Citrus Sinensis ID: 009294

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------54
MARLLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA
cccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccEEcccccccccEEEEEEEccHHHHHHcccccEEEEEEcccccEEEEEccccccccccccccccHHHHHHHHHccccccccccccEEEcccccccccEEcccccccEEEEEEEccEEEEEEEccccccccEEEcccccccccccccEEEEEccccccccccEEEHHHHHHHHHHHHHcccccEEEEEEcccccccccEEEEEEcccHHHHHHHHHcccccccccEEEEEEcccEEEEEEEEEccccccccEEEEcccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccEEEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccccccc
ccEEHEcccccEEEEEEEcccccccccccEcccccEEEEEEcccccEEcccccccccccccccccHHcccccccccccHHHcEEccccHHHHHccHHHHccccHHHHHHHHHHHHHHHHHHHHcccccEEEEEEcccccEEEEEccccccccEEccccEEHHHHHHHcccEEcHHccccccccccccccccHHHHHHHcEEEEEEEEEEccEEEEEEEEccEEccccEEEEEEEcccccccEEEEEcccHHHHccEEEEcHHHHHHHHHHHHHHccccEEEEEEcccccccccccEEEcccHHHHHHHHHHccccccccEEEEEEEccccEEEEEEEEcEcccccEEEEEEccEEccccEHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHccEEEEEEEEcccccEcccccccEccHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccHHcccccHccccccccccccccccccEEEEEEcccccccccccccHHHHEEEccccccEEEEEcc
marlllkaPYLHIRVLMASRcfcsfssslffkprtnfairgvssqvltrsnvvlpraflsssiateafkenpvsktygseqIQVLEGLEAVrkrpamyigstgprglhHLVYEILDNAVDEAQAGYASNIEVALLadnsvsvadngrgipidlhpatnKSALETVLTVLHaggkfggsssgysvsgglHGVGLSVVNALSESLEVTvwrdgmeyhqkysrgkpvttltchvlpvdskdrqgtrirfwpdkqvfttaiqFDHNTIAGRIRELAFLNPKLTIALrkedsdpeknqyneyFFAGGLEEYVQWLNtdkkplhdvvgfrkdvdgITIDLALQWCSDAYSDTMLGYANsirtidggthieGVKASLTRTLNSlgkksktvkdkdislsgehvREGLTCIIsvrvpnpefegqtktrlgnpevrKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQksvlrssslpgkladcssttpeeseifivegdsaggsakqgrdrRFQVIINPLQESIFAFASA
MARLLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGvssqvltrsnVVLPRAFLsssiateafkenpvsktygseqIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQkysrgkpvttltchvlpvdskdrqgtrirfwpdkqvfttaIQFDHNTIAGRIRELAFLNPKLTIalrkedsdpekNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRtlnslgkksktvkdkdislsgehvregltciisvrvpnpefegqtktrlgnpevrKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRardlvrqksvlrssslpgkladcssttpeESEIFIVEgdsaggsakqgRDRRFQVIINPLQEsifafasa
MARLLLKAPYLHIRVLMASRcfcsfssslffKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAggkfggsssgysvsgglhgvglsvvNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVldsilskslsalkaalaakrardlVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA
***LLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALR*********QYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRT********************EHVREGLTCIISVRVPN***************VRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALA*******************************************************FQVIINPLQESIFA****
***********HIRVLMASRC****************AIRGV****************************************QVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA
MARLLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKS********************ESEIFIVEGDS********RDRRFQVIINPLQESIFAFASA
*ARLLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLP**F******************YGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKD*SLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAK********K**LRSSSLPGKLADCSSTTPEESEIFIVEGDS*********DRRFQVIINPLQESIFAFAS*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MARLLLKAPYLHIRVLMASRCFCSFSSSLFFKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query538 2.2.26 [Sep-21-2011]
Q5YLB4 731 DNA gyrase subunit B, chl N/A no 0.981 0.722 0.781 0.0
Q94BZ7 732 DNA gyrase subunit B, mit yes no 0.918 0.674 0.798 0.0
Q9SS38 730 DNA gyrase subunit B, chl no no 0.925 0.682 0.796 0.0
Q5NBJ3 729 DNA gyrase subunit B, chl yes no 0.894 0.659 0.753 0.0
P77966 1078 DNA gyrase subunit B OS=S N/A no 0.799 0.398 0.599 1e-141
P77993 636 DNA gyrase subunit B OS=T yes no 0.823 0.696 0.526 1e-132
P94604 637 DNA gyrase subunit B OS=C yes no 0.828 0.700 0.511 1e-127
D4GZ01 639 DNA gyrase subunit B OS=H yes no 0.832 0.701 0.525 1e-126
P05652 638 DNA gyrase subunit B OS=B yes no 0.842 0.710 0.504 1e-125
P21558 639 DNA gyrase subunit B OS=H N/A no 0.832 0.701 0.520 1e-124
>sp|Q5YLB4|GYRB_NICBE DNA gyrase subunit B, chloroplastic/mitochondrial OS=Nicotiana benthamiana GN=GYRB PE=2 SV=1 Back     alignment and function desciption
 Score =  815 bits (2104), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 426/545 (78%), Positives = 471/545 (86%), Gaps = 17/545 (3%)

