Score=45.29  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999887654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=91.76  E-value=0.094  Score=44.98  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998875

>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=91.76  E-value=0.091  Score=44.05  Aligned_cols=23  Identities=26%  Similarity=0.447  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998765

>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=91.73  E-value=0.087  Score=45.18  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=20.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||+..+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345779999999999999998764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=91.70  E-value=0.093  Score=50.48  Aligned_cols=22  Identities=36%  Similarity=0.659  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        42 e~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999999975

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.69  E-value=0.2  Score=42.95  Aligned_cols=24  Identities=29%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|.+|+|||||...+...
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999999854

>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=91.61  E-value=0.095  Score=44.35  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=21.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|.+|+|||||...+...
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            3456789999999999999998764

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=91.60  E-value=0.067  Score=49.17  Aligned_cols=25  Identities=24%  Similarity=0.290  Sum_probs=21.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|.|.|+.|+||||+++.+.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            3478999999999999999988773

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=91.58  E-value=0.11  Score=49.87  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=21.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|+|+|.+|+|||||...+..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            357999999999999999999875

>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=91.55  E-value=0.21  Score=45.00  Aligned_cols=24  Identities=33%  Similarity=0.487  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .+|.|.|+.|+||||+++.+.+..
T Consensus        28 ~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998743

>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=91.54  E-value=0.097  Score=45.13  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            45789999999999999888764

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=91.51  E-value=0.18  Score=50.39  Aligned_cols=81  Identities=21%  Similarity=0.234  Sum_probs=46.9

Q ss_pred             EEEEEccCCCcHHHHH-HHHHcCcccccCcC-eEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCCh------
Q 046770          226 VVSIIGMGGLGKTTLA-QLVYNDSRVQCHFD-LKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDL------  289 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~-~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~------  289 (475)
                      -++|.|..|+|||+|| ..+.+..    .-+ .++++-+.+... +.+++..+...-....       .+....      
T Consensus       165 R~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~  240 (507)
T 1fx0_A          165 RELIIGDRQTGKTAVATDTILNQQ----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  240 (507)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCC----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             EEEEecCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHHH
Confidence            4689999999999995 5777743    234 457777777654 3344444433110000       011110      


Q ss_pred             ---HHHHHHHHHHhCCceEEEEEECC
Q 046770          290 ---NLLQWKLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       290 ---~~l~~~l~~~l~~kr~LlVlDdv  312 (475)
                         -...+.++.  +|+.+||++||+
T Consensus       241 ~~a~tiAEyfrd--~G~dVLli~Dsl  264 (507)
T 1fx0_A          241 YTGAALAEYFMY--RERHTLIIYDDL  264 (507)
T ss_dssp             HHHHHHHHHHHH--TTCEEEEEEECH
T ss_pred             HHHHHHHHHHHH--cCCcEEEEEecH
Confidence               122333443  699999999997

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=91.51  E-value=0.1  Score=50.72  Aligned_cols=22  Identities=32%  Similarity=0.587  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        30 e~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHHc
Confidence            4899999999999999999976

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.51  E-value=0.094  Score=44.47  Aligned_cols=26  Identities=31%  Similarity=0.512  Sum_probs=21.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....-|.|+|.+|+|||||...+...
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcC
Confidence            34556789999999999999999765

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=91.48  E-value=0.097  Score=43.86  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            35789999999999999998754

>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=91.48  E-value=0.12  Score=43.80  Aligned_cols=25  Identities=40%  Similarity=0.555  Sum_probs=21.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=91.48  E-value=0.1  Score=50.33  Aligned_cols=22  Identities=32%  Similarity=0.510  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEEcCCCchHHHHHHHHHC
Confidence            4899999999999999999975

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.48  E-value=0.1  Score=44.19  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=20.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            345789999999999999998764

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=91.48  E-value=0.19  Score=49.68  Aligned_cols=100  Identities=11%  Similarity=0.158  Sum_probs=55.8

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccc--------cCcC-eEEEEEecCCCC-HHHHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQ--------CHFD-LKAWTYVSQDFD-IIRVTKSI  275 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------~~F~-~~~wv~v~~~~~-~~~~l~~i  275 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+..+.+.....        ++-+ .++++-+.+... +.+++..+
T Consensus       136 raID~l~pigrG-------Qr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l  208 (464)
T 3gqb_B          136 STIDVMNTLVRG-------QKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEF  208 (464)
T ss_dssp             HHHHTTSCCBTT-------CBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHH
T ss_pred             eeeecccccccC-------CEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHh
Confidence            356666653322       235788999999999999998754331        1112 566777776543 44555554


Q ss_pred             HHH--hhc-----CCCCCCChHHH-----HHHHHHHh---CCceEEEEEECC
Q 046770          276 LRS--VAM-----GIVDHNDLNLL-----QWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       276 l~~--l~~-----~~~~~~~~~~l-----~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      ...  +..     ...+.......     .-.+.+++   +++.+||++||+
T Consensus       209 ~~~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Ddl  260 (464)
T 3gqb_B          209 ERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDM  260 (464)
T ss_dssp             HHTSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETH
T ss_pred             hhcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            332  100     00112222111     11234444   388999999998

>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=91.47  E-value=0.097  Score=43.66  Aligned_cols=20  Identities=25%  Similarity=0.413  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |.|+|.+|+|||||...+..
T Consensus         3 i~~~G~~~~GKssl~~~l~~   22 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKL   22 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            68999999999999999865

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=91.43  E-value=0.24  Score=46.12  Aligned_cols=43  Identities=7%  Similarity=0.170  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ++++.+.|........  .....|+|+|.+|+|||||...+....
T Consensus         8 ~~~l~~~l~~~~~~~~--~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B            8 VNRLQDAFSAIGQNAD--LDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             HHHHHHHHTTSCCCTT--CCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhcCCCCC--CCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            3455555544221111  345689999999999999999998753

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=91.42  E-value=0.13  Score=43.58  Aligned_cols=25  Identities=24%  Similarity=0.468  Sum_probs=21.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|..|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3456889999999999999998765

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=91.40  E-value=0.086  Score=44.77  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=91.38  E-value=0.11  Score=50.28  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCchHHHHHHHHhc
Confidence            4899999999999999999975

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=91.35  E-value=0.11  Score=43.55  Aligned_cols=23  Identities=17%  Similarity=0.323  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998754

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=91.31  E-value=0.11  Score=50.38  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...++|+|+.|+|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            36789999999999999999875

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=91.30  E-value=0.11  Score=50.45  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCcHHHHHHHHHHc
Confidence            4899999999999999999975

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=91.26  E-value=0.59  Score=50.01  Aligned_cols=33  Identities=27%  Similarity=0.483  Sum_probs=23.2

Q ss_pred             hHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHH
Q 046770          203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       203 e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      ..+.+...+.. .         .++.|+|+.|.||||++..+.
T Consensus        98 q~~~i~~~l~~-~---------~~vii~gpTGSGKTtllp~ll  130 (773)
T 2xau_A           98 QRDEFLKLYQN-N---------QIMVFVGETGSGKTTQIPQFV  130 (773)
T ss_dssp             GHHHHHHHHHH-C---------SEEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHHHHHhC-C---------CeEEEECCCCCCHHHHHHHHH
Confidence            34556666544 1         478999999999999665554

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=91.24  E-value=0.11  Score=45.07  Aligned_cols=23  Identities=35%  Similarity=0.590  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|+|.+|+|||||...+.++
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999998864

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=91.23  E-value=0.2  Score=44.97  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=17.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|.|.|+.|+||||+++.+.+.
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~   48 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDR   48 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999999874

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.22  E-value=0.17  Score=48.72  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|++|+|||||.+.+...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~  238 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGL  238 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCC
T ss_pred             CEEEEECCCCccHHHHHHHHhcc
Confidence            37899999999999999999874

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=91.22  E-value=0.11  Score=50.31  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        38 e~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHHc
Confidence            4899999999999999999975

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=91.20  E-value=0.42  Score=47.20  Aligned_cols=25  Identities=32%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...++..|.|.+|.||||+.+..++
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc
Confidence            5678999999999999999999886

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=91.16  E-value=0.11  Score=44.41  Aligned_cols=23  Identities=22%  Similarity=0.505  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999999864

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=91.16  E-value=0.093  Score=50.39  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        27 e~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT
T ss_pred             CEEEEECCCCccHHHHHHHHHc
Confidence            4899999999999999999976

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=91.13  E-value=0.21  Score=49.20  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus       168 gii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHh
Confidence            5899999999999999998865

>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=91.13  E-value=0.078  Score=52.59  Aligned_cols=25  Identities=32%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|.|+|.+|+||||++..+...
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~  122 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARY  122 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999888763

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=91.13  E-value=0.11  Score=44.42  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=21.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|.+|+|||||...+.+.
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999998764

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=91.11  E-value=0.11  Score=44.21  Aligned_cols=24  Identities=25%  Similarity=0.545  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998864

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=91.10  E-value=0.13  Score=44.75  Aligned_cols=23  Identities=30%  Similarity=0.583  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|+|+|.+|+|||||...+..+
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998763

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=91.10  E-value=0.11  Score=43.90  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|..|+|||||...+..+
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=91.07  E-value=0.14  Score=49.00  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++|+|++|+|||||.+.+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            347999999999999999999874

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=91.05  E-value=0.12  Score=44.46  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=21.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|.+|+|||||...+...
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999999864

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.04  E-value=0.3  Score=43.29  Aligned_cols=24  Identities=33%  Similarity=0.459  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ..|.|.|+.|+||||+++.+.+..
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999998743

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=91.03  E-value=0.13  Score=44.96  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.++
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            45789999999999999888764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=91.02  E-value=0.12  Score=44.12  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.++
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998754

>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=91.01  E-value=0.11  Score=44.75  Aligned_cols=24  Identities=29%  Similarity=0.295  Sum_probs=19.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||.+.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            345789999999999999877653

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=91.00  E-value=0.12  Score=44.82  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      --|.|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4578999999999999998873

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=90.99  E-value=0.16  Score=42.62  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999999754

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=90.98  E-value=0.12  Score=44.83  Aligned_cols=22  Identities=27%  Similarity=0.092  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++.|+|+.|+||||++..++.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~   25 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVE   25 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4788999999999999966654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=90.97  E-value=0.12  Score=44.63  Aligned_cols=25  Identities=32%  Similarity=0.433  Sum_probs=21.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|+|+|..|+|||||...+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=90.96  E-value=0.097  Score=45.58  Aligned_cols=24  Identities=33%  Similarity=0.429  Sum_probs=20.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..--|.|+|.+|+|||||...+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345688999999999999999853

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.96  E-value=0.14  Score=44.30  Aligned_cols=26  Identities=27%  Similarity=0.273  Sum_probs=22.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .....|.|+|.+|+|||||...+...
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999999775

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=90.96  E-value=0.099  Score=46.38  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|+|+.|+||||+++.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998876

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=90.94  E-value=0.34  Score=55.85  Aligned_cols=82  Identities=23%  Similarity=0.140  Sum_probs=58.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~  298 (475)
                      -++|-|+|+.|+||||||.++...  .+..=...+|+...+..++.-     ++.++....     .++..++..+.+..
T Consensus      1431 g~~iei~g~~~sGkttl~~~~~a~--~~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1431 GRIVEIYGPESSGKTTLTLQVIAA--AQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH--HHhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            378999999999999999998863  333446788998888888553     566655432     34444666666666


Q ss_pred             HhC-CceEEEEEECC
Q 046770          299 QLF-GKRFLLVLDDV  312 (475)
Q Consensus       299 ~l~-~kr~LlVlDdv  312 (475)
                      .++ +..-+||+|-|
T Consensus      1504 ~~~s~~~~~vvvDsv 1518 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSV 1518 (1706)
T ss_dssp             HHHHTCCSEEEESCS
T ss_pred             HHHcCCCCEEEEccH
Confidence            664 45669999998

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=90.92  E-value=0.12  Score=44.02  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|.|+|.+|+|||||...+...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46789999999999999999764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=90.92  E-value=0.13  Score=47.18  Aligned_cols=23  Identities=39%  Similarity=0.595  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|+|.|-||+||||+|..++..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~   24 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHH
Confidence            57788899999999999887753

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=90.91  E-value=0.067  Score=46.97  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|+|..|+|||||.+.+...
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999988764

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=90.88  E-value=0.19  Score=50.69  Aligned_cols=50  Identities=20%  Similarity=0.156  Sum_probs=36.1

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF  266 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~  266 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+..+.+..    +-+.++++-+.+..
T Consensus       210 rvID~l~PigrG-------qr~~Ifg~~g~GKT~l~~~ia~~~----~~~v~V~~~iGER~  259 (578)
T 3gqb_A          210 RILDVLFPVAMG-------GTAAIPGPFGSGKSVTQQSLAKWS----NADVVVYVGSGERG  259 (578)
T ss_dssp             HHHHTTSCEETT-------CEEEECCCTTSCHHHHHHHHHHHS----SCSEEEEEEEEECH
T ss_pred             hhhhhcccccCC-------CEEeeeCCCCccHHHHHHHHHhcc----CCCEEEEEEecccH
Confidence            466766653322       357899999999999999998742    33577888887764

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=90.88  E-value=0.12  Score=43.81  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            345789999999999999998764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=90.87  E-value=0.16  Score=45.27  Aligned_cols=24  Identities=17%  Similarity=0.344  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...|.|+|.+|+|||||...+...
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467889999999999999999875

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=90.85  E-value=0.16  Score=42.82  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456889999999999999999764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=90.84  E-value=0.13  Score=43.81  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            35779999999999999998864

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.83  E-value=0.15  Score=44.77  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998754

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=90.82  E-value=0.13  Score=44.72  Aligned_cols=23  Identities=17%  Similarity=0.564  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45789999999999999987764

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=90.81  E-value=0.14  Score=45.68  Aligned_cols=22  Identities=23%  Similarity=0.122  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.+.|.||+||||+|..+...
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4778999999999998887764

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=90.81  E-value=0.14  Score=43.57  Aligned_cols=25  Identities=20%  Similarity=0.380  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3457889999999999999999854

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=90.81  E-value=0.13  Score=49.96  Aligned_cols=111  Identities=14%  Similarity=0.051  Sum_probs=55.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEE-EEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKA-WTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGK  303 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~k  303 (475)
                      .+++|+|+.|+|||||++.+.....  ......+ ++.  ++...  .+..-. .+..+..-..+...+...+...+...
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~~~--~~~~g~I~~~e--~~~e~--~~~~~~-~~v~Q~~~g~~~~~~~~~l~~~L~~~  209 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDYIN--QTKSYHIITIE--DPIEY--VFKHKK-SIVNQREVGEDTKSFADALRAALRED  209 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHHHH--HHSCCEEEEEE--SSCCS--CCCCSS-SEEEEEEBTTTBSCSHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcC--cCCCcEEEEec--ccHhh--hhccCc-eEEEeeecCCCHHHHHHHHHHHhhhC
Confidence            6899999999999999999876321  1111222 221  11100  000000 00000000001112244677777667


Q ss_pred             eEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHH
Q 046770          304 RFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAAL  347 (475)
Q Consensus       304 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~  347 (475)
                      +=+|++|++.+  .+.........   ..|..++.|+...++..
T Consensus       210 pd~illdE~~d--~e~~~~~l~~~---~~g~~vi~t~H~~~~~~  248 (372)
T 2ewv_A          210 PDVIFVGEMRD--LETVETALRAA---ETGHLVFGTLHTNTAID  248 (372)
T ss_dssp             CSEEEESCCCS--HHHHHHHHHHH---TTTCEEEECCCCCSHHH
T ss_pred             cCEEEECCCCC--HHHHHHHHHHH---hcCCEEEEEECcchHHH
Confidence            77999999953  33333333222   24667888887755443

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=90.78  E-value=0.087  Score=50.73  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        32 e~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999999975

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=90.77  E-value=0.14  Score=44.62  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999999865

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=90.76  E-value=0.13  Score=44.64  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=90.75  E-value=0.11  Score=48.81  Aligned_cols=20  Identities=35%  Similarity=0.695  Sum_probs=18.2

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |+|+|..|+|||||.+.++.
T Consensus        21 I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            48999999999999999775

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=90.70  E-value=0.14  Score=52.12  Aligned_cols=24  Identities=21%  Similarity=0.398  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.++|++|.||||+|+.+..
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~   57 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTR   57 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999976

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=90.69  E-value=0.13  Score=43.57  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            346789999999999999998764

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=90.66  E-value=0.13  Score=45.76  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||+|+..+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3678999999999999998764

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=90.66  E-value=0.13  Score=44.85  Aligned_cols=25  Identities=36%  Similarity=0.472  Sum_probs=21.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999998764

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=90.65  E-value=0.18  Score=50.04  Aligned_cols=100  Identities=12%  Similarity=0.117  Sum_probs=56.6

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccC--cCeEEEEEecCCC-CHHHHHHHHHHHhhcC
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCH--FDLKAWTYVSQDF-DIIRVTKSILRSVAMG  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~--F~~~~wv~v~~~~-~~~~~l~~il~~l~~~  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+..++++......  =+.++++-+.+.. .+.+++..+...-...
T Consensus       141 r~ID~l~pigrG-------Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~  213 (469)
T 2c61_A          141 STIDGTNTLVRG-------QKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALE  213 (469)
T ss_dssp             HHHHTTSCCBTT-------CBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGG
T ss_pred             EeeeeeeccccC-------CEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCcc
Confidence            357766653322       23577899999999999999885433211  1356777777654 3455666665431111


Q ss_pred             C-------CCCCChH-----HHHHHHHHHh---CCceEEEEEECC
Q 046770          283 I-------VDHNDLN-----LLQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       283 ~-------~~~~~~~-----~l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      .       .+.....     ...-.+.+++   +|+.+||++||+
T Consensus       214 rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          214 RAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             GEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             ceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence            1       1111111     1111233333   478999999997

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=90.65  E-value=0.13  Score=45.25  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||+..+...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999999865

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=90.63  E-value=0.25  Score=42.48  Aligned_cols=35  Identities=23%  Similarity=0.249  Sum_probs=25.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC
Q 046770          227 VSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD  267 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~  267 (475)
                      +.|+|.+|+||||+|.++...   .   ..++++.....++
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~---~---~~~~yiaT~~~~d   36 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD---A---PQVLYIATSQILD   36 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS---C---SSEEEEECCCC--
T ss_pred             EEEECCCCCcHHHHHHHHHhc---C---CCeEEEecCCCCC
Confidence            689999999999999999863   1   2356666655554

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=90.62  E-value=0.15  Score=47.43  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|+|.|-||+||||+|..++..
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~   25 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAA   25 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHH
Confidence            67888999999999999888753

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=90.61  E-value=0.14  Score=43.88  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      .-|.|+|.+|+|||||...+.+..
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            567899999999999999998653

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=90.60  E-value=0.14  Score=49.38  Aligned_cols=113  Identities=13%  Similarity=0.085  Sum_probs=59.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .+++|+|+.|+|||||.+.+.....  ......+ +.+.++....  .... ...........+.......|...|...+
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~--~~~~~~i-~t~ed~~e~~--~~~~-~~~v~q~~~~~~~~~~~~~La~aL~~~P  197 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLN--NTKYHHI-LTIEDPIEFV--HESK-KCLVNQREVHRDTLGFSEALRSALREDP  197 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHH--HHCCCEE-EEEESSCCSC--CCCS-SSEEEEEEBTTTBSCHHHHHHHHTTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccc--CCCCcEE-EEccCcHHhh--hhcc-ccceeeeeeccccCCHHHHHHHHhhhCc
Confidence            4899999999999999998866321  1111111 1222211100  0000 0000000001111223447888888888


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHHHHh
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAALI  348 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~~  348 (475)
                      =+|++|+..  +.+.+..+....   ..|..||+|+...+....
T Consensus       198 dvillDEp~--d~e~~~~~~~~~---~~G~~vl~t~H~~~~~~~  236 (356)
T 3jvv_A          198 DIILVGEMR--DLETIRLALTAA---ETGHLVFGTLHTTSAAKT  236 (356)
T ss_dssp             SEEEESCCC--SHHHHHHHHHHH---HTTCEEEEEESCSSHHHH
T ss_pred             CEEecCCCC--CHHHHHHHHHHH---hcCCEEEEEEccChHHHH
Confidence            899999995  344555443332   236678889887665543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=90.57  E-value=0.13  Score=50.09  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            4899999999999999999975

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=90.53  E-value=0.14  Score=45.13  Aligned_cols=24  Identities=25%  Similarity=0.272  Sum_probs=20.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...|.|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356789999999999999998764

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=90.53  E-value=0.13  Score=44.39  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|+|+|.+|+|||||...+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345789999999999999999764

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=90.53  E-value=0.13  Score=44.99  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=21.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+.+.
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=90.52  E-value=0.14  Score=44.35  Aligned_cols=24  Identities=17%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999999875

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=90.50  E-value=0.14  Score=44.06  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=90.49  E-value=0.13  Score=46.07  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .--++|.|++|+||||+|+.+.+
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHH
Confidence            34689999999999999999876

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=90.48  E-value=0.14  Score=44.01  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998765

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=90.47  E-value=0.15  Score=44.36  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998864

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=90.47  E-value=0.19  Score=43.71  Aligned_cols=25  Identities=32%  Similarity=0.577  Sum_probs=21.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...-|.|+|.+|+|||||...+...
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3456789999999999999998754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=90.45  E-value=0.16  Score=48.62  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=21.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+..+++|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999998864

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=90.42  E-value=0.14  Score=44.54  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999998764

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=90.41  E-value=0.16  Score=49.96  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+++|+|+.|+|||||.+.+..
T Consensus        69 ~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999999987

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=90.41  E-value=0.12  Score=49.95  Aligned_cols=23  Identities=35%  Similarity=0.566  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.+...
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            47899999999999999999874

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=90.39  E-value=0.14  Score=44.16  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            345789999999999999999875

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=90.38  E-value=0.14  Score=44.06  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=20.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=90.37  E-value=0.14  Score=44.61  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            356789999999999999999865

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=90.34  E-value=0.14  Score=44.41  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999999754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=90.33  E-value=0.15  Score=43.57  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|..|+|||||...+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999999864

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=90.31  E-value=0.15  Score=45.09  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      --|.|+|.+|+|||||...+..
T Consensus        38 ~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           38 YRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4578999999999999999874

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=90.31  E-value=0.16  Score=47.64  Aligned_cols=25  Identities=24%  Similarity=0.436  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|+|+|.+|+|||||...+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999999764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=90.31  E-value=0.15  Score=44.00  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|..|+|||||...+..+
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999999865

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=90.27  E-value=0.15  Score=44.79  Aligned_cols=22  Identities=18%  Similarity=0.143  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|+.|+||||+++.++.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~   28 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAE   28 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=90.25  E-value=0.15  Score=45.95  Aligned_cols=48  Identities=17%  Similarity=0.191  Sum_probs=30.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      .++.|.|.+|+|||+||.+++.+.. ...-..+++++...  +...+...+
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~-~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGA-EEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH-HHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHH-HhcCCCceeecccC--CHHHHHHHH
Confidence            5889999999999999988764321 12223455655543  444554443

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=90.21  E-value=0.15  Score=44.32  Aligned_cols=24  Identities=13%  Similarity=0.270  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999998764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=90.20  E-value=0.14  Score=44.13  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            45789999999999999998763

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=90.19  E-value=0.2  Score=45.16  Aligned_cols=25  Identities=16%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            3467889999999999999999875

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=90.19  E-value=0.15  Score=43.76  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|..|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            356789999999999999998754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.18  E-value=0.14  Score=44.25  Aligned_cols=23  Identities=43%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|..|+|||||...+..+
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998764

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=90.17  E-value=0.23  Score=50.12  Aligned_cols=25  Identities=4%  Similarity=-0.056  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+|.+.|+.|+||||+|+.+...
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~  418 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLST  418 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHH
T ss_pred             cceEEEecccCCCCHHHHHHHHHHH
Confidence            3468999999999999999999884

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=90.15  E-value=0.34  Score=46.49  Aligned_cols=25  Identities=32%  Similarity=0.432  Sum_probs=20.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++.+.|-||+||||+|..++.
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~   40 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAV   40 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            3457999999999999999977653

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=90.14  E-value=0.16  Score=44.91  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999764

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=90.12  E-value=0.15  Score=43.44  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..-|.|+|.+|+|||||...+...
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999998754

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=90.02  E-value=0.2  Score=47.16  Aligned_cols=26  Identities=27%  Similarity=0.408  Sum_probs=23.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .....|+|+|.+|+|||||...+...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            56789999999999999999998764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=90.01  E-value=0.16  Score=43.65  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46789999999999999999764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=89.99  E-value=0.19  Score=42.70  Aligned_cols=22  Identities=27%  Similarity=0.382  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .-|.|.|.+|+||||||..+..
T Consensus        17 ~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4688999999999999998876

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=89.98  E-value=0.39  Score=45.76  Aligned_cols=24  Identities=29%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..+++.+.|-||+||||+|..++.
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~   38 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAI   38 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHH
Confidence            357888999999999999987754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=89.97  E-value=0.16  Score=44.42  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999998764

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.96  E-value=0.15  Score=44.07  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=20.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            346789999999999999998764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=89.93  E-value=0.15  Score=48.88  Aligned_cols=23  Identities=30%  Similarity=0.543  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.+.+.
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999999884

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=89.93  E-value=0.26  Score=43.39  Aligned_cols=23  Identities=35%  Similarity=0.548  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|-|..|+||||+++.+.+.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~   25 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR   25 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH
Confidence            47889999999999999998874

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=89.89  E-value=0.2  Score=46.16  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999764

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=89.89  E-value=0.21  Score=41.42  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      .+..|+|+.|.|||||...++
T Consensus        24 g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            578999999999999998875

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=89.83  E-value=0.14  Score=52.33  Aligned_cols=23  Identities=35%  Similarity=0.478  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|+|+.|+|||||++.+...
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~  392 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAAR  392 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHh
Confidence            68999999999999999999873

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=89.63  E-value=0.17  Score=43.57  Aligned_cols=23  Identities=35%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+.+.
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999999865

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=89.60  E-value=0.17  Score=44.25  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|.|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46789999999999999998864

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=89.60  E-value=0.16  Score=49.96  Aligned_cols=21  Identities=38%  Similarity=0.707  Sum_probs=19.4

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|+|+.|+|||||.+.++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            899999999999999998763

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=89.53  E-value=0.19  Score=50.45  Aligned_cols=24  Identities=17%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999998763

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=89.53  E-value=0.18  Score=44.01  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=21.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..--|.|+|.+|+|||||+..+.+.
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhC
Confidence            3456889999999999999998764

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=89.51  E-value=0.14  Score=48.94  Aligned_cols=106  Identities=13%  Similarity=0.021  Sum_probs=54.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      .+++|+|+.|+|||||++.+..-...   -...+.+.-......... .   +.+.. ..+  ........+...|..++
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~---~~g~i~i~~~~e~~~~~~-~---~~i~~-~~g--gg~~~r~~la~aL~~~p  241 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK---EERIISIEDTEEIVFKHH-K---NYTQL-FFG--GNITSADCLKSCLRMRP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT---TSCEEEEESSCCCCCSSC-S---SEEEE-ECB--TTBCHHHHHHHHTTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC---CCcEEEECCeeccccccc-h---hEEEE-EeC--CChhHHHHHHHHhhhCC
Confidence            47899999999999999999873211   123444332111110000 0   00000 000  11223345667777788


Q ss_pred             EEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChHH
Q 046770          305 FLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADA  345 (475)
Q Consensus       305 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~v  345 (475)
                      =+|++|++...  +.++.+ ..+..+  +..+|+||...+.
T Consensus       242 ~ilildE~~~~--e~~~~l-~~~~~g--~~tvi~t~H~~~~  277 (330)
T 2pt7_A          242 DRIILGELRSS--EAYDFY-NVLCSG--HKGTLTTLHAGSS  277 (330)
T ss_dssp             SEEEECCCCST--HHHHHH-HHHHTT--CCCEEEEEECSSH
T ss_pred             CEEEEcCCChH--HHHHHH-HHHhcC--CCEEEEEEcccHH
Confidence            89999998552  334333 333221  2236666665443

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=89.50  E-value=0.18  Score=44.26  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            345789999999999999998764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=89.44  E-value=0.21  Score=44.03  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999999864

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=89.44  E-value=0.21  Score=51.41  Aligned_cols=26  Identities=15%  Similarity=0.146  Sum_probs=22.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...+|.|.|++|+||||+|+.+...
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~  419 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVT  419 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHH
Confidence            34578999999999999999999873

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=89.37  E-value=0.14  Score=44.05  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      --|.|+|.+|+|||||...+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999987653

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=89.35  E-value=0.12  Score=44.18  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=10.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .--|.|+|.+|+|||||...+.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999988754

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=89.34  E-value=0.19  Score=43.79  Aligned_cols=23  Identities=35%  Similarity=0.489  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+..+
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=89.33  E-value=0.19  Score=44.34  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+...
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            45779999999999999998764

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=89.33  E-value=0.4  Score=45.07  Aligned_cols=26  Identities=12%  Similarity=0.300  Sum_probs=23.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .....|+|+|..|+|||||...+...
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            45678999999999999999999764

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=89.24  E-value=0.15  Score=45.06  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ....|+|+|..|+|||||...+....
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            34578899999999999999998753

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=89.19  E-value=0.15  Score=50.90  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.++.-
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCc
Confidence            47999999999999999998764

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=89.15  E-value=0.24  Score=51.36  Aligned_cols=24  Identities=29%  Similarity=0.397  Sum_probs=21.6

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.|.|++|+||||+|+.+..
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~   74 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEE   74 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            447899999999999999999877

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=89.14  E-value=0.23  Score=43.91  Aligned_cols=106  Identities=8%  Similarity=0.047  Sum_probs=49.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEe-cCCCCHHHHHHHHHHHhhcCCC--CCCChHHHHHHHHHHhC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYV-SQDFDIIRVTKSILRSVAMGIV--DHNDLNLLQWKLKKQLF  301 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v-~~~~~~~~~l~~il~~l~~~~~--~~~~~~~l~~~l~~~l~  301 (475)
                      .+..++|.-|.||||.+.......... .....++-.. ...+....    +...++....  ...+..    .+.+.+.
T Consensus        29 ~l~vitG~MgsGKTT~lL~~a~r~~~~-g~kVli~k~~~d~R~ge~~----i~s~~g~~~~a~~~~~~~----~~~~~~~   99 (214)
T 2j9r_A           29 WIEVICGSMFSGKSEELIRRVRRTQFA-KQHAIVFKPCIDNRYSEED----VVSHNGLKVKAVPVSASK----DIFKHIT   99 (214)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHT-TCCEEEEECC---------------------CCEEECSSGG----GGGGGCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC-CCEEEEEEeccCCcchHHH----HHhhcCCeeEEeecCCHH----HHHHHHh
Confidence            688899999999999987776643222 2333332211 11112222    3333322211  111111    1222233


Q ss_pred             CceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          302 GKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       302 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                      ++--+|++|++.--+.+..+.+ ..+.+  .|..||+|.++
T Consensus       100 ~~~dvViIDEaQF~~~~~V~~l-~~l~~--~~~~Vi~~Gl~  137 (214)
T 2j9r_A          100 EEMDVIAIDEVQFFDGDIVEVV-QVLAN--RGYRVIVAGLD  137 (214)
T ss_dssp             SSCCEEEECCGGGSCTTHHHHH-HHHHH--TTCEEEEEECS
T ss_pred             cCCCEEEEECcccCCHHHHHHH-HHHhh--CCCEEEEEecc
Confidence            3333999999965443344333 22222  36789999985

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=89.13  E-value=0.24  Score=47.82  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=18.9

Q ss_pred             ccEEEEEEccCCCcHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLV  244 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v  244 (475)
                      +..-|.|.|.||+||||+++++
T Consensus        32 ~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           32 RLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CccEEEEECCCCCcHHHHHHHH
Confidence            3456789999999999999886

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=89.04  E-value=0.28  Score=42.94  Aligned_cols=24  Identities=17%  Similarity=0.119  Sum_probs=21.2

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|+|+|++|+||+|+|..+.+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHH
Confidence            457999999999999999988765

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=88.89  E-value=0.46  Score=43.63  Aligned_cols=25  Identities=20%  Similarity=0.499  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ...|.++|.+|+|||||...+....
T Consensus        39 ~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           39 SLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578899999999999999998753

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=88.82  E-value=0.2  Score=49.37  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |+|+|..|+|||||.+.++..
T Consensus        34 I~lvG~sGaGKSTLln~L~g~   54 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLT   54 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            599999999999999999864

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=88.79  E-value=0.28  Score=44.71  Aligned_cols=25  Identities=16%  Similarity=0.296  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|+|+|.+|+|||||...+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            3457889999999999999999764

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=88.67  E-value=0.23  Score=49.74  Aligned_cols=22  Identities=27%  Similarity=0.295  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            6899999999999999998864

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=88.61  E-value=0.27  Score=46.13  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +...|+|+|.+|+|||||...+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999999864

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=88.61  E-value=0.17  Score=43.40  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||...+..+
T Consensus        23 ~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=88.45  E-value=0.22  Score=50.81  Aligned_cols=23  Identities=35%  Similarity=0.795  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.++.-
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48999999999999999999863

---

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	475
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-51
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	0.002

>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 =  173 bits (438), Expect = 4e-51
 Identities = 40/293 (13%), Positives = 87/293 (29%), Gaps = 33/293 (11%)

Query: 179 SKRFRQRRPTTSLVHEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKT 238
            +   ++    ++  +   Y R    + +++ L +       +     + + G  G GK+
Sbjct: 4   RQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDE-----MCDLDSFFLFLHGRAGSGKS 58

Query: 239 TLAQLVYNDSR--VQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHN--------- 287
            +A    + S   +  ++D   W   S               + +   D           
Sbjct: 59  VIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHV 118

Query: 288 -DLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNADAA 346
             + L +      +     L V DDV  E    W              + ++TTR+ + +
Sbjct: 119 TSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEIS 170

Query: 347 L-IMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKA 405
                T +   +  L  D+C      + +        +    +  K +   +G P     
Sbjct: 171 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEED---VLNKTIELSSGNPATLMM 227

Query: 406 LGCLLHGKYDPSDWESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAY 458
                  K     +E +        S+G   +      SY  L+  L++C   
Sbjct: 228 FFKSCEPK----TFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEV 276

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

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]

 Score = 37.5 bits (85), Expect = 0.002
 Identities = 27/231 (11%), Positives = 67/231 (29%), Gaps = 5/231 (2%)

Query: 196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD 255
           ++  R ++ +++  LL   +   +  +H+   +++G  G GKT   + ++   + +    
Sbjct: 17  RLPHREQQLQQLDILL--GNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTAR 74

Query: 256 LKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKK--QLFGKRFLLVLDDVW 313
                          + +                +     L +  +       LVLDD +
Sbjct: 75  FVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAF 134

Query: 314 NENYNDWIDLSRPFQDGAPGSKIIITTRNADAALIMGTVQAYPLKGLSNDDCMCLFTQHS 373
           N   +      R  Q+        I          +      P         +  F+ ++
Sbjct: 135 NLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL-DPSTRGIMGKYVIRFSPYT 193

Query: 374 LETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDWESVLN 424
            +     +    K   A+     + L + A   G       +  D    ++
Sbjct: 194 KDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAID 244

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	475
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.29
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.04
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.98
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.96
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.94
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.86
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.81
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.78
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.73
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.65
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.57
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.54
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.47
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.42
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.41
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.32
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.2
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.08
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.04
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.03
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.87
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.73
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.56
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.19
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.89
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.87
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.82
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.79
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.79
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.78
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.75
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.69
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.67
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.67
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.64
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.62
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.61
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.61
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.6
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.57
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.56
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.53
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.47
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.43
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.42
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.34
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.32
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.31
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.25
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.25
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.24
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.23
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.21
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.17
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.12
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.12
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.09
d1okkd2	207	GTPase domain of the signal recognition particle r	96.06
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.03
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.03
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.01
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.96
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.92
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.88
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.8
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.78
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.74
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.73
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.69
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.65
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.62
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.55
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.51
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.49
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.48
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.44
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.43
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.38
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.37
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.22
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.2
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.18
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.18
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.12
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.09
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.07
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.06
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.84
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.76
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.74
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.73
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.61
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.58
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.53
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.48
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.31
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.26
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.24
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.03
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.0
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.0
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.94
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.89
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.88
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.82
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	93.78
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.77
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.74
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.7
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.66
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.65
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.64
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.63
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.62
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.61
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.61
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.56
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.54
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.54
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.53
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.52
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.49
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.43
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.39
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.39
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.38
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.34
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.33
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.32
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.28
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.24
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.23
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.18
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.1
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.06
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.01
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.0
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	92.95
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.93
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.93
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	92.91
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.9
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.88
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	92.85
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.85
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.79
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.76
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.76
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.73
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.73
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	92.69
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.68
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.62
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.61
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.6
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.59
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.54
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.53
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.5
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.48
d1nrjb_	209	Signal recognition particle receptor beta-subunit	92.47
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.45
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.45
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.44
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.43
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.38
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	92.37
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.35
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.32
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.32
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.26
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.17
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.15
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.02
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.94
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	91.93
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.91
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.91
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.87
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.81
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.7
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.7
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.69
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.68
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.65
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	91.61
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.6
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.58
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.48
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.48
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.46
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.46
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	91.42
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.41
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	91.4
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.14
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.01
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	90.92
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	90.75
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.74
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.72
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.7
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.68
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.51
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.49
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	90.29
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	90.14
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	90.08
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.07
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.04
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	89.99
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.82
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.78
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	89.6
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.28
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.22
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	89.09
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	88.99
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.82
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.19
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	87.02
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.75
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.53
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	86.51
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.46
d1tuea_	205	Replication protein E1 helicase domain {Human papi	85.86
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	85.48
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.25
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	84.96
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	84.78
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	84.34
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	83.08
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.54
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	81.76
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	81.59
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.95
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	80.93
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	80.51
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	80.11

>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=2.7e-42  Score=325.94  Aligned_cols=247  Identities=15%  Similarity=0.126  Sum_probs=194.1

Q ss_pred             ccccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc--cccCcCeEEEEEecCCCCHHH
Q 046770          193 HEAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR--VQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       193 ~~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .++.+|||+.++++|+++|.. ..+    .+.++|+|+||||+||||||+++|++..  ...+|++++|+++++.++...
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~-~~~----~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~   92 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDE-MCD----LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKST   92 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHH-HTT----SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHH
T ss_pred             CCCceeCcHHHHHHHHHHHHh-ccC----CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHH
Confidence            456789999999999999975 221    4568999999999999999999998643  677899999999999988777


Q ss_pred             HHHHHHHHhh---cCCC-------CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEec
Q 046770          271 VTKSILRSVA---MGIV-------DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITT  340 (475)
Q Consensus       271 ~l~~il~~l~---~~~~-------~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTt  340 (475)
                      +...+...+.   ....       ...........+.+.+.++++|+||||+|+..  .|..+.      ..||+|||||
T Consensus        93 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~~~~------~~~srilvTT  164 (277)
T d2a5yb3          93 FDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIRWAQ------ELRLRCLVTT  164 (277)
T ss_dssp             HHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHHHHH------HTTCEEEEEE
T ss_pred             HHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHh--hhhhhc------ccCceEEEEe
Confidence            7666544432   2111       11222334456788899999999999999763  444332      2489999999


Q ss_pred             CChHHHHhcCCC-ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHHHhcCCCChhHH
Q 046770          341 RNADAALIMGTV-QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDPSDW  419 (475)
Q Consensus       341 R~~~v~~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~~~w  419 (475)
                      |+..++..+... ..|+|++|+.++|++||..+++...   ..+..++++++|+++|+|+|||++++|+.|+.+ +.+.|
T Consensus       165 R~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~---~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k-~~~~~  240 (277)
T d2a5yb3         165 RDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEKM  240 (277)
T ss_dssp             SBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-SHHHH
T ss_pred             ehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCcc---CchhhHHHHHHHHHHhCCCHHHHHHHHHHhccC-CHHHH
Confidence            999998876543 6799999999999999999887643   244568899999999999999999999999887 78888


Q ss_pred             HHHHhccccccCCCccchHHHHHHhhhcCChhHHHHhhhh
Q 046770          420 ESVLNSRIWDLSQGRCDIVHTLALSYHYLSRPLKKCFAYC  459 (475)
Q Consensus       420 ~~~l~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~cf~~~  459 (475)
                      ....+.+..   ....++..++.+||++||+++|+||.++
T Consensus       241 ~~~~~~L~~---~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         241 AQLNNKLES---RGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHH---HCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHHhc---CcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            886664422   1235688899999999999999999875

>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=99.29  E-value=2.8e-12  Score=118.82  Aligned_cols=198  Identities=14%  Similarity=0.158  Sum_probs=113.1

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-----CCCH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-----DFDI  268 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-----~~~~  268 (475)
                      ...||||++++++|.+..            .+++.|+|++|+|||+|++++.+..  ..   ...|+.+..     ....
T Consensus        11 ~~~f~GR~~el~~l~~~~------------~~~i~i~G~~G~GKTsLl~~~~~~~--~~---~~~~i~~~~~~~~~~~~~   73 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGLR------------APITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYISY   73 (283)
T ss_dssp             GGGSCCCHHHHHHHHHTC------------SSEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCCH
T ss_pred             hhhCCChHHHHHHHHhcc------------CCEEEEEcCCCCcHHHHHHHHHHHC--CC---CeEEEEeccccccccccH
Confidence            468999999999987631            2578899999999999999998732  22   234444322     1223


Q ss_pred             HHHHHHHHHHhhcC-----------------------------CCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC---
Q 046770          269 IRVTKSILRSVAMG-----------------------------IVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN---  316 (475)
Q Consensus       269 ~~~l~~il~~l~~~-----------------------------~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~---  316 (475)
                      ..+...+.......                             .....+...+...+. ...++++++|+|++..-.   
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~  152 (283)
T d2fnaa2          74 KDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLR  152 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCT
T ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccc
Confidence            33333333322100                             001222333333332 235788999999973210   


Q ss_pred             -hhhHhHhhCcCCCCCCCcEEEEecCChHHHH-hcC-----------CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCc
Q 046770          317 -YNDWIDLSRPFQDGAPGSKIIITTRNADAAL-IMG-----------TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQ  383 (475)
Q Consensus       317 -~~~~~~l~~~l~~~~~gs~ilvTtR~~~v~~-~~~-----------~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~  383 (475)
                       ..-+..+.... ........+++++...... ...           ....+.|.+++.+++.+++.+......  ...+
T Consensus       153 ~~~~~~~l~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~--~~~~  229 (283)
T d2fnaa2         153 GVNLLPALAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEAD--IDFK  229 (283)
T ss_dssp             TCCCHHHHHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHT--CCCC
T ss_pred             hHHHHHHHHHHH-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcC--CCHH
Confidence             11111111111 1223445566555543322 111           235688999999999999987543211  1112


Q ss_pred             hHHHHHHHHHHhcCCchHHHHHHHHHhcCCCCh
Q 046770          384 PLKEIGAKIVIKCNGLPLAAKALGCLLHGKYDP  416 (475)
Q Consensus       384 ~~~~~~~~I~~~c~G~PLai~~~~~~L~~~~~~  416 (475)
                      +    ..+|++.++|+|..+..++..+....+.
T Consensus       230 ~----~~~i~~~~~G~P~~L~~~~~~~~~~~~~  258 (283)
T d2fnaa2         230 D----YEVVYEKIGGIPGWLTYFGFIYLDNKNL  258 (283)
T ss_dssp             C----HHHHHHHHCSCHHHHHHHHHHHHHHCCH
T ss_pred             H----HHHHHHHhCCCHHHHHHHHHHHHhcccH
Confidence            2    3579999999999999998877654333

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.04  E-value=7e-10  Score=99.21  Aligned_cols=186  Identities=15%  Similarity=0.097  Sum_probs=116.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.++.++.|..|+.+        ...+.+.++|++|+||||+|+.+++.......-....-++.+.......+...
T Consensus        15 ~d~ig~~~~~~~L~~~~~~--------~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~   86 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKD--------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQ   86 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHS--------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHhcCCHHHHHHHHHHHHc--------CCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhH
Confidence            4689999999999999977        34445789999999999999998874221111112333444444444433333


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HH-HHhcCCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DA-ALIMGTV  352 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v-~~~~~~~  352 (475)
                      +..........              ..++.-++|+|++..........++..+......++++++|... .+ ....+..
T Consensus        87 ~~~~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~  152 (224)
T d1sxjb2          87 IKHFAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  152 (224)
T ss_dssp             HHHHHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHhhccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHH
Confidence            32222211100              12355688899997766555555555555445567777777653 22 2233455


Q ss_pred             ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHH
Q 046770          353 QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKAL  406 (475)
Q Consensus       353 ~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~  406 (475)
                      ..+++.+++.++...++.+.+...+- ..   ..+....|++.|+|.+--+...
T Consensus       153 ~~i~~~~~~~~~i~~~l~~i~~~e~~-~i---~~~~l~~I~~~s~Gd~R~ai~~  202 (224)
T d1sxjb2         153 AILRYSKLSDEDVLKRLLQIIKLEDV-KY---TNDGLEAIIFTAEGDMRQAINN  202 (224)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTC-CB---CHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhhcccchhhhHHHHHHHHHhccc-CC---CHHHHHHHHHHcCCcHHHHHHH
Confidence            78999999999999999876643221 11   1355678999999988755433

>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=98.98  E-value=1.3e-08  Score=93.15  Aligned_cols=175  Identities=15%  Similarity=0.100  Sum_probs=111.3

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      ..++||+.+++.|.++|...-....  ...+.+.|+|++|+||||+|+.+++..  ..... ..+|+...........+.
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~--~~~~~lll~GppGtGKT~l~~~l~~~l--~~~~~~~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPG--HHYPRATLLGRPGTGKTVTLRKLWELY--KDKTTARFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTT--SSCCEEEEECCTTSSHHHHHHHHHHHH--TTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCC--CCCCceEEECCCCCCHHHHHHHHHHHH--hcccCCcEEEecchhhhhhhhhhh
Confidence            4589999999999998854100001  345688999999999999999999843  22222 346777777788888888


Q ss_pred             HHHHHhhcCCC-CCCChHHHHHHHHHHh--CCceEEEEEECCCCCChhhHhHhhCcCC----CCCCCcEEEEecCChHHH
Q 046770          274 SILRSVAMGIV-DHNDLNLLQWKLKKQL--FGKRFLLVLDDVWNENYNDWIDLSRPFQ----DGAPGSKIIITTRNADAA  346 (475)
Q Consensus       274 ~il~~l~~~~~-~~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~----~~~~gs~ilvTtR~~~v~  346 (475)
                      .+...+..... .......+...+.+.+  .....++++|+++.........+...+.    .......+|.++......
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  171 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  171 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             hhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhh
Confidence            88888766543 3344555555555544  3456778888886654333333222221    112334555555553332


Q ss_pred             Hhc-------CCCceeeCCCCCHHHHHHHHhhcc
Q 046770          347 LIM-------GTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       347 ~~~-------~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ...       .....+.+.+.+.++.++++.+++
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       123568899999999999998764

>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=98.96  E-value=1.6e-09  Score=96.97  Aligned_cols=180  Identities=12%  Similarity=0.090  Sum_probs=111.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.++.++.|..|+..        ...+.+.++|++|+||||+|+.+++............-.+.+...+.......
T Consensus        14 ~divg~~~~~~~L~~~i~~--------~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~   85 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDE--------GKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQ   85 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHT--------TCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHccCcHHHHHHHHHHHHc--------CCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecc
Confidence            4699999999999999976        33445779999999999999999874211111112222333333333222221


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-H-HHhcCCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-A-ALIMGTV  352 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v-~~~~~~~  352 (475)
                      .........               ...++.-++|+|++..........++..+......+.++++|.... + .......
T Consensus        86 ~~~~~~~~~---------------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~  150 (227)
T d1sxjc2          86 IKDFASTRQ---------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  150 (227)
T ss_dssp             HHHHHHBCC---------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             hhhcccccc---------------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHH
Confidence            111111110               1123445888999977665555566666655556778888887632 1 1223455


Q ss_pred             ceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          353 QAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       353 ~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      ..+.+.+++.++...++.+.+...+- ..   ..+....|++.|+|..-
T Consensus       151 ~~i~~~~~~~~~i~~~l~~I~~~e~i-~i---~~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         151 TRFRFQPLPQEAIERRIANVLVHEKL-KL---SPNAEKALIELSNGDMR  195 (227)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTC-CB---CHHHHHHHHHHHTTCHH
T ss_pred             hhhccccccccccccccccccccccc-cC---CHHHHHHHHHHcCCcHH
Confidence            78899999999999999876654322 11   13556779999999754

>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=98.94  E-value=1.9e-09  Score=97.04  Aligned_cols=190  Identities=12%  Similarity=0.049  Sum_probs=115.1

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc-CcCeEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC-HFDLKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|.+..++.|..|+..        ...+.+.++|++|+||||+|+.+++...... .......++.+.......+..
T Consensus        12 ~diig~~~~~~~l~~~i~~--------~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKS--------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVRE   83 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTC--------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTT
T ss_pred             HHccCcHHHHHHHHHHHHc--------CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHH
Confidence            3589999999999999866        3345578999999999999999987421111 122334444555444443332


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH--HHHhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD--AALIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~--v~~~~~~  351 (475)
                      .+ ..............    .+.....++.-++|||++.......+..+...+......+.+|+|+....  .......
T Consensus        84 ~~-~~~~~~~~~~~~~~----~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr  158 (237)
T d1sxjd2          84 KV-KNFARLTVSKPSKH----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQ  158 (237)
T ss_dssp             HH-HHHHHSCCCCCCTT----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHH
T ss_pred             HH-HHHhhhhhhhhhHH----HHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccch
Confidence            22 22222211111111    12223344455799999976665555555554444445667777766521  1112223


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      ...+++.+++.++...++.+.+....- ..   ..+..+.|++.++|..-
T Consensus       159 ~~~i~f~~~~~~~~~~~L~~i~~~e~i-~i---~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         159 CSKFRFKALDASNAIDRLRFISEQENV-KC---DDGVLERILDISAGDLR  204 (237)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTC-CC---CHHHHHHHHHHTSSCHH
T ss_pred             hhhhccccccccccchhhhhhhhhhcC-cC---CHHHHHHHHHHcCCCHH
Confidence            367899999999999999887654332 11   24567789999988654

>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=98.86  E-value=3.9e-09  Score=94.61  Aligned_cols=181  Identities=12%  Similarity=0.049  Sum_probs=110.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTK  273 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~  273 (475)
                      .+++|.++.++.|..|+..        .+.+.+.|+|++|+||||+|+.+++... ...+. ..+-++.+...+...+..
T Consensus        24 ~diig~~~~~~~l~~~i~~--------~~~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~~~   94 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKT--------GSMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIRE   94 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHH--------TCCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHH
T ss_pred             HHccCcHHHHHHHHHHHHc--------CCCCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHHHH
Confidence            4699999999999999977        4456688999999999999999987321 11122 122233332211111111


Q ss_pred             HHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCCh-HH-HHhcCC
Q 046770          274 SILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNA-DA-ALIMGT  351 (475)
Q Consensus       274 ~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~-~v-~~~~~~  351 (475)
                      .+.......               .....+..++++||+.......+..++..+........+|+||... .+ ......
T Consensus        95 ~~~~~~~~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR  159 (231)
T d1iqpa2          95 KVKEFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  159 (231)
T ss_dssp             HHHHHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHhhh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCc
Confidence            111111100               0112456789999997766666666666555444456666666553 22 122224


Q ss_pred             CceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHH
Q 046770          352 VQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAA  403 (475)
Q Consensus       352 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai  403 (475)
                      ...+.+.+.+.++...++.+.+....-    .-..+....|++.|+|..-.+
T Consensus       160 ~~~i~~~~~~~~~~~~~l~~~~~~e~i----~i~~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         160 CAIFRFRPLRDEDIAKRLRYIAENEGL----ELTEEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTC----EECHHHHHHHHHHHTTCHHHH
T ss_pred             cccccccccchhhHHHHHHHHHHHhCC----CCCHHHHHHHHHHcCCCHHHH
Confidence            467999999999999999877654321    122456678999999976543

>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=98.81  E-value=2.1e-08  Score=90.78  Aligned_cols=155  Identities=20%  Similarity=0.220  Sum_probs=97.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc---cccc-CcCeEEEEEecCCCCHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS---RVQC-HFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~~~-~F~~~~wv~v~~~~~~~~~  271 (475)
                      .++||++|+++++..|..        ..-+-+.++|++|+|||+|+..++...   .+.. .....+|.--..       
T Consensus        19 ~~igRd~Ei~~l~~iL~r--------~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~-------   83 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCR--------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG-------   83 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTS--------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------
T ss_pred             cccChHHHHHHHHHHHhc--------CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec-------
Confidence            478999999999999976        222456699999999999998887631   1111 123455532111       


Q ss_pred             HHHHHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCC--------ChhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          272 TKSILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNE--------NYNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                            .+........+.+.....+.+.+ +..+.++++||++.-        +..+...++.++... ..-++|.||..
T Consensus        84 ------~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~r-g~i~vIgatT~  156 (268)
T d1r6bx2          84 ------SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTY  156 (268)
T ss_dssp             ---------CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEECH
T ss_pred             ------hHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhC-CCCeEEEeCCH
Confidence                  11111122334444444333333 556799999998543        112344555554432 35689999988


Q ss_pred             hHHHHhcC-------CCceeeCCCCCHHHHHHHHhhc
Q 046770          343 ADAALIMG-------TVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       343 ~~v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ++......       .++.+.+++.+.+++..++...
T Consensus       157 eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~  193 (268)
T d1r6bx2         157 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  193 (268)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHh
Confidence            87765443       2467999999999999998754

>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=98.78  E-value=5.3e-09  Score=94.92  Aligned_cols=194  Identities=13%  Similarity=0.104  Sum_probs=102.6

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc----cccCcCeEEEEEecCC-----
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR----VQCHFDLKAWTYVSQD-----  265 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~----~~~~F~~~~wv~v~~~-----  265 (475)
                      .+++|.++..+.|..++.. .      ...+-+.|+|++|+||||+|+.+++...    ....++...+......     
T Consensus        11 ~diig~~~~~~~L~~~~~~-~------~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQ-P------RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELN   83 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTC-T------TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------C
T ss_pred             HHccCcHHHHHHHHHHHHc-C------CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhh
Confidence            3689998888888877754 2      2334577999999999999999987421    1111122222111110     


Q ss_pred             ----------------CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCC
Q 046770          266 ----------------FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQD  329 (475)
Q Consensus       266 ----------------~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  329 (475)
                                      ...................    ...  ..-.....++.-++|||++.......+..++..+..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~--~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~  157 (252)
T d1sxje2          84 VVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ----VDF--QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEK  157 (252)
T ss_dssp             CEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHH
T ss_pred             hccCCccceeeecccccCCcceeeehhhhhhhhhh----hhh--hhcccccCCCceEEEeccccccccccchhhhccccc
Confidence                            0011111111111111000    000  000011123445889999987766666666555554


Q ss_pred             CCCCcEEEEecCChH-H-HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          330 GAPGSKIIITTRNAD-A-ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       330 ~~~gs~ilvTtR~~~-v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                      ....+++|+||.+.+ + ....+....+++.+++.++..+++...+-.......   .+++...|++.+.|.+-.+.
T Consensus       158 ~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~---~~~~l~~i~~~s~Gd~R~ai  231 (252)
T d1sxje2         158 YSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLE---TKDILKRIAQASNGNLRVSL  231 (252)
T ss_dssp             STTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEEC---CSHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCC---cHHHHHHHHHHcCCcHHHHH
Confidence            455677788777532 1 112223467899999999999998765432211111   13556779999999876433

>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=98.73  E-value=4.3e-08  Score=88.16  Aligned_cols=193  Identities=13%  Similarity=0.138  Sum_probs=111.8

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|.+..++.|..++.. .      .-...+.|+|++|+||||+|+.+++.........       ............
T Consensus        12 ~dlig~~~~~~~L~~~i~~-~------~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~-------~~~~~~~~~~~~   77 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSL-G------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCRE   77 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHT-T------CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC-------SSCCSCSHHHHH
T ss_pred             HHccChHHHHHHHHHHHHc-C------CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccc-------cCccccchHHHH
Confidence            3789999999999999976 2      2234578999999999999998865321111100       000111111111


Q ss_pred             HHHHhhc-----CCCCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH
Q 046770          275 ILRSVAM-----GIVDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD  344 (475)
Q Consensus       275 il~~l~~-----~~~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~  344 (475)
                      +...-..     ...+....+.... +.+.+     .++.-++|||+++..+......++..+......+.+|++|.+..
T Consensus        78 i~~~~~~~~~~~~~~~~~~i~~ir~-~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          78 IEQGRFVDLIEIDAASRTKVEDTRD-LLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             HHHTCCTTEEEEETTCSSSHHHHHH-HHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HHcCCCCeEEEecchhcCCHHHHHH-HHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence            1111000     0001111222222 22221     24556899999987765555566666655556778888877632


Q ss_pred             -H-HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH-HHHHH
Q 046770          345 -A-ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL-AAKAL  406 (475)
Q Consensus       345 -v-~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL-ai~~~  406 (475)
                       + ....+....+.+.+++.++....+...+..... .   -..+....|++.++|.+- |+..+
T Consensus       157 ~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~-~---~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         157 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI-A---HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-C---BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             ccChhHhhhhcccccccCcHHHhhhHHHHHHhhhcc-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence             1 122334578999999999999888876543322 1   123566789999999986 44433

>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=98.65  E-value=8.4e-07  Score=81.12  Aligned_cols=180  Identities=14%  Similarity=0.117  Sum_probs=106.9

Q ss_pred             cccccccchhHHHHHHHHhcCC-CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccc----ccCcCeEEEEEecCCCCH
Q 046770          194 EAKVYGRSKEREEIVELLLKED-GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRV----QCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~-~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~----~~~F~~~~wv~v~~~~~~  268 (475)
                      +..+.||+.++++|.+.+...- .+........++.|+|++|+|||++++.+++....    ........++.+......
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            4578999999999988763211 01010022335667899999999999999885311    111234567777888888


Q ss_pred             HHHHHHHHHHhhcCCC-CCCChHHHHHHHHHHh--CCceEEEEEECCCC------CChhh---HhHhhCcCC---CCCCC
Q 046770          269 IRVTKSILRSVAMGIV-DHNDLNLLQWKLKKQL--FGKRFLLVLDDVWN------ENYND---WIDLSRPFQ---DGAPG  333 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~-~~~~~~~l~~~l~~~l--~~kr~LlVlDdv~~------~~~~~---~~~l~~~l~---~~~~g  333 (475)
                      ...+..+...+..... ...........+....  .+...++++|.+..      ...+.   +..+...+.   ....-
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~  174 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  174 (287)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             hhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccce
Confidence            8888888888776543 2344455555555544  35567888887731      11111   112222222   11222


Q ss_pred             cEEEEecCChHHHH--------hcCCCceeeCCCCCHHHHHHHHhhcc
Q 046770          334 SKIIITTRNADAAL--------IMGTVQAYPLKGLSNDDCMCLFTQHS  373 (475)
Q Consensus       334 s~ilvTtR~~~v~~--------~~~~~~~~~l~~L~~~~~~~lf~~~~  373 (475)
                      ..|++++.......        .......+.+.+++.++..+++..++
T Consensus       175 ~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         175 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            34444444432211        11234678899999999999999765

>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=98.57  E-value=8.5e-08  Score=81.97  Aligned_cols=152  Identities=16%  Similarity=0.162  Sum_probs=86.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc---cc-ccCcCeEEEEEecCCCCHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS---RV-QCHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~-~~~F~~~~wv~v~~~~~~~~~  271 (475)
                      .++||++|+++++..|.. .       .-.-+.++|.+|+|||+++..++...   .+ ....+..+|.-     +...+
T Consensus        23 ~~igRd~Ei~~l~~iL~r-~-------~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~L   89 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQR-R-------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGAL   89 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTS-S-------SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHH
T ss_pred             CCcCcHHHHHHHHHHHhc-c-------CCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHH
Confidence            478999999999999976 2       22356799999999999998877632   11 11223445431     11111


Q ss_pred             HHHHHHHhhcCCCCCCChHH-HHHHHHHHh-CCceEEEEEECCCCCC-------hhhHhHhhCcCCCCCCCcEEEEecCC
Q 046770          272 TKSILRSVAMGIVDHNDLNL-LQWKLKKQL-FGKRFLLVLDDVWNEN-------YNDWIDLSRPFQDGAPGSKIIITTRN  342 (475)
Q Consensus       272 l~~il~~l~~~~~~~~~~~~-l~~~l~~~l-~~kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~gs~ilvTtR~  342 (475)
                              -.......+.+. +...+.+.. ...+.+|++||++.--       ..+...++.+... ...-++|.||..
T Consensus        90 --------iAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~  160 (195)
T d1jbka_          90 --------VAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTL  160 (195)
T ss_dssp             --------HTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECH
T ss_pred             --------hccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-CCCceEEecCCH
Confidence                    111111111122 222233332 2447999999995320       0012222222221 134578888887


Q ss_pred             hHHHHhcC-------CCceeeCCCCCHHHHHHHH
Q 046770          343 ADAALIMG-------TVQAYPLKGLSNDDCMCLF  369 (475)
Q Consensus       343 ~~v~~~~~-------~~~~~~l~~L~~~~~~~lf  369 (475)
                      ++......       .++.+.+++.+.+++..++
T Consensus       161 eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         161 DEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            77665433       4578889999988887543

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.54  E-value=5.7e-07  Score=78.60  Aligned_cols=180  Identities=11%  Similarity=0.055  Sum_probs=105.6

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA  280 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~  280 (475)
                      +...+++.+.+.. .      .-...+.++|+.|+||||+|+.+++..--.....   +-.+....+.    ..+.....
T Consensus         8 ~~~~~~l~~~~~~-~------~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~----~~i~~~~~   73 (207)
T d1a5ta2           8 RPDFEKLVASYQA-G------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGC----QLMQAGTH   73 (207)
T ss_dssp             HHHHHHHHHHHHT-T------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHH----HHHHHTCC
T ss_pred             HHHHHHHHHHHHc-C------CcCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccchh----hhhhhccc
Confidence            4456777777766 2      2234588999999999999998876311000000   0000000010    11111000


Q ss_pred             cC-------C-CCCCChHHHHHHHHHHh-----CCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-HH
Q 046770          281 MG-------I-VDHNDLNLLQWKLKKQL-----FGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-AA  346 (475)
Q Consensus       281 ~~-------~-~~~~~~~~l~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v~  346 (475)
                      ..       . ......++ .+.+.+.+     .+++-++|+||++..+......++..+.....++.+|+||++.. +.
T Consensus        74 ~~~~~~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll  152 (207)
T d1a5ta2          74 PDYYTLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLL  152 (207)
T ss_dssp             TTEEEECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSC
T ss_pred             cccchhhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhh
Confidence            00       0 00111222 22233332     35566999999988777778888877776667888888887743 22


Q ss_pred             -HhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHH
Q 046770          347 -LIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAK  404 (475)
Q Consensus       347 -~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~  404 (475)
                       ...+....+.+.+++.++...++.+...      .+   ++....|++.++|.|-.+.
T Consensus       153 ~tI~SRc~~i~~~~~~~~~~~~~L~~~~~------~~---~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         153 ATLRSRCRLHYLAPPPEQYAVTWLSREVT------MS---QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHCC------CC---HHHHHHHHHHTTTCHHHHH
T ss_pred             hhhcceeEEEecCCCCHHHHHHHHHHcCC------CC---HHHHHHHHHHcCCCHHHHH
Confidence             2334457899999999999999976541      11   3556778999999987554

>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=98.47  E-value=6.4e-07  Score=80.78  Aligned_cols=194  Identities=12%  Similarity=0.098  Sum_probs=104.8

Q ss_pred             ccccccchhHHHHHHHHhcC---------CCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCC
Q 046770          195 AKVYGRSKEREEIVELLLKE---------DGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQD  265 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~---------~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~  265 (475)
                      .+++|.+..+++|.+||..-         ..........+.+.++|++|+||||+|+.+++...    + ...+++.+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~----~-~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHH----h-hhhccccccc
Confidence            47999999999999988530         00011114456899999999999999999998421    1 2345555554


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC---hhhHhHhhCcCCCCCCCcEEEEecC-
Q 046770          266 FDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN---YNDWIDLSRPFQDGAPGSKIIITTR-  341 (475)
Q Consensus       266 ~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~---~~~~~~l~~~l~~~~~gs~ilvTtR-  341 (475)
                      .+...+ ...................  ........++..++++|++....   ...+..+.......  ...+++|+. 
T Consensus        89 ~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~--~~~ii~i~~~  163 (253)
T d1sxja2          89 RSKTLL-NAGVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICNE  163 (253)
T ss_dssp             CCHHHH-HHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEESC
T ss_pred             hhhHHH-HHHHHHHhhcchhhhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhccc--cccccccccc
Confidence            443322 2222222211110000000  01111234667889999985432   12233333222111  223444432 


Q ss_pred             -Ch-HHHHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          342 -NA-DAALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       342 -~~-~v~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                       .. .+.........+.+.+.+.++....+...+-..+-...+    +....|++.++|..-.
T Consensus       164 ~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~----~~l~~i~~~s~GDiR~  222 (253)
T d1sxja2         164 RNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDP----NVIDRLIQTTRGDIRQ  222 (253)
T ss_dssp             TTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCT----THHHHHHHHTTTCHHH
T ss_pred             ccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCH----HHHHHHHHhCCCcHHH
Confidence             22 222333445789999999999998888755322211222    3456689999997643

>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=98.42  E-value=1.4e-06  Score=77.93  Aligned_cols=180  Identities=16%  Similarity=0.077  Sum_probs=99.9

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-+++|..++.. .....  ..++-+.++|++|+||||+|+.+++..  ...   ..+++.+.....      
T Consensus         9 ddivGq~~~~~~L~~~i~~-~~~~~--~~~~~~Ll~GPpG~GKTtla~~la~~~--~~~---~~~~~~~~~~~~------   74 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEA-AKARK--EPLEHLLLFGPPGLGKTTLAHVIAHEL--GVN---LRVTSGPAIEKP------   74 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHH-HTTSS--SCCCCEEEECCTTSCHHHHHHHHHHHH--TCC---EEEEETTTCCSH------
T ss_pred             HHhCCHHHHHHHHHHHHHH-HHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHh--CCC---eEeccCCccccc------
Confidence            3689998888888888754 11111  335567899999999999999998742  211   233333222221      


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCC------------------CCCCCcEE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQ------------------DGAPGSKI  336 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~------------------~~~~gs~i  336 (475)
                                     ......+...+ +.+.++++|++.......-+.++..+.                  ...+...+
T Consensus        75 ---------------~~~~~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          75 ---------------GDLAAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             ---------------HHHHHHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             ---------------hhhHHHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEE
Confidence                           11122222222 233466778886554322222211110                  01123344


Q ss_pred             EEecCC-hHH--HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHHH
Q 046770          337 IITTRN-ADA--ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALGC  408 (475)
Q Consensus       337 lvTtR~-~~v--~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~~  408 (475)
                      +.+|.+ ...  .........+.+...+.++...++...+.....    ....+....|++.+.|.+-.+..+..
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i----~~~~~~l~~ia~~s~gd~R~a~~~l~  209 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV----RITEEAALEIGRRSRGTMRVAKRLFR  209 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC----CBCHHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             EeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCC----ccchHHHHHHHHHcCCCHHHHHHHHH
Confidence            544433 211  222234567888999999998888766543322    12245677899999998876654444

>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=98.41  E-value=6.4e-07  Score=85.46  Aligned_cols=154  Identities=14%  Similarity=0.164  Sum_probs=84.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc---cc-ccCcCeEEEE-EecCCCCHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS---RV-QCHFDLKAWT-YVSQDFDIIR  270 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~-~~~F~~~~wv-~v~~~~~~~~  270 (475)
                      .++||+.+++++++.|.. ..       -.-+.++|++|+|||+|+..++...   .+ ....+.++|. +++.      
T Consensus        23 ~~~gr~~ei~~~~~~L~r-~~-------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------   88 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLR-RT-------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------   88 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHC-SS-------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------
T ss_pred             CCcCcHHHHHHHHHHHhc-CC-------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------
Confidence            478999999999999986 21       1234688999999999886655421   11 2223455554 2222      


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHH-HHHHHHhCC-ceEEEEEECCCCCC-------hhhHhHhhCcCCCCCCCcEEEEecC
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQ-WKLKKQLFG-KRFLLVLDDVWNEN-------YNDWIDLSRPFQDGAPGSKIIITTR  341 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~-~~l~~~l~~-kr~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~gs~ilvTtR  341 (475)
                              +..........+... ..+.+.... .+++|++|+++..-       ..+-..++.+... ...-++|.||.
T Consensus        89 --------l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~-rg~~~~I~~tT  159 (387)
T d1qvra2          89 --------LLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-RGELRLIGATT  159 (387)
T ss_dssp             -----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH-TTCCCEEEEEC
T ss_pred             --------hhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh-CCCcceeeecC
Confidence                    111111112223322 233333333 47999999996431       0111122222211 12457888887


Q ss_pred             ChHHHHhc------CCCceeeCCCCCHHHHHHHHhhc
Q 046770          342 NADAALIM------GTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       342 ~~~v~~~~------~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      ..+....-      ..++.+.+++.+.+++..++...
T Consensus       160 ~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~  196 (387)
T d1qvra2         160 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  196 (387)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHH
Confidence            76665431      24578999999999999988754

>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=98.32  E-value=1.5e-06  Score=77.59  Aligned_cols=178  Identities=16%  Similarity=0.077  Sum_probs=99.0

Q ss_pred             ccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          195 AKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .+++|-+.-+++|..|+..... ..  ...+-+.++|++|+||||+|+.+++..  ..  + ...++.+......++ ..
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~--~~~~~~L~~GPpGtGKT~lA~~la~~~--~~--~-~~~~~~~~~~~~~~~-~~   79 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RG--EVLDHVLLAGPPGLGKTTLAHIIASEL--QT--N-IHVTSGPVLVKQGDM-AA   79 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HT--CCCCCEEEESSTTSSHHHHHHHHHHHH--TC--C-EEEEETTTCCSHHHH-HH
T ss_pred             HHcCChHHHHHHHHHHHHHHHh-cC--CCCCeEEEECCCCCcHHHHHHHHHhcc--CC--C-cccccCcccccHHHH-HH
Confidence            4689999999999888753110 00  234457899999999999999998842  22  2 223333332222221 11


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhC------------------cCCCCCCCcEE
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSR------------------PFQDGAPGSKI  336 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~------------------~l~~~~~gs~i  336 (475)
                      +                    +..  .+++..+++|++.......-+.+..                  .+........+
T Consensus        80 ~--------------------~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          80 I--------------------LTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             H--------------------HHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             H--------------------HHh--hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEE
Confidence            1                    111  2344566777775443211111110                  00011224455


Q ss_pred             EEecCCh-HH--HHhcCCCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHHHHHHH
Q 046770          337 IITTRNA-DA--ALIMGTVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLAAKALG  407 (475)
Q Consensus       337 lvTtR~~-~v--~~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLai~~~~  407 (475)
                      |.+|... ..  +........+.+++.+.++...++...+.....    ....+....|++.++|.+-.+..+.
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~l~~i~~~s~gd~R~ai~~l  207 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV----EIEDAAAEMIAKRSRGTPRIAIRLT  207 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC----CBCHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             EEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccc----hhhHHHHHHHHHhCCCCHHHHHHHH
Confidence            5555553 22  222223456789999999999999876643322    1224567789999999877665443

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.20  E-value=1.2e-05  Score=72.27  Aligned_cols=183  Identities=15%  Similarity=0.098  Sum_probs=98.7

Q ss_pred             ccccccchhHHHHHH---HHhcCCCCCC-CCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHH
Q 046770          195 AKVYGRSKEREEIVE---LLLKEDGTSH-NNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~---~L~~~~~~~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~  270 (475)
                      .+++|-+..+++|.+   ++.....-.. .....+.+.++|++|+|||+||+.+++..  ..+   .+-++.+.-.+   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~--~~~---~~~i~~~~l~~---   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVP---FFTISGSDFVE---   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH--TCC---EEEECSCSSTT---
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc--CCC---EEEEEhHHhhh---
Confidence            478898877777654   4332110000 00234678899999999999999999742  221   12222222111   


Q ss_pred             HHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCC------C----Chhh----HhHhhCcCC--CCCCCc
Q 046770          271 VTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWN------E----NYND----WIDLSRPFQ--DGAPGS  334 (475)
Q Consensus       271 ~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~------~----~~~~----~~~l~~~l~--~~~~gs  334 (475)
                                  .........+...+...-+..+++|+|||++.      .    ....    ...++..+.  ....+.
T Consensus        84 ------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v  151 (256)
T d1lv7a_          84 ------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  151 (256)
T ss_dssp             ------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCE
T ss_pred             ------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCE
Confidence                        01122233344444444456789999999832      0    0011    122322222  223345


Q ss_pred             EEEEecCChHHH-Hh-cC---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          335 KIIITTRNADAA-LI-MG---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       335 ~ilvTtR~~~v~-~~-~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      -||.||..++.. .. ..   -...+.+.+.+.++-.++|+........ ....++    ..+++.+.|..-+
T Consensus       152 ~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~-~~~~~~----~~la~~t~G~s~a  219 (256)
T d1lv7a_         152 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPL-APDIDA----AIIARGTPGFSGA  219 (256)
T ss_dssp             EEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCB-CTTCCH----HHHHHTCTTCCHH
T ss_pred             EEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCc-CcccCH----HHHHHhCCCCCHH
Confidence            666678764332 11 11   2367889999999999999876533221 222233    4477888887533

>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=98.08  E-value=2.3e-05  Score=68.32  Aligned_cols=149  Identities=17%  Similarity=0.091  Sum_probs=84.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCce
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKR  304 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr  304 (475)
                      ..+.|+|++|+|||.|++.+++..  .......++++      ..++...+...+...     ........    +. .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~--~~~~~~~~~~~------~~~~~~~~~~~~~~~-----~~~~~~~~----~~-~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSS------ADDFAQAMVEHLKKG-----TINEFRNM----YK-SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEE------HHHHHHHHHHHHHHT-----CHHHHHHH----HH-TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHh--ccCccceEEec------hHHHHHHHHHHHHcc-----chhhHHHH----Hh-hc
Confidence            347899999999999999999853  33333455553      334445555444332     11222222    22 23


Q ss_pred             EEEEEECCCCCC-hhhHhHh-hCcCCC-CCCCcEEEEecCCh---------HHHHhcCCCceeeCCCCCHHHHHHHHhhc
Q 046770          305 FLLVLDDVWNEN-YNDWIDL-SRPFQD-GAPGSKIIITTRNA---------DAALIMGTVQAYPLKGLSNDDCMCLFTQH  372 (475)
Q Consensus       305 ~LlVlDdv~~~~-~~~~~~l-~~~l~~-~~~gs~ilvTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  372 (475)
                      -+|+|||++... ...|... ...+.. ...|..||+||+..         +....+....++.++ ++.++-..++.+.
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~  177 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEK  177 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHH
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHH
Confidence            589999996432 2345442 222221 23577999999853         333334456677786 4777777777777


Q ss_pred             ccCCCCCCCCchHHHHHHHHHHhc
Q 046770          373 SLETRDFSMHQPLKEIGAKIVIKC  396 (475)
Q Consensus       373 ~~~~~~~~~~~~~~~~~~~I~~~c  396 (475)
                      +-..+- ..+   .++..-|++.+
T Consensus       178 a~~rgl-~l~---~~v~~yl~~~~  197 (213)
T d1l8qa2         178 LKEFNL-ELR---KEVIDYLLENT  197 (213)
T ss_dssp             HHHTTC-CCC---HHHHHHHHHHC
T ss_pred             HHHcCC-CCC---HHHHHHHHHhc
Confidence            633221 222   35555566665

>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=98.04  E-value=3.2e-05  Score=68.94  Aligned_cols=180  Identities=14%  Similarity=0.107  Sum_probs=93.1

Q ss_pred             ccccccchhHHHHHHH---HhcCC---CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          195 AKVYGRSKEREEIVEL---LLKED---GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~---L~~~~---~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      .+++|-++.+++|.+.   +....   ..+.  ...+-+.++|++|+|||+||+.+++..  ..+   .+.++.+     
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~--~~~~giLl~GppGtGKT~la~aia~~~--~~~---~~~i~~~-----   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGA--RIPKGVLLVGPPGVGKTHLARAVAGEA--RVP---FITASGS-----   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTC--CCCSEEEEECCTTSSHHHHHHHHHHHT--TCC---EEEEEHH-----
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCC--CCCceEEEecCCCCChhHHHHHHHHHc--CCC---EEEEEhH-----
Confidence            3688888776665443   32200   0001  234568999999999999999999832  222   1222221     


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCC------C-----Ch---hhHhHhhCcCC--CCCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWN------E-----NY---NDWIDLSRPFQ--DGAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~------~-----~~---~~~~~l~~~l~--~~~~  332 (475)
                       .+.    .    .. .......+...+...-...+++|+|||++.      .     +.   .....++..+.  ....
T Consensus        77 -~l~----~----~~-~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          77 -DFV----E----MF-VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             -HHH----H----SC-TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             -Hhh----h----cc-ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence             111    1    10 111112222223333356789999999831      0     00   01222222221  1223


Q ss_pred             CcEEEEecCChHHH-Hhc---C-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchH
Q 046770          333 GSKIIITTRNADAA-LIM---G-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPL  401 (475)
Q Consensus       333 gs~ilvTtR~~~v~-~~~---~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PL  401 (475)
                      +.-||.||...... ..+   + -...+.+.+.+.++-.++|+........ .....+    ..+++.|.|..-
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~-~~~~~~----~~la~~t~g~s~  215 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPL-AEDVDL----ALLAKRTPGFVG  215 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCB-CTTCCH----HHHHHTCTTCCH
T ss_pred             CEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCC-ccccCH----HHHHHHCCCCCH
Confidence            33445577654321 211   1 2357899999999999999877643322 222233    457788888643

>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=98.03  E-value=4.2e-05  Score=68.77  Aligned_cols=180  Identities=12%  Similarity=0.057  Sum_probs=97.5

Q ss_pred             cccccchhHHHHHHHH----hcCC---CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          196 KVYGRSKEREEIVELL----LKED---GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L----~~~~---~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ++.|-+..+++|.+.+    ...+   ..+.  ...+-+.++|++|+|||++|+.+++.  ...+|   ..++.+.    
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~--~~~~giLL~GppGtGKT~l~~ala~~--~~~~~---~~i~~~~----   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGV--KPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPE----   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCC--CCCCEEEEECCTTSSHHHHHHHHHHH--TTCEE---EEECHHH----
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCC--CCCceeEEecCCCCCchHHHHHHHHH--hCCeE---EEEEchh----
Confidence            5788888888887764    2100   0011  23456889999999999999999983  22222   2222111    


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCCh-------hhH----hHhhCcC--CCCCCCcE
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENY-------NDW----IDLSRPF--QDGAPGSK  335 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~-------~~~----~~l~~~l--~~~~~gs~  335 (475)
                                +.... .......+...+...-..++++|+|||+.....       +..    ..+...+  .....+.-
T Consensus        74 ----------l~~~~-~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vl  142 (258)
T d1e32a2          74 ----------IMSKL-AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  142 (258)
T ss_dssp             ----------HTTSC-TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEE
T ss_pred             ----------hcccc-cccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCcc
Confidence                      11110 111112222223333346789999999954210       111    1111111  12234556


Q ss_pred             EEEecCChHHHH-hc-C---CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          336 IIITTRNADAAL-IM-G---TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       336 ilvTtR~~~v~~-~~-~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      ||.||....-.. .+ .   -...+.+...+.++-..+|......... ....+    ...|++.+.|.-.|
T Consensus       143 vi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~-~~~~~----~~~la~~t~G~s~a  209 (258)
T d1e32a2         143 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKL-ADDVD----LEQVANETHGHVGA  209 (258)
T ss_dssp             EEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCB-CTTCC----HHHHHHHCTTCCHH
T ss_pred             EEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccc-ccccc----hhhhhhcccCCCHH
Confidence            677887753321 11 1   2367899999999999999876533211 22222    34588999997443

>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=97.87  E-value=2.1e-05  Score=71.03  Aligned_cols=180  Identities=16%  Similarity=0.090  Sum_probs=93.9

Q ss_pred             cccccchhHHHHHHHHh----cCC---CCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH
Q 046770          196 KVYGRSKEREEIVELLL----KED---GTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI  268 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~----~~~---~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~  268 (475)
                      ++.|-++.+++|.+.+.    ...   ..+.  ...+-|.++|++|+|||+||+.+++..  ..+|     +.++    .
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~--~~~~giLL~Gp~GtGKT~l~~ala~~~--~~~~-----~~~~----~   74 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGM--TPSKGVLFYGPPGCGKTLLAKAIANEC--QANF-----ISIK----G   74 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCC--CCCCEEEEBCCTTSSHHHHHHHHHHHT--TCEE-----EEEC----H
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCC--CCCCeEEEECCCCCcchhHHHHHHHHh--CCcE-----EEEE----H
Confidence            46677666555555432    100   0011  334578899999999999999999843  2222     1221    1


Q ss_pred             HHHHHHHHHHhhcCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCC----------hh----hHhHhhCcCCC--CCC
Q 046770          269 IRVTKSILRSVAMGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNEN----------YN----DWIDLSRPFQD--GAP  332 (475)
Q Consensus       269 ~~~l~~il~~l~~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~----------~~----~~~~l~~~l~~--~~~  332 (475)
                      .        .+... ........+...+...-...+++|+|||+....          ..    ....++..+..  ...
T Consensus        75 ~--------~l~~~-~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  145 (265)
T d1r7ra3          75 P--------ELLTM-WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  145 (265)
T ss_dssp             H--------HHHTS-CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------
T ss_pred             H--------Hhhhc-cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCC
Confidence            1        11111 111222333333333344678999999995321          00    11233333431  233


Q ss_pred             CcEEEEecCChHHH-Hhc---C-CCceeeCCCCCHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHhcCCchHH
Q 046770          333 GSKIIITTRNADAA-LIM---G-TVQAYPLKGLSNDDCMCLFTQHSLETRDFSMHQPLKEIGAKIVIKCNGLPLA  402 (475)
Q Consensus       333 gs~ilvTtR~~~v~-~~~---~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~I~~~c~G~PLa  402 (475)
                      +.-||.||...+-. ..+   + -...+++...+.++-.++|+....... .....++    .+|++++.|...+
T Consensus       146 ~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~-~~~~~~l----~~la~~t~g~s~~  215 (265)
T d1r7ra3         146 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSP-VAKDVDL----EFLAKMTNGFSGA  215 (265)
T ss_dssp             CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----CCCC----HHHHHHHCSSCCH
T ss_pred             CEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCC-chhhhhH----HHHHhcCCCCCHH
Confidence            45667787764321 111   1 235789999999999999986653211 1112223    4477888886543

>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=97.73  E-value=2.3e-05  Score=69.92  Aligned_cols=48  Identities=15%  Similarity=0.113  Sum_probs=33.2

Q ss_pred             ccccccchhHHHHHHHHh-------cCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          195 AKVYGRSKEREEIVELLL-------KEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       195 ~~~vGR~~e~~~l~~~L~-------~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++|....++.+++.+.       . ...    ...+-|.++|++|+|||++|+.+++.
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~-~~~----~p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKN-SDR----TPLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHH-CSS----CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhc-cCC----CCCeEEEEECcCCCCHHHHHHHHhhc
Confidence            457777666655544332       2 111    34567889999999999999999983

>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=97.56  E-value=0.00015  Score=62.01  Aligned_cols=131  Identities=11%  Similarity=-0.013  Sum_probs=78.3

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcc--cccCcCeEEEEEec-CCCCHHHHHHHHHHHhh
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSR--VQCHFDLKAWTYVS-QDFDIIRVTKSILRSVA  280 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~wv~v~-~~~~~~~~l~~il~~l~  280 (475)
                      ++-+..++..        ...+.+.++|++|+|||++|..+.+...  ...|.| ..++.-. ....+.++ +++.+.+.
T Consensus         3 ~~~l~~~i~~--------~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~   72 (198)
T d2gnoa2           3 LETLKRIIEK--------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLN   72 (198)
T ss_dssp             HHHHHHHHHT--------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHT
T ss_pred             HHHHHHHHhc--------CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHh
Confidence            4555566655        4567899999999999999998876321  122333 2333221 11222222 33444333


Q ss_pred             cCCCCCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCCCCCcEEEEecCChH-H-HHhcCCCceeeCC
Q 046770          281 MGIVDHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDGAPGSKIIITTRNAD-A-ALIMGTVQAYPLK  358 (475)
Q Consensus       281 ~~~~~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ilvTtR~~~-v-~~~~~~~~~~~l~  358 (475)
                      ...                ..+++=++|+|+++..+...+..++..+..-..++.+|++|.+.. + ....+....+.+.
T Consensus        73 ~~~----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~  136 (198)
T d2gnoa2          73 YSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVN  136 (198)
T ss_dssp             SCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECC
T ss_pred             hCc----------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCC
Confidence            221                124455999999988888888888888875556778777777643 2 1222334556665


Q ss_pred             CC
Q 046770          359 GL  360 (475)
Q Consensus       359 ~L  360 (475)
                      +.
T Consensus       137 ~p  138 (198)
T d2gnoa2         137 VP  138 (198)
T ss_dssp             CC
T ss_pred             Cc
Confidence            43

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.19  E-value=0.00013  Score=67.27  Aligned_cols=137  Identities=13%  Similarity=0.152  Sum_probs=68.0

Q ss_pred             cccccchhHHHHHHHHhcCCCC-CCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDGT-SHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|-+..++.|...+.....+ ...+....++.++|+.|+|||.||+.+.+..  -..-...+-++.+.-.+... .. 
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l--~~~~~~~~~~~~~~~~~~~~-~~-   99 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL--FDTEEAMIRIDMTEYMEKHA-VS-   99 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH--HSSGGGEEEECTTTCCSSGG-GG-
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh--cCCCcceEEEeccccccchh-hh-
Confidence            4677777777776655321100 0111334578899999999999999887632  11111222233332222111 00 


Q ss_pred             HHHHhhcCCC---CCCChHHHHHHHHHHhCCceEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEec
Q 046770          275 ILRSVAMGIV---DHNDLNLLQWKLKKQLFGKRFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITT  340 (475)
Q Consensus       275 il~~l~~~~~---~~~~~~~l~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTt  340 (475)
                         .+.+..+   +......+...+++   ....+++||++.......+..+...+..+           ..++-+|+||
T Consensus       100 ---~L~g~~~gyvG~~~~~~l~~~~~~---~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~ts  173 (315)
T d1qvra3         100 ---RLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTS  173 (315)
T ss_dssp             ---GC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEEC
T ss_pred             ---hhcCCCCCCcCcccCChHHHHHHh---CCCcEEEEehHhhcCHHHHHHHHHHhccCceeCCCCcEecCcceEEEEec
Confidence               1111111   11111223333332   34679999999877766666665554322           1345667777


Q ss_pred             CC
Q 046770          341 RN  342 (475)
Q Consensus       341 R~  342 (475)
                      ..
T Consensus       174 nl  175 (315)
T d1qvra3         174 NL  175 (315)
T ss_dssp             CT
T ss_pred             cc
Confidence            64

>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=96.89  E-value=0.00021  Score=59.10  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|+.|+|+.|+|||||+..+.+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            469999999999999999999873

>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=96.87  E-value=0.0005  Score=61.56  Aligned_cols=44  Identities=18%  Similarity=0.308  Sum_probs=30.3

Q ss_pred             chhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          201 SKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       201 ~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +..+.+.+..+.. .....  ..++.|.++|++|+||||||+.+++.
T Consensus        12 ~~~~~~~~~~~~~-~~~~~--~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          12 ENRLNDNLEELIQ-GKKAV--ESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHHHHHHHHT-TCCCC--SSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-cccCC--CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3344444455544 22222  55678999999999999999999983

>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=96.82  E-value=0.00026  Score=59.31  Aligned_cols=24  Identities=25%  Similarity=0.319  Sum_probs=22.0

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+.|+|.|++|+||||||+.+.+
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            357899999999999999999987

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.00031  Score=64.73  Aligned_cols=136  Identities=15%  Similarity=0.095  Sum_probs=70.4

Q ss_pred             cccccchhHHHHHHHHhcCCC-CCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          196 KVYGRSKEREEIVELLLKEDG-TSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~-~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++|-+..++.+...+..... -...+....++.++|+.|+|||.||+.++.-  .   +...+-++.+.-.+...    
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            467877777777666532000 0011134568889999999999999999873  2   22223333332111000    


Q ss_pred             HHHHhhcCCCCCCChHHHHHHHHHHh-CCceEEEEEECCCCCChhhHhHhhCcCCCC-----------CCCcEEEEecCC
Q 046770          275 ILRSVAMGIVDHNDLNLLQWKLKKQL-FGKRFLLVLDDVWNENYNDWIDLSRPFQDG-----------APGSKIIITTRN  342 (475)
Q Consensus       275 il~~l~~~~~~~~~~~~l~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~ilvTtR~  342 (475)
                       ...+.+..++.. .......+...+ +....+++||++.....+.|..++..+..+           ...+-+|.||..
T Consensus        94 -~~~l~g~~~gy~-g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Tsni  171 (315)
T d1r6bx3          94 -VSRLIGAPPGYV-GFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNA  171 (315)
T ss_dssp             -CSSSCCCCSCSH-HHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECS
T ss_pred             -hhhhcccCCCcc-ccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhccceecCCCCCccCccceEEEeccch
Confidence             001111111100 001111122222 244678889999888777777766655311           234556777764

>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=96.79  E-value=0.00022  Score=58.42  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.|.|+|++|+||||+|+.++.
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            3578889999999999999997

>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=96.78  E-value=0.00032  Score=56.88  Aligned_cols=22  Identities=32%  Similarity=0.448  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|.|+|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998865

>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=96.75  E-value=0.00034  Score=57.84  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|.|.|++|+||||+|+.+..
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            6899999999999999999986

>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=96.69  E-value=0.0011  Score=55.83  Aligned_cols=26  Identities=35%  Similarity=0.340  Sum_probs=22.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.-+|+|.|++|+||||||+.+...
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45578999999999999999999873

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.67  E-value=0.00038  Score=57.92  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+|.|+|++|+||||+|+.+..
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999999987

>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=96.67  E-value=0.00052  Score=56.69  Aligned_cols=25  Identities=24%  Similarity=0.489  Sum_probs=23.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +..+++.|.|++|+||||+|+.+..
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            5678999999999999999999987

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.64  E-value=0.0042  Score=55.23  Aligned_cols=85  Identities=16%  Similarity=0.113  Sum_probs=59.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLK  297 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~  297 (475)
                      .-+++-|.|++|+||||||.+++......+  ..++|++.-..++...     +++++....     .....++..+.+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHH
Confidence            347899999999999999988876433222  3589999999888654     455554432     3455666666666


Q ss_pred             HHhC-CceEEEEEECCCC
Q 046770          298 KQLF-GKRFLLVLDDVWN  314 (475)
Q Consensus       298 ~~l~-~kr~LlVlDdv~~  314 (475)
                      .... ++.-|||+|.+-.
T Consensus       132 ~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHTTCEEEEEEECSTT
T ss_pred             HHHhcCCCCEEEEecccc
Confidence            5553 5577999999843

>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=96.62  E-value=0.00056  Score=58.04  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=23.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.+|.|+|++|+||||+|+.+++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999999873

>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=96.61  E-value=0.00035  Score=58.41  Aligned_cols=23  Identities=35%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.|+|++|+|||||++.++..
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

>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=96.61  E-value=0.0033  Score=55.96  Aligned_cols=83  Identities=17%  Similarity=0.113  Sum_probs=59.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKK  298 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~  298 (475)
                      -+++-|.|++|+|||+||.+++......+  ..++|++....+++.     +++.++....     ...+.++..+.+..
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~  129 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  129 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHHH
Confidence            36899999999999999998877533222  358999999888864     5666655432     34566666667766


Q ss_pred             HhCC-ceEEEEEECCC
Q 046770          299 QLFG-KRFLLVLDDVW  313 (475)
Q Consensus       299 ~l~~-kr~LlVlDdv~  313 (475)
                      ..+. ..-|||+|-+-
T Consensus       130 l~~~~~~~liIiDSi~  145 (268)
T d1xp8a1         130 LVRSGAIDVVVVDSVA  145 (268)
T ss_dssp             HHTTTCCSEEEEECTT
T ss_pred             HHhcCCCcEEEEeccc
Confidence            6654 45699999983

>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=96.60  E-value=0.011  Score=51.99  Aligned_cols=45  Identities=29%  Similarity=0.326  Sum_probs=34.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          196 KVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +|||....++++.+.+.....     .+. -|.|.|..|+|||++|+.+..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~-----~~~-pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC-----AEC-PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT-----CCS-CEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC-----CCC-CEEEECCCCcCHHHHHHHHHH
Confidence            378888888888887765221     222 368999999999999999976

>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=96.57  E-value=0.00039  Score=57.46  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..|.|+|++|+||||+|+.+..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3577999999999999999987

>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=96.56  E-value=0.0059  Score=52.79  Aligned_cols=54  Identities=9%  Similarity=0.198  Sum_probs=34.0

Q ss_pred             HHHHHhCCceEEEEEECCCCC-ChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHh
Q 046770          295 KLKKQLFGKRFLLVLDDVWNE-NYNDWIDLSRPFQD--GAPGSKIIITTRNADAALI  348 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~  348 (475)
                      .|.+.|..++-+|++|+--.. +...-..+...+..  ...|..||++|.+.+++..
T Consensus       155 aIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~~  211 (230)
T d1l2ta_         155 AIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVARF  211 (230)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHHHHTT
T ss_pred             HHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHHHHHh
Confidence            466677788889999997322 22232333333321  2357889999998888754

>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=96.53  E-value=0.0007  Score=57.55  Aligned_cols=26  Identities=31%  Similarity=0.489  Sum_probs=23.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.++|.|.|++|+||||+|+.++..
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999999999873

>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=96.47  E-value=0.00052  Score=58.03  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -.+|.++|++|+||||+|+.+..
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46888999999999999999987

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.43  E-value=0.00069  Score=56.06  Aligned_cols=22  Identities=14%  Similarity=0.297  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|.|.|++|+||||+|+.+.+
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999987

>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=96.42  E-value=0.0054  Score=52.26  Aligned_cols=89  Identities=13%  Similarity=0.129  Sum_probs=49.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCH--HHHHHHHHHHhhcCCC---CCCChHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDI--IRVTKSILRSVAMGIV---DHNDLNLLQWKL  296 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~--~~~l~~il~~l~~~~~---~~~~~~~l~~~l  296 (475)
                      ..+.||.++|+.|+||||.+-.++.... +  ....+.+-..+.+.+  .+-++...+.++....   ...+........
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~-~--~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE-Q--QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH-T--TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-H--CCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHH
Confidence            4578999999999999977766665322 1  223455555555554  4556666666655432   233333333222


Q ss_pred             HHHhCCce-EEEEEECCC
Q 046770          297 KKQLFGKR-FLLVLDDVW  313 (475)
Q Consensus       297 ~~~l~~kr-~LlVlDdv~  313 (475)
                      .+..+.+. =++++|=..
T Consensus        84 ~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHcCCCEEEeccCC
Confidence            22222222 367777764

>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=96.34  E-value=0.00095  Score=55.20  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=21.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|.|.|++|+||||+|+.+.+.
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            78999999999999999999873

>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=96.32  E-value=0.001  Score=54.91  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=21.4

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.-.|.|.|++|+||||+|+.+.+.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            3456889999999999999999873

>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=96.31  E-value=0.001  Score=55.34  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=22.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +...+|.++|++|+||||+|+.+..
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            4567999999999999999998875

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.25  E-value=0.0051  Score=54.55  Aligned_cols=82  Identities=22%  Similarity=0.157  Sum_probs=56.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCC-----CCCChHHHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIV-----DHNDLNLLQWKLKKQ  299 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~-----~~~~~~~l~~~l~~~  299 (475)
                      +++-|+|++|+||||||.+++......  =..++|++....++..     .++.++....     ...+.++..+.+...
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l  127 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDAL  127 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHcC--CCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHHHH
Confidence            689999999999999999988754322  2457899998888864     3455554421     234555555555555


Q ss_pred             hC-CceEEEEEECCC
Q 046770          300 LF-GKRFLLVLDDVW  313 (475)
Q Consensus       300 l~-~kr~LlVlDdv~  313 (475)
                      .+ ++.-|||+|-+-
T Consensus       128 ~~~~~~~liViDSi~  142 (263)
T d1u94a1         128 ARSGAVDVIVVDSVA  142 (263)
T ss_dssp             HHHTCCSEEEEECGG
T ss_pred             HhcCCCCEEEEECcc
Confidence            53 344589999883

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.25  E-value=0.00095  Score=55.74  Aligned_cols=23  Identities=39%  Similarity=0.654  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|+|.|++|+||||+++.+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999763

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.24  E-value=0.00082  Score=55.38  Aligned_cols=20  Identities=25%  Similarity=0.569  Sum_probs=17.6

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |.++|++|+||||+++.++.
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            34559999999999999987

>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=96.23  E-value=0.0011  Score=56.71  Aligned_cols=24  Identities=17%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.+|.++|.+|+||||||++++..
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            368999999999999999999873

>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=96.21  E-value=0.0042  Score=53.05  Aligned_cols=59  Identities=14%  Similarity=0.103  Sum_probs=30.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMG  282 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~  282 (475)
                      ..+.||.++|+.|+||||.+-.++...+ .... .+..|++.. .....+-++...+.++..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCC-ceEEEEeeccccchhHHHHHhccccCcc
Confidence            4578999999999999976655554332 2222 345555432 223334455555555544

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.17  E-value=0.0067  Score=54.95  Aligned_cols=79  Identities=18%  Similarity=0.112  Sum_probs=46.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcC--eEEEEEecCCCCHHHHHHHHHHHh--hcCCCCCCChHHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD--LKAWTYVSQDFDIIRVTKSILRSV--AMGIVDHNDLNLLQWKLK  297 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~--~~~wv~v~~~~~~~~~l~~il~~l--~~~~~~~~~~~~l~~~l~  297 (475)
                      ..+-+|+|.|..|+||||+|+.+...  ....+.  .+.-++...-+-....+..  +.+  ....++.-+.+.+...|.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~l--L~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~  153 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQAL--LSRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVS  153 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH--HTTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHH--HhhhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHH
Confidence            56789999999999999999998762  222221  2333343333332222221  111  112234567788888888


Q ss_pred             HHhCCce
Q 046770          298 KQLFGKR  304 (475)
Q Consensus       298 ~~l~~kr  304 (475)
                      ....++.
T Consensus       154 ~lk~g~~  160 (308)
T d1sq5a_         154 DLKSGVP  160 (308)
T ss_dssp             HHTTTCS
T ss_pred             HHHcCCC
Confidence            7776653

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.12  E-value=0.002  Score=56.37  Aligned_cols=84  Identities=15%  Similarity=0.117  Sum_probs=50.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhhcC--------C-------CCCCC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMG--------I-------VDHND  288 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~--------~-------~~~~~  288 (475)
                      -+++.|+|.+|+|||+||.+++.+  ...+...++|++....  ...+.+.. ..+...        .       .....
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPESAG  100 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGGSC
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccCC--HHHHHHHH-HHcCCChHHHhhcCceEEEEeecchhh
Confidence            468999999999999999999884  3445566788876553  23332222 111110        0       01233


Q ss_pred             hHHHHHHHHHHh-CCceEEEEEECC
Q 046770          289 LNLLQWKLKKQL-FGKRFLLVLDDV  312 (475)
Q Consensus       289 ~~~l~~~l~~~l-~~kr~LlVlDdv  312 (475)
                      .......+...+ +.+.-++|+|.+
T Consensus       101 ~~~~~~~i~~~i~~~~~~~vviDs~  125 (242)
T d1tf7a2         101 LEDHLQIIKSEINDFKPARIAIDSL  125 (242)
T ss_dssp             HHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             HHHHHHHHHHHHHhcCCceeeeecc
Confidence            444444555444 445668888986

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.12  E-value=0.0012  Score=54.26  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++++|+|..|+|||||+..+...
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            58999999999999999999874

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.09  E-value=0.0013  Score=54.58  Aligned_cols=21  Identities=38%  Similarity=0.588  Sum_probs=19.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |+|+|++|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999863

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.06  E-value=0.0075  Score=51.27  Aligned_cols=59  Identities=14%  Similarity=0.013  Sum_probs=36.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMG  282 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~  282 (475)
                      .+.+++.++|+.|+||||.+-.++...... . ..+..++... .....+-++...+.++..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEEeccccccchhhHhhcccccCce
Confidence            345799999999999998776666533222 2 2455555543 334556666666666554

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.03  E-value=0.0014  Score=53.77  Aligned_cols=21  Identities=43%  Similarity=0.665  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|++|+||||+++.++..
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            667799999999999999884

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.03  E-value=0.0076  Score=51.26  Aligned_cols=57  Identities=14%  Similarity=0.029  Sum_probs=33.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC--CHHHHHHHHHHHhhc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF--DIIRVTKSILRSVAM  281 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~--~~~~~l~~il~~l~~  281 (475)
                      .+.+|+.++|+.|+||||.+-.++.... .... .+..+++ +.+  ...+-++...+.++.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~-~~g~-kV~lit~-Dt~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK-GKGR-RPLLVAA-DTQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH-HTTC-CEEEEEC-CSSCHHHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH-HCCC-cEEEEec-ccccchHHHHHHHHHHhcCC
Confidence            3458999999999999977766655332 2222 3444443 223  233445555555544

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.01  E-value=0.0012  Score=54.64  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .|.++|++|+||||+|+.+++
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            356889999999999999987

>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=95.96  E-value=0.0018  Score=54.70  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|.|.|++|+||||+|+.+++
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999987

>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=95.92  E-value=0.0021  Score=58.78  Aligned_cols=52  Identities=17%  Similarity=0.236  Sum_probs=32.6

Q ss_pred             cccccchhHHHHHHHHhc----CCC--CCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          196 KVYGRSKEREEIVELLLK----EDG--TSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       196 ~~vGR~~e~~~l~~~L~~----~~~--~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|-++.++.|...+..    ..-  ....+...+.+.++||+|+|||.||+.+++.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            467777777766654411    000  0000012356778999999999999999873

>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=95.88  E-value=0.0089  Score=54.32  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.++|++|+|||.||+.++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46677899999999999999983

>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=95.80  E-value=0.02  Score=50.63  Aligned_cols=99  Identities=18%  Similarity=0.261  Sum_probs=60.5

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCC-CHHHHHHHHHHHhhcC--
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDF-DIIRVTKSILRSVAMG--  282 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~-~~~~~l~~il~~l~~~--  282 (475)
                      +.++.|.....+       .-++|.|..|+|||+|+..+.++. .+.+=+.++++-+.+.. ...+++..+.+.-...  
T Consensus        57 raID~l~pigkG-------Qr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~  128 (276)
T d2jdid3          57 KVVDLLAPYAKG-------GKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLK  128 (276)
T ss_dssp             HHHHHHSCEETT-------CEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSS
T ss_pred             eeeeeeccccCC-------CEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccc
Confidence            467777653321       248999999999999999998742 22334567888888764 4556666666542111  


Q ss_pred             C----------CCCCChH------HHHHHHHHHh---CCceEEEEEECC
Q 046770          283 I----------VDHNDLN------LLQWKLKKQL---FGKRFLLVLDDV  312 (475)
Q Consensus       283 ~----------~~~~~~~------~l~~~l~~~l---~~kr~LlVlDdv  312 (475)
                      .          ...+...      ...-.+.+++   +|+.+|+++||+
T Consensus       129 ~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsl  177 (276)
T d2jdid3         129 DATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI  177 (276)
T ss_dssp             SSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             cccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcch
Confidence            0          0111111      1112344554   389999999998

>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=95.78  E-value=0.0023  Score=53.47  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|.|.|++|+||||+++.+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6889999999999999999986

>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=95.74  E-value=0.012  Score=50.10  Aligned_cols=90  Identities=14%  Similarity=0.100  Sum_probs=49.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC-CCCHHHHHHHHHHHhhcCCC---CCCChHHHHHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ-DFDIIRVTKSILRSVAMGIV---DHNDLNLLQWKLK  297 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~-~~~~~~~l~~il~~l~~~~~---~~~~~~~l~~~l~  297 (475)
                      ..+.|+.++|+.|+||||.+-.++.... ... ..+..+++.. .....+-++...+.++....   ...+.........
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~   86 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEG-KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAV   86 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH-HTT-CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-HCC-CceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHHH
Confidence            4668999999999999976666655332 222 3455555443 22344556666666655432   2334433322222


Q ss_pred             H--HhCCceEEEEEECCCC
Q 046770          298 K--QLFGKRFLLVLDDVWN  314 (475)
Q Consensus       298 ~--~l~~kr~LlVlDdv~~  314 (475)
                      .  ...+.. +|++|=...
T Consensus        87 ~~~~~~~~d-~ilIDTaGr  104 (213)
T d1vmaa2          87 AHALARNKD-VVIIDTAGR  104 (213)
T ss_dssp             HHHHHTTCS-EEEEEECCC
T ss_pred             HHHHHcCCC-EEEEecccc
Confidence            1  223333 777787753

>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=95.73  E-value=0.0022  Score=55.22  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=21.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +||+|.|++|+||||+|+.+.++
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            59999999999999999999984

>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=95.69  E-value=0.0028  Score=54.39  Aligned_cols=24  Identities=13%  Similarity=0.167  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +-+|+|.|..|+||||||+.+...
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            358999999999999999988764

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.65  E-value=0.0031  Score=53.03  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++++| |.|++|+||||+|+.++.
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHH
Confidence            456777 679999999999999987

>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=95.62  E-value=0.0058  Score=55.97  Aligned_cols=38  Identities=21%  Similarity=0.340  Sum_probs=28.7

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+|.+.+....      .+..+|+|+|++|+|||||...+...
T Consensus        37 ~~~~~~~~~~~~------~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          37 VRDLIDAVLPQT------GRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHHHGGGC------CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcc------CCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            455555554412      46789999999999999999988763

>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=95.55  E-value=0.0076  Score=53.78  Aligned_cols=36  Identities=19%  Similarity=0.113  Sum_probs=28.4

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      ++++.|.....+       .-++|.|..|+|||+|+..+.++.
T Consensus        32 r~ID~l~PigrG-------Qr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRG-------QRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTT-------CEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCC-------CeeeEeCCCCCCHHHHHHHHHHHH
Confidence            578888774332       357899999999999999998753

>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=95.51  E-value=0.0031  Score=53.27  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++|.|.|++|+||||+|+.+.+
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999987

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.49  E-value=0.015  Score=51.81  Aligned_cols=82  Identities=15%  Similarity=0.119  Sum_probs=48.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcC-eEEEEEecCCCCHHHHHHHHHHHhh-------cCCCCCCChHHHH
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFD-LKAWTYVSQDFDIIRVTKSILRSVA-------MGIVDHNDLNLLQ  293 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-~~~wv~v~~~~~~~~~l~~il~~l~-------~~~~~~~~~~~l~  293 (475)
                      ..+-+|+|.|..|+|||||+..+.........+. .++-++...-+-..+-...+-+...       ...++..+...+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            4567999999999999999988866321111122 3445555443332222233333321       2336778888888


Q ss_pred             HHHHHHhCCc
Q 046770          294 WKLKKQLFGK  303 (475)
Q Consensus       294 ~~l~~~l~~k  303 (475)
                      +.|....++.
T Consensus       105 ~~l~~l~~~~  114 (286)
T d1odfa_         105 EVLNTIFNNN  114 (286)
T ss_dssp             HHHHHHTC--
T ss_pred             HHHHHHHhhc
Confidence            8888777653

>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=95.48  E-value=0.004  Score=53.25  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=22.1

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++..+|.+.|++|+||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999999876

>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=95.44  E-value=0.007  Score=55.45  Aligned_cols=64  Identities=9%  Similarity=-0.051  Sum_probs=33.7

Q ss_pred             HHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHH
Q 046770          205 EEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKS  274 (475)
Q Consensus       205 ~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~  274 (475)
                      .++.+.+.. ..     ++..+|+|+|++|+|||||...+.......++=-.++-+..+.+++--.++.+
T Consensus        41 ~~ll~~~~~-~~-----~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgd  104 (327)
T d2p67a1          41 TQLLDAIMP-YC-----GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGD  104 (327)
T ss_dssp             HHHHHHHGG-GC-----SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-----------
T ss_pred             HHHHHHhhh-cc-----CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccc
Confidence            445555544 21     46789999999999999999988764322222123444444454544444443

>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=95.43  E-value=0.0029  Score=53.12  Aligned_cols=22  Identities=32%  Similarity=0.350  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|.|++|+||||+|+.+++.
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4679999999999999999873

>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=95.38  E-value=0.0067  Score=54.18  Aligned_cols=36  Identities=28%  Similarity=0.540  Sum_probs=27.3

Q ss_pred             hHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          203 EREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       203 e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++..+.+.+..        +..+||.+.|-||+||||+|-.+..
T Consensus         7 ~~~~~~~~~~~--------~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           7 SLSALVDDIAR--------NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             CHHHHHHHHHT--------TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cHHHHHHHhhc--------CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34556666655        5679999999999999998766644

>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=95.37  E-value=0.0035  Score=52.10  Aligned_cols=20  Identities=30%  Similarity=0.544  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |.|.|++|+||||+|+.++.
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            67999999999999999977

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.22  E-value=0.0044  Score=53.36  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=20.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +|+|-|++|+||||+|+.+..+
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999999884

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.20  E-value=0.0042  Score=51.65  Aligned_cols=21  Identities=33%  Similarity=0.387  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.+++.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999873

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.18  E-value=0.0043  Score=51.67  Aligned_cols=21  Identities=29%  Similarity=0.552  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999873

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.18  E-value=0.0045  Score=51.59  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++|.|+|++|+|||||++.+...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            47889999999999999998763

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.12  E-value=0.006  Score=51.18  Aligned_cols=23  Identities=35%  Similarity=0.458  Sum_probs=20.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +-+|+|+|..|+||||+|..+-.
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998743

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.09  E-value=0.0048  Score=51.67  Aligned_cols=22  Identities=32%  Similarity=0.572  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|.|+|++|+|||||++.+.+.
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999999873

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=95.07  E-value=0.006  Score=51.23  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -|.|.|++|+||||+|+.++.
T Consensus         8 rIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            445779999999999999987

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.06  E-value=0.0041  Score=52.33  Aligned_cols=21  Identities=33%  Similarity=0.631  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|++|+|||||++.+...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            679999999999999998773

>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=94.84  E-value=0.0061  Score=50.63  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=18.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++| |.|++|+||||+|+.++.
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHH
T ss_pred             eEEE-EECCCCCCHHHHHHHHHH
Confidence            3444 779999999999999987

>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=94.76  E-value=0.007  Score=50.91  Aligned_cols=26  Identities=31%  Similarity=0.129  Sum_probs=22.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.-+|+|-|..|+||||+++.+.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            45568999999999999999988763

>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=94.74  E-value=0.0065  Score=50.32  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|.|++|+||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999873

>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=94.73  E-value=0.014  Score=50.49  Aligned_cols=47  Identities=15%  Similarity=0.141  Sum_probs=33.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccccC----cCeEEEEEecCCCCHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQCH----FDLKAWTYVSQDFDIIR  270 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~wv~v~~~~~~~~  270 (475)
                      -+++.|.|++|+||||||.++..+......    -...+|++....++...
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   84 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVR   84 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGG
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHH
Confidence            368999999999999999998765322222    24678888777665433

>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=94.61  E-value=0.0079  Score=49.93  Aligned_cols=22  Identities=14%  Similarity=0.480  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.|.|+|++|+|||||++.+..
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            4688999999999999999886

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.58  E-value=0.0084  Score=55.20  Aligned_cols=44  Identities=16%  Similarity=0.222  Sum_probs=31.1

Q ss_pred             cccccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHH
Q 046770          194 EAKVYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       194 ~~~~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      =+.++|.+.-+..|.-.+.. .       ...-|.|.|.+|+||||||+.+.
T Consensus         6 f~~I~Gq~~~kral~laa~~-~-------~~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVD-P-------GIGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHC-G-------GGCCEEEECCGGGCTTHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhc-c-------CCCeEEEECCCCccHHHHHHHHH
Confidence            35789998766655543332 1       11247899999999999999885

>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=94.53  E-value=0.0092  Score=52.99  Aligned_cols=23  Identities=39%  Similarity=0.595  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|+|+|-||+||||+|-.+...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~   24 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHH
Confidence            67899999999999999887653

>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=94.48  E-value=0.016  Score=51.93  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+++.+.|-||+||||+|..++.
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHH
Confidence            3468999999999999998876654

>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=94.31  E-value=0.01  Score=51.51  Aligned_cols=22  Identities=36%  Similarity=0.453  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ||+|+|+.|+|||||...+.++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            7899999999999999998753

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=94.26  E-value=0.037  Score=48.96  Aligned_cols=85  Identities=20%  Similarity=0.178  Sum_probs=47.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCC-HHHHHHHHHHHhhcCC-------CCCCCh-----HHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFD-IIRVTKSILRSVAMGI-------VDHNDL-----NLL  292 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~-~~~~l~~il~~l~~~~-------~~~~~~-----~~l  292 (475)
                      -++|.|..|+|||+|+.......  ..+-..++++-+.+... ..++...+...-....       .+....     ...
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~--~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~  146 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ--QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYT  146 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC--CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHH
T ss_pred             eEeeccCCCCChHHHHHHHHhhh--cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHH
Confidence            36889999999999998765532  33345677777776543 2233333332110000       011110     122


Q ss_pred             HHHHHHHh--CCceEEEEEECC
Q 046770          293 QWKLKKQL--FGKRFLLVLDDV  312 (475)
Q Consensus       293 ~~~l~~~l--~~kr~LlVlDdv  312 (475)
                      .-.+.+++  ++++.|+++||+
T Consensus       147 a~tiAEyfrd~G~~Vlll~Dsl  168 (276)
T d1fx0a3         147 GAALAEYFMYRERHTLIIYDDL  168 (276)
T ss_dssp             HHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHcCCceeEEeecc
Confidence            22333443  589999999998

>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=94.24  E-value=0.033  Score=48.38  Aligned_cols=48  Identities=21%  Similarity=0.240  Sum_probs=34.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcccc----cCcCeEEEEEecCCCCHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSRVQ----CHFDLKAWTYVSQDFDIIRV  271 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~wv~v~~~~~~~~~  271 (475)
                      -+++.|.|++|+||||+|.+++.+....    ......+|+......+...+
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            3799999999999999999887542211    12346778877776665443

>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=94.03  E-value=0.012  Score=49.92  Aligned_cols=22  Identities=23%  Similarity=0.391  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++.|+||+|+|||||.+.+..
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            4788999999999999999886

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.00  E-value=0.014  Score=50.66  Aligned_cols=55  Identities=15%  Similarity=0.229  Sum_probs=32.6

Q ss_pred             HHHHHhCCceEEEEEECCCC-CChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhc
Q 046770          295 KLKKQLFGKRFLLVLDDVWN-ENYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIM  349 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~  349 (475)
                      .|.+.|..++-+|++|+--. -+...-..+...+..  ...|..||++|.+-+.+..+
T Consensus       149 ~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         149 ALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             HHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            46666777888999999732 222222233333321  12378899999986655443

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=94.00  E-value=0.011  Score=50.01  Aligned_cols=23  Identities=39%  Similarity=0.553  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            47999999999999999999763

>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=93.94  E-value=0.015  Score=50.26  Aligned_cols=22  Identities=32%  Similarity=0.587  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.++.
T Consensus        27 ei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            4899999999999999999864

>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=93.89  E-value=0.014  Score=50.76  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.++.
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHcC
Confidence            4899999999999999999965

>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=93.88  E-value=0.015  Score=50.10  Aligned_cols=25  Identities=36%  Similarity=0.541  Sum_probs=22.7

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++|..|+|+-|.|||||.+.+.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4789999999999999999999874

>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=93.82  E-value=0.012  Score=47.20  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999998754

>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=93.78  E-value=0.085  Score=40.94  Aligned_cols=52  Identities=15%  Similarity=0.155  Sum_probs=33.3

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHh
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSV  279 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l  279 (475)
                      ++.++..|+++.|.|||+++-.++.+      ...++.+.+....-..+....+-+.+
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~   57 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAH   57 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH------cCCcEEEEcChHHHHHHHHHHHHHHh
Confidence            45688899999999999998766542      23356666665444444444444433

>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=93.77  E-value=0.018  Score=48.18  Aligned_cols=26  Identities=15%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++.|+|+|.+|+|||||...+.+.
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            45678999999999999999999863

>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=93.74  E-value=0.015  Score=50.55  Aligned_cols=22  Identities=41%  Similarity=0.752  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|+|+.|.|||||++.+..
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4799999999999999999966

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=93.70  E-value=0.033  Score=45.46  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=20.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+ |.|+|.+|+|||||...+..+
T Consensus        14 k~~k-I~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          14 QEHK-VIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             SCEE-EEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3444 569999999999999998764

>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=93.66  E-value=0.0086  Score=53.46  Aligned_cols=25  Identities=20%  Similarity=0.449  Sum_probs=18.9

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+.+||+|.|.+|+||||+++.+.+
T Consensus         2 ~k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           2 KKHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TTSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHH
Confidence            3457999999999999999998766

>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=93.65  E-value=0.016  Score=46.70  Aligned_cols=21  Identities=33%  Similarity=0.528  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |+|+|.+|+|||||.+.+.++
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998775

>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=93.64  E-value=0.018  Score=51.71  Aligned_cols=22  Identities=36%  Similarity=0.563  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +.|+|.|-||+||||+|..+..
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~   24 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVA   24 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6778899999999998887755

>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=93.63  E-value=0.018  Score=49.89  Aligned_cols=56  Identities=13%  Similarity=0.178  Sum_probs=33.0

Q ss_pred             HHHHHhCCceEEEEEECCCC-CChhhHhHhhCcCCC--CCCCcEEEEecCChHHHHhcC
Q 046770          295 KLKKQLFGKRFLLVLDDVWN-ENYNDWIDLSRPFQD--GAPGSKIIITTRNADAALIMG  350 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~ilvTtR~~~v~~~~~  350 (475)
                      .|.+.|..++=+|+||+--. -+...-..+...+..  ...|..||++|.+-..+..++
T Consensus       146 aiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~~a~~~~  204 (239)
T d1v43a3         146 AVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQVEAMTMG  204 (239)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHHC
T ss_pred             HHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHhC
Confidence            56677778889999999732 122222222222221  123778999999866665433

>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=93.62  E-value=0.018  Score=49.82  Aligned_cols=21  Identities=24%  Similarity=0.494  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +++|+|+.|+|||||.+.++.
T Consensus        26 ~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCChHHHHHHHHHc
Confidence            778999999999999999976

>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=93.61  E-value=0.016  Score=50.88  Aligned_cols=22  Identities=36%  Similarity=0.682  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            4899999999999999999864

>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=93.61  E-value=0.017  Score=50.90  Aligned_cols=22  Identities=41%  Similarity=0.614  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||++.+..
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            4899999999999999999965

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.56  E-value=0.029  Score=47.97  Aligned_cols=33  Identities=27%  Similarity=0.505  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.|.++|.+           +...++|.+|+|||||...+..+
T Consensus        86 ~~~L~~~l~~-----------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG-----------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS-----------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC-----------CeEEEECCCCCCHHHHHHhhcch
Confidence            6777887744           36678999999999999999764

>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=93.54  E-value=0.019  Score=49.82  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=21.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ++.|+|-|+-|+||||+++.+.+.
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            478999999999999999999874

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.54  E-value=0.018  Score=48.92  Aligned_cols=20  Identities=35%  Similarity=0.473  Sum_probs=18.3

Q ss_pred             EEEEEccCCCcHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +|+|+|..|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998764

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.53  E-value=0.019  Score=50.04  Aligned_cols=22  Identities=32%  Similarity=0.522  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|+|+.|+|||||++.+..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999864

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.52  E-value=0.018  Score=50.48  Aligned_cols=22  Identities=41%  Similarity=0.688  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||++.+..
T Consensus        41 e~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            4899999999999999999865

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.49  E-value=0.019  Score=48.69  Aligned_cols=22  Identities=41%  Similarity=0.537  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -+|+|+|..|+||||+|+.+-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999987743

>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=93.43  E-value=0.019  Score=47.07  Aligned_cols=21  Identities=33%  Similarity=0.434  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998765

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.39  E-value=0.019  Score=46.46  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=19.0

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=93.39  E-value=0.056  Score=45.41  Aligned_cols=45  Identities=13%  Similarity=0.106  Sum_probs=29.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCccccc----CcCeEEEEEecCCCCHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQC----HFDLKAWTYVSQDFDII  269 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~wv~v~~~~~~~  269 (475)
                      .++.|.|++|+|||+||.+++.+.....    .+....++.........
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            6899999999999999998876432222    12344455555444433

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.38  E-value=0.019  Score=46.59  Aligned_cols=22  Identities=32%  Similarity=0.376  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999988754

>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=93.34  E-value=0.061  Score=46.52  Aligned_cols=47  Identities=13%  Similarity=0.056  Sum_probs=34.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcCcc----cccCcCeEEEEEecCCCCHH
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYNDSR----VQCHFDLKAWTYVSQDFDII  269 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~~~----~~~~F~~~~wv~v~~~~~~~  269 (475)
                      .-+++.|.|++|+|||++|.+++.+..    ....+....|+.....+...
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            347999999999999999999875321    22344567888877766643

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.33  E-value=0.017  Score=49.64  Aligned_cols=22  Identities=32%  Similarity=0.490  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        27 e~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhc
Confidence            4899999999999999999975

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.32  E-value=0.023  Score=46.03  Aligned_cols=21  Identities=24%  Similarity=0.552  Sum_probs=18.4

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            569999999999999988754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.28  E-value=0.014  Score=50.48  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+.|+|-|+-|+||||+++.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999988774

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=93.24  E-value=0.1  Score=45.94  Aligned_cols=53  Identities=9%  Similarity=0.082  Sum_probs=33.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecCCCCHHHHHHHHHHHhh
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQDFDIIRVTKSILRSVA  280 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~  280 (475)
                      .++.|.|.+|+|||+++.++..+......+ .+++++..  .+..++...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec--cchhhHHhHHHHHhh
Confidence            478899999999999998887543222222 34444443  455666666665443

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.23  E-value=0.021  Score=50.88  Aligned_cols=23  Identities=35%  Similarity=0.616  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|+|||||++.++.-
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhCC
Confidence            47999999999999999999764

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.18  E-value=0.024  Score=46.25  Aligned_cols=21  Identities=33%  Similarity=0.675  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999988764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=93.10  E-value=0.023  Score=45.97  Aligned_cols=21  Identities=24%  Similarity=0.498  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHcCC
Confidence            569999999999999998764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.06  E-value=0.025  Score=46.83  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998864

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.01  E-value=0.024  Score=46.05  Aligned_cols=21  Identities=33%  Similarity=0.659  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.00  E-value=0.024  Score=46.19  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3779999999999999988754

>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=92.95  E-value=0.12  Score=44.33  Aligned_cols=110  Identities=13%  Similarity=0.066  Sum_probs=54.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCcc-------------cccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDSR-------------VQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLN  290 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~~-------------~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~  290 (475)
                      .+++.|+|+...||||+.+.+.-..-             .-..|+ .++..+....++..-......+          ..
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d-~I~~~~~~~d~~~~~~S~F~~E----------~~  109 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPID-RIFTRVGAADDLASGRSTFMVE----------MT  109 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCC-EEEEEEC-----------CHHH----------HH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccch-hheeEEccCcccccchhHHHHH----------HH
Confidence            36899999999999999998854210             011222 3344444433322211111111          12


Q ss_pred             HHHHHHHHHhCCceEEEEEECCCCCC-hhhHhH----hhCcCCCCCCCcEEEEecCChHHHH
Q 046770          291 LLQWKLKKQLFGKRFLLVLDDVWNEN-YNDWID----LSRPFQDGAPGSKIIITTRNADAAL  347 (475)
Q Consensus       291 ~l~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~----l~~~l~~~~~gs~ilvTtR~~~v~~  347 (475)
                      .+...++.  .+++.|+++|++.... ..+-..    ++..+. ...++.+++||.......
T Consensus       110 ~~~~il~~--~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         110 ETANILHN--ATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHHHHHHH--CCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGG
T ss_pred             HHHHHHHh--cccccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHhh
Confidence            22222221  4567899999996532 112111    122221 124678999999865543

>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=92.93  E-value=0.025  Score=45.98  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988754

>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=92.93  E-value=0.024  Score=46.25  Aligned_cols=22  Identities=32%  Similarity=0.527  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999998764

>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=92.91  E-value=0.04  Score=50.97  Aligned_cols=26  Identities=27%  Similarity=0.073  Sum_probs=22.7

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.-+.+.++||+|+|||++|..+++.
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHH
Confidence            34468999999999999999999983

>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=92.90  E-value=0.025  Score=47.68  Aligned_cols=22  Identities=32%  Similarity=0.558  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|+|-|+-|+||||+++.+.+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~   23 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGA   23 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998863

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.88  E-value=0.026  Score=45.99  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||+|...+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999998865

>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=92.85  E-value=0.025  Score=45.70  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>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=92.85  E-value=0.024  Score=48.17  Aligned_cols=23  Identities=17%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|.|+.|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47889999999999999999874

>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=92.79  E-value=0.029  Score=45.61  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999998764

>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=92.76  E-value=0.027  Score=48.94  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||.+.+..
T Consensus        33 ei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999999965

>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=92.76  E-value=0.027  Score=45.71  Aligned_cols=21  Identities=29%  Similarity=0.550  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998764

>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=92.73  E-value=0.026  Score=46.14  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4669999999999999988764

>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=92.73  E-value=0.028  Score=45.82  Aligned_cols=21  Identities=19%  Similarity=0.425  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998754

>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=92.69  E-value=0.28  Score=43.23  Aligned_cols=98  Identities=18%  Similarity=0.166  Sum_probs=52.6

Q ss_pred             HHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcCccccc-----C-cCeEEEEEecCCCC-HHHHHHHHHHH
Q 046770          206 EIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYNDSRVQC-----H-FDLKAWTYVSQDFD-IIRVTKSILRS  278 (475)
Q Consensus       206 ~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-----~-F~~~~wv~v~~~~~-~~~~l~~il~~  278 (475)
                      +.++.|.....+       .-++|.|.+|+|||+|+..+..+.....     . =..++++-+.+... ..++...+...
T Consensus        57 raID~l~pig~G-------Qr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~  129 (285)
T d2jdia3          57 KAVDSLVPIGRG-------QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDA  129 (285)
T ss_dssp             HHHHHHSCCBTT-------CBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHT
T ss_pred             eEEecccCccCC-------CEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhccc
Confidence            467777663322       2468899999999999987765321111     1 11356666666543 33444443332


Q ss_pred             hhcCC------CCCCChH----------HHHHHHHHHhCCceEEEEEECC
Q 046770          279 VAMGI------VDHNDLN----------LLQWKLKKQLFGKRFLLVLDDV  312 (475)
Q Consensus       279 l~~~~------~~~~~~~----------~l~~~l~~~l~~kr~LlVlDdv  312 (475)
                      -....      ...+...          ...+.+++  +||.+|+++||+
T Consensus       130 ~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd--~G~~VLll~Dsl  177 (285)
T d2jdia3         130 DAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRD--NGKHALIIYDDL  177 (285)
T ss_dssp             TCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHH--TTCEEEEEEETH
T ss_pred             ccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH--cCCcEEEEEcCh
Confidence            11110      0111111          12223332  699999999998

>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=92.68  E-value=0.041  Score=45.12  Aligned_cols=25  Identities=28%  Similarity=0.355  Sum_probs=22.1

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ....|+|+|.+|+|||||...+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.62  E-value=0.028  Score=45.55  Aligned_cols=21  Identities=33%  Similarity=0.551  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||+..+.++
T Consensus         5 i~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998764

>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=92.61  E-value=0.066  Score=46.04  Aligned_cols=23  Identities=30%  Similarity=0.378  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .++.|.|.+|+|||++|.+++.+
T Consensus        35 ~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          35 SVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            79999999999999999999764

>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=92.60  E-value=0.021  Score=49.55  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|+|||||.+.+..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHc
Confidence            4899999999999999999965

>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=92.59  E-value=0.029  Score=45.82  Aligned_cols=22  Identities=45%  Similarity=0.629  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3779999999999999998754

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=92.54  E-value=0.03  Score=48.54  Aligned_cols=55  Identities=13%  Similarity=0.202  Sum_probs=32.7

Q ss_pred             HHHHHhCCceEEEEEECCCC-CChhhHhHhhCcCCC-CCCCcEEEEecCChHHHHhc
Q 046770          295 KLKKQLFGKRFLLVLDDVWN-ENYNDWIDLSRPFQD-GAPGSKIIITTRNADAALIM  349 (475)
Q Consensus       295 ~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~ilvTtR~~~v~~~~  349 (475)
                      .+...+...+=+|+||+.-. .+......+...+.. ...|..||+||.+-+.+...
T Consensus       143 ~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~~~~~~  199 (238)
T d1vpla_         143 LIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNMLEVEFL  199 (238)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHHHHTTT
T ss_pred             HHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            46667778888999999733 232222333222221 12477899999986665543

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.53  E-value=0.03  Score=49.12  Aligned_cols=23  Identities=39%  Similarity=0.515  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+++|+|+.|.|||||++.+..-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            48999999999999999999763

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.50  E-value=0.03  Score=45.67  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999988764

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.48  E-value=0.03  Score=45.40  Aligned_cols=21  Identities=29%  Similarity=0.713  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998764

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.47  E-value=0.031  Score=46.99  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|.|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.45  E-value=0.031  Score=45.32  Aligned_cols=21  Identities=29%  Similarity=0.637  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||+|...+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            578999999999999998764

>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=92.45  E-value=0.067  Score=45.70  Aligned_cols=37  Identities=19%  Similarity=0.121  Sum_probs=26.3

Q ss_pred             EEEEEE-ccCCCcHHHHHHHHHcCcccccCcCeEEEEEec
Q 046770          225 SVVSII-GMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS  263 (475)
Q Consensus       225 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~  263 (475)
                      +||+|+ |-||+||||+|..++....  ..-..++.|...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la--~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALA--QLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHH--HTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHH--hCCCCEEEEeCC
Confidence            678887 8899999999998876432  222346677654

>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=92.44  E-value=0.039  Score=45.07  Aligned_cols=26  Identities=23%  Similarity=0.431  Sum_probs=22.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .....|+|+|.+|+|||||...+.+.
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCC
Confidence            34578999999999999999999863

>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=92.43  E-value=0.032  Score=45.71  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988664

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.38  E-value=0.045  Score=44.27  Aligned_cols=23  Identities=22%  Similarity=0.445  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|.|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999998754

>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=92.37  E-value=0.037  Score=45.00  Aligned_cols=22  Identities=32%  Similarity=0.456  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .|+|+|.+|+|||||...+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998753

>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=92.35  E-value=0.032  Score=45.60  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||+..+..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999987653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.32  E-value=0.032  Score=45.75  Aligned_cols=22  Identities=36%  Similarity=0.475  Sum_probs=18.9

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999988765

>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=92.32  E-value=0.031  Score=45.68  Aligned_cols=25  Identities=24%  Similarity=0.470  Sum_probs=20.6

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+ -|.|+|.+|+|||||...+...
T Consensus        15 ~~~-kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEV-RILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCE-EEEEEESTTSSHHHHHHHHCCS
T ss_pred             CEE-EEEEECCCCCCHHHHHHHHhcC
Confidence            344 4679999999999999998764

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.26  E-value=0.038  Score=45.16  Aligned_cols=23  Identities=30%  Similarity=0.583  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .-|.|+|.+|+|||||...+...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            44679999999999999998664

>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=92.17  E-value=0.036  Score=44.20  Aligned_cols=22  Identities=36%  Similarity=0.611  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.15  E-value=0.036  Score=45.04  Aligned_cols=21  Identities=14%  Similarity=0.442  Sum_probs=18.3

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|..|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988764

>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=92.02  E-value=0.04  Score=47.66  Aligned_cols=22  Identities=23%  Similarity=0.415  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+|+|+|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999866

>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=91.94  E-value=0.042  Score=45.82  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||+..+.++
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            3679999999999999988764

>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=91.93  E-value=0.039  Score=45.49  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4779999999999999988764

>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=91.91  E-value=0.04  Score=44.79  Aligned_cols=22  Identities=32%  Similarity=0.453  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988654

>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=91.91  E-value=0.038  Score=45.73  Aligned_cols=21  Identities=24%  Similarity=0.389  Sum_probs=18.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||+|.+++..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            579999999999999987653

>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=91.87  E-value=0.043  Score=44.79  Aligned_cols=21  Identities=43%  Similarity=0.654  Sum_probs=18.4

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -|.++|.+|+|||||++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998865

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.86  E-value=0.039  Score=45.66  Aligned_cols=21  Identities=38%  Similarity=0.547  Sum_probs=18.9

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||+|...+.++
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999998765

>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=91.81  E-value=0.042  Score=46.28  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|+|.+|+|||||...+...
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999998764

>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=91.70  E-value=0.025  Score=49.57  Aligned_cols=22  Identities=41%  Similarity=0.671  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ..++|+|+.|+|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            4799999999999999998854

>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=91.70  E-value=0.035  Score=47.89  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+++|+|+.|.|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999998865

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=91.69  E-value=0.062  Score=49.69  Aligned_cols=24  Identities=38%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ....+..+||.|+|||-||+.++.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            345588889999999999999875

>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=91.68  E-value=0.042  Score=45.81  Aligned_cols=19  Identities=26%  Similarity=0.538  Sum_probs=17.1

Q ss_pred             EEEEEccCCCcHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLV  244 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v  244 (475)
                      -|.|+|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999988

>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=91.65  E-value=0.045  Score=44.17  Aligned_cols=21  Identities=24%  Similarity=0.521  Sum_probs=18.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+..+
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            458899999999999988654

>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=91.61  E-value=0.045  Score=44.90  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>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=91.60  E-value=0.045  Score=44.65  Aligned_cols=21  Identities=33%  Similarity=0.650  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||+..+.++
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887654

>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=91.58  E-value=0.052  Score=44.04  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      --|.|+|.+|+|||||+..+.++
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            34679999999999999998654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.48  E-value=0.046  Score=44.98  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|..|+|||+|++.+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999988764

>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=91.48  E-value=0.036  Score=45.55  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=19.0

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999998753

>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=91.46  E-value=0.047  Score=44.99  Aligned_cols=21  Identities=43%  Similarity=0.621  Sum_probs=18.8

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=91.46  E-value=0.048  Score=44.67  Aligned_cols=21  Identities=38%  Similarity=0.624  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||||.+.+.++
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999988654

>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=91.42  E-value=0.053  Score=43.47  Aligned_cols=24  Identities=33%  Similarity=0.321  Sum_probs=21.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      -+|.+.|.=|+||||+++.+++..
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             eEEEEecCCCccHHHHHHHHHhhc
Confidence            589999999999999999998753

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.41  E-value=0.055  Score=43.91  Aligned_cols=21  Identities=29%  Similarity=0.714  Sum_probs=18.4

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|..|+|||||...+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998764

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=91.40  E-value=0.045  Score=46.25  Aligned_cols=23  Identities=35%  Similarity=0.510  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.|+|-|+.|+||||+++.+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~   25 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVET   25 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999998873

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.14  E-value=0.032  Score=45.51  Aligned_cols=21  Identities=33%  Similarity=0.588  Sum_probs=17.1

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999987654

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.01  E-value=0.054  Score=44.99  Aligned_cols=21  Identities=29%  Similarity=0.445  Sum_probs=18.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||+|...+.++
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999888764

>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=90.92  E-value=0.086  Score=42.80  Aligned_cols=25  Identities=20%  Similarity=0.363  Sum_probs=20.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..++ |.|+|.+|+|||||.+.+.++
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            4556 558999999999999999765

>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=90.75  E-value=0.063  Score=42.90  Aligned_cols=21  Identities=29%  Similarity=0.365  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |+|+|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            579999999999999998743

>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=90.74  E-value=0.044  Score=45.05  Aligned_cols=25  Identities=28%  Similarity=0.476  Sum_probs=20.2

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...+ |.++|.+|+|||||...+...
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            3444 559999999999999998654

>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=90.72  E-value=0.041  Score=45.38  Aligned_cols=21  Identities=33%  Similarity=0.581  Sum_probs=18.8

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -|+|+|.+++|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999999864

>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=90.70  E-value=0.062  Score=44.02  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.0

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.++|.+|+|||||...+.++
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3579999999999999988764

>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=90.68  E-value=0.071  Score=45.59  Aligned_cols=37  Identities=24%  Similarity=0.168  Sum_probs=25.2

Q ss_pred             EEEEEE-ccCCCcHHHHHHHHHcCcccccCcCeEEEEEec
Q 046770          225 SVVSII-GMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVS  263 (475)
Q Consensus       225 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~  263 (475)
                      +||+|+ +-||+||||+|..++....  ..-..++-+...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la--~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALG--DRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHH--HTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHH--hCCCCEEEEeCC
Confidence            688888 6799999999988876432  222235555543

>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=90.51  E-value=0.069  Score=45.34  Aligned_cols=23  Identities=30%  Similarity=0.573  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..|+|-|+-|+||||+++.+.+.
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            57899999999999999999873

>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=90.49  E-value=0.061  Score=44.56  Aligned_cols=21  Identities=24%  Similarity=0.368  Sum_probs=18.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.++|.+|+|||+|...+..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            579999999999999988553

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=90.29  E-value=0.06  Score=51.15  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +-|.++||.|+|||.||+.++.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999987

>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=90.14  E-value=0.28  Score=41.71  Aligned_cols=107  Identities=16%  Similarity=0.136  Sum_probs=55.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc---c----------cccCcCeEEEEEecCCCCHHHHHHHHHHHhhcCCCCCCChHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS---R----------VQCHFDLKAWTYVSQDFDIIRVTKSILRSVAMGIVDHNDLNL  291 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~---~----------~~~~F~~~~wv~v~~~~~~~~~l~~il~~l~~~~~~~~~~~~  291 (475)
                      +++.|+|+...||||+.+.+.-..   +          .-..|+ .++.......++..-              ......
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d-~I~~~~~~~d~~~~~--------------~StF~~  100 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFD-GIYTRIGASDDLAGG--------------KSTFMV  100 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCS-EEEEECCC------C--------------CSHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecc-eEEEEECCCccccCC--------------ccHHHH
Confidence            378899999999999999874321   0          011233 233333333222111              111111


Q ss_pred             HHHHHHHHh--CCceEEEEEECCCCCC-hhhHh----HhhCcCCCCCCCcEEEEecCChHHHHh
Q 046770          292 LQWKLKKQL--FGKRFLLVLDDVWNEN-YNDWI----DLSRPFQDGAPGSKIIITTRNADAALI  348 (475)
Q Consensus       292 l~~~l~~~l--~~kr~LlVlDdv~~~~-~~~~~----~l~~~l~~~~~gs~ilvTtR~~~v~~~  348 (475)
                      -...+...+  .+++.|+++|++.... ..+-.    .+...|.  ..++.+++||...++...
T Consensus       101 el~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~aile~L~--~~~~~~i~tTH~~eL~~l  162 (224)
T d1ewqa2         101 EMEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALH--ERRAYTLFATHYFELTAL  162 (224)
T ss_dssp             HHHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHHHHHHHH--HHTCEEEEECCCHHHHTC
T ss_pred             hHHHHHHHhccCCCCcEEeecccccCcchhhhcchHHHHHHHHh--hcCcceEEeeechhhhhh
Confidence            112222222  3678999999997543 11111    1222232  246789999998777653

>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=90.08  E-value=0.078  Score=43.51  Aligned_cols=22  Identities=36%  Similarity=0.573  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|+|+|..|+|||||...+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4689999999999999998764

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=90.07  E-value=0.081  Score=43.23  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .-|.|.|.+|+||||||..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999988876

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=90.04  E-value=0.079  Score=43.29  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .-|.|.|.+|+||||||..+..
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            4678999999999999998776

>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=89.99  E-value=0.046  Score=44.60  Aligned_cols=21  Identities=33%  Similarity=0.482  Sum_probs=8.2

Q ss_pred             EEEEccCCCcHHHHHHHHHcC
Q 046770          227 VSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~~  247 (475)
                      |.|+|.+|+|||||...+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999877654

>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=89.82  E-value=0.077  Score=45.24  Aligned_cols=22  Identities=23%  Similarity=0.400  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .-|.|+|.+|+|||||.+++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3468999999999999998754

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=89.78  E-value=0.13  Score=47.30  Aligned_cols=51  Identities=20%  Similarity=0.135  Sum_probs=29.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc-ccccCcCeEEEEEecCCCCHHHHHHHH
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS-RVQCHFDLKAWTYVSQDFDIIRVTKSI  275 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~wv~v~~~~~~~~~l~~i  275 (475)
                      ++..|.|++|.||||++..+.... +....-...+.++....--...+...+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            588999999999999886544311 111111245666665544444444443

>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=89.60  E-value=0.081  Score=45.05  Aligned_cols=39  Identities=13%  Similarity=0.194  Sum_probs=25.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCcccccCcCeEEEEEecC
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDSRVQCHFDLKAWTYVSQ  264 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~wv~v~~  264 (475)
                      .++.|.|.+|+|||+||.+++.+.... .-....|++...
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~~~~~~~-~~~~~~~~s~e~   65 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFLYNGIIE-FDEPGVFVTFEE   65 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHH-HCCCEEEEESSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCcccccccC
Confidence            688999999999999997765421111 112355665544

>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=89.28  E-value=0.087  Score=46.29  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=19.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .+..|+|.+|+|||||+.+++.
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            4778999999999999988765

>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=89.22  E-value=0.07  Score=43.58  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=21.4

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      .+..-|+|+|.+++|||||...+...
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            34467899999999999999888653

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=89.09  E-value=0.21  Score=43.48  Aligned_cols=40  Identities=25%  Similarity=0.444  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          202 KEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       202 ~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ..+.++...+.+...     .. --|.|+|.+|+|||||...++..
T Consensus        16 ~~l~e~~~~l~~~~~-----~~-l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQEDV-----NS-LTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTTC-----CE-EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCC-----CC-cEEEEECCCCCcHHHHHHHHhCC
Confidence            445566666655221     33 45679999999999999999875

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=88.99  E-value=0.098  Score=42.43  Aligned_cols=22  Identities=32%  Similarity=0.359  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .-|.|.|.+|+||||||..+..
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            4678999999999999988766

>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=88.82  E-value=0.12  Score=43.44  Aligned_cols=23  Identities=17%  Similarity=0.213  Sum_probs=19.5

Q ss_pred             EEEEEEccC-CCcHHHHHHHHHcC
Q 046770          225 SVVSIIGMG-GLGKTTLAQLVYND  247 (475)
Q Consensus       225 ~vv~I~G~g-GiGKTtLA~~v~~~  247 (475)
                      +.+.|.|-| |+||||++-.++.-
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHH
Confidence            468899998 99999999887663

>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=87.02  E-value=0.054  Score=43.26  Aligned_cols=20  Identities=35%  Similarity=0.571  Sum_probs=18.4

Q ss_pred             EEEEccCCCcHHHHHHHHHc
Q 046770          227 VSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~~v~~  246 (475)
                      |+++|.+|+|||||...+..
T Consensus         3 I~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            68999999999999999865

>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=86.75  E-value=0.31  Score=44.06  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcCc
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      +-.|.|-|+-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            4567788999999999999999853

>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=86.53  E-value=0.16  Score=45.87  Aligned_cols=22  Identities=32%  Similarity=0.314  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      -|.|.|..|+||||+.+.++..
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            3789999999999999999873

>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=86.51  E-value=0.33  Score=42.69  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=23.8

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHcC
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +.+.||+|+|+-+.|||+|+..++..
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            56899999999999999999999864

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.46  E-value=0.19  Score=44.22  Aligned_cols=25  Identities=20%  Similarity=0.223  Sum_probs=22.0

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      .++|-|+|+|-+|.|||||+..+..
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            4678899999999999999988754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=85.86  E-value=0.32  Score=40.26  Aligned_cols=36  Identities=11%  Similarity=0.116  Sum_probs=27.8

Q ss_pred             HHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          204 REEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       204 ~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +..+..+|.. .      ++-..+.|+|+++.|||++|..+.+
T Consensus        40 l~~l~~~l~~-~------PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFLKG-T------PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHHT-C------TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHcC-C------CCceEEEEECCCCccHHHHHHHHHH
Confidence            4556666754 2      4457899999999999999988765

>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=85.48  E-value=0.099  Score=44.67  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHHcC
Q 046770          226 VVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      ...++|.+|+|||||...+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            4468899999999999998864

>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=85.25  E-value=0.21  Score=45.03  Aligned_cols=24  Identities=42%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHHcC
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVYND  247 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~~~  247 (475)
                      +-.|.|-|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            456889999999999999999763

>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=84.96  E-value=2.8  Score=34.43  Aligned_cols=39  Identities=23%  Similarity=0.243  Sum_probs=25.3

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCCccEEEEEEccCCCcHHHHHHHHHc
Q 046770          197 VYGRSKEREEIVELLLKEDGTSHNNNHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       197 ~vGR~~e~~~l~~~L~~~~~~~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      +--|+...+-+..++..         + + ..|+++.|.|||.+|..+..
T Consensus        69 ~~Lr~yQ~eav~~~~~~---------~-~-~ll~~~tG~GKT~~a~~~~~  107 (206)
T d2fz4a1          69 ISLRDYQEKALERWLVD---------K-R-GCIVLPTGSGKTHVAMAAIN  107 (206)
T ss_dssp             CCCCHHHHHHHHHHTTT---------S-E-EEEEESSSTTHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHhC---------C-C-cEEEeCCCCCceehHHhHHH
Confidence            33455555555555422         1 2 34778999999999887775

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=84.78  E-value=0.57  Score=43.54  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=20.8

Q ss_pred             ccEEEEEEccCCCcHHHHHHHHHc
Q 046770          223 HFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       223 ~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ...+|.|.|+.|+||||....+.+
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hhceEEEEcCCCCCccHHHHHHhh
Confidence            347999999999999999888766

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=84.34  E-value=0.29  Score=42.79  Aligned_cols=22  Identities=36%  Similarity=0.655  Sum_probs=19.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHH
Q 046770          224 FSVVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       224 ~~vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +|-|+|+|-.|.|||||+..+.
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            4678999999999999998874

>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=83.08  E-value=0.31  Score=41.42  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHHc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++|+|+|-.+.|||||+..+..
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            5799999999999999988865

>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=81.76  E-value=0.38  Score=38.99  Aligned_cols=21  Identities=33%  Similarity=0.445  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHHc
Q 046770          226 VVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      -|+|+|..+.|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999875

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=81.59  E-value=0.72  Score=40.12  Aligned_cols=25  Identities=20%  Similarity=0.337  Sum_probs=21.5

Q ss_pred             CccEEEEEEccCCCcHHHHHHHHHc
Q 046770          222 NHFSVVSIIGMGGLGKTTLAQLVYN  246 (475)
Q Consensus       222 ~~~~vv~I~G~gGiGKTtLA~~v~~  246 (475)
                      ++-..+.++|+|+.|||+++..+.+
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            3456889999999999999998876

>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=80.95  E-value=0.3  Score=44.08  Aligned_cols=24  Identities=29%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHHcCc
Q 046770          225 SVVSIIGMGGLGKTTLAQLVYNDS  248 (475)
Q Consensus       225 ~vv~I~G~gGiGKTtLA~~v~~~~  248 (475)
                      -.|.|-|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999999998753

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=80.93  E-value=0.16  Score=41.78  Aligned_cols=20  Identities=30%  Similarity=0.405  Sum_probs=17.5

Q ss_pred             EEEEEccCCCcHHHHHHHHH
Q 046770          226 VVSIIGMGGLGKTTLAQLVY  245 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA~~v~  245 (475)
                      +..|+|+.|+||||+...+.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            55689999999999998885

>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=80.51  E-value=0.34  Score=42.84  Aligned_cols=16  Identities=25%  Similarity=0.358  Sum_probs=13.2

Q ss_pred             EEEEEccCCCcHHHHH
Q 046770          226 VVSIIGMGGLGKTTLA  241 (475)
Q Consensus       226 vv~I~G~gGiGKTtLA  241 (475)
                      .+.|.|.+|+||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            3678899999999754

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=80.11  E-value=0.38  Score=42.86  Aligned_cols=16  Identities=31%  Similarity=0.436  Sum_probs=13.2

Q ss_pred             EEEEccCCCcHHHHHH
Q 046770          227 VSIIGMGGLGKTTLAQ  242 (475)
Q Consensus       227 v~I~G~gGiGKTtLA~  242 (475)
                      +.|.|.+|+||||.+-
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            6688999999997653