Query: 4   LLLKAPYLHIRVLMASRCFC---------SFSS------SLFFKPRTNFAIRGVSSQVLT 48
           LL   P  H    MASR            SFSS      S+   PR    +R +S  +L 
Sbjct: 3   LLKPFPLQHSLRCMASRFLLHSHYHTHTLSFSSISLSRPSIVLNPRVINKLRRLSDAILI 62

Query: 49  RSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLH 108
           R N+V  RAF+SSS  TEAF+EN  SK YGSEQIQVLEGL+ VRKRP MYIGSTGPRGLH
Sbjct: 63  R-NMVSLRAFMSSSTTTEAFQENTKSKGYGSEQIQVLEGLDPVRKRPGMYIGSTGPRGLH 121

Query: 109 HLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTV 168
           HLVYEILDNAVDEAQAG+A+ I+V L ADNSVS+ADNGRGIP +LHP T KS+LETVLTV
Sbjct: 122 HLVYEILDNAVDEAQAGFATKIDVVLHADNSVSIADNGRGIPTELHPVTKKSSLETVLTV 181

Query: 169 LHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLT 228
           LHAGGKFGGSSSGY+VSGGLHGVGLSVVNALS++LEVT+WRDG EY QKYSRGKP+TTL 
Sbjct: 182 LHAGGKFGGSSSGYNVSGGLHGVGLSVVNALSQALEVTIWRDGKEYQQKYSRGKPITTLI 241

Query: 229 CHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSD 288
           CH LPV+ +DRQGT IRFWPDK+VFTT +QFD+NTIAGRIRELAFLNP+LTIAL+KED D
Sbjct: 242 CHDLPVEMRDRQGTAIRFWPDKEVFTTEMQFDYNTIAGRIRELAFLNPELTIALKKEDID 301

Query: 289 PEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITIDLALQWCSDAYSDTML 348
           PEK Q NEYF+AGGL EYV+WLN DKKPLHDV+GFRK+ DGITID+ALQWCSDAYSDTML
Sbjct: 302 PEKIQCNEYFYAGGLVEYVKWLNADKKPLHDVLGFRKEADGITIDMALQWCSDAYSDTML 361

Query: 349 GYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRV 408
           GYANSIRTIDGGTHI+GVKA+LTR LN+LGKKSKT+K+KDISLSGEHVREGLTC+ISV+V
Sbjct: 362 GYANSIRTIDGGTHIDGVKAALTRILNNLGKKSKTIKEKDISLSGEHVREGLTCVISVKV 421

Query: 409 PNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKR 468
           PNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSL+ALKAALAAKR
Sbjct: 422 PNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLNALKAALAAKR 481

Query: 469 ARDLVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPL 528
           AR+LVRQKSVL+SSSLPGKLADCS+T PEE+EIFIVEGDSAGGSAKQGRDRRFQ I+ PL
Sbjct: 482 ARELVRQKSVLKSSSLPGKLADCSATNPEEAEIFIVEGDSAGGSAKQGRDRRFQAIL-PL 540

Query: 529 QESIF 533
           +  I 
Sbjct: 541 RGKIL 545
Seems to play a critical role in chloroplast nucleoid partitioning by regulating DNA topology. DNA gyrase negatively supercoils closed circular double-stranded DNA in an ATP-dependent manner.
Nicotiana benthamiana (taxid: 4100)
EC: 5EC: .EC: 9EC: 9EC: .EC: 1EC: .EC: 3
>sp|Q94BZ7|GYRBM_ARATH DNA gyrase subunit B, mitochondrial OS=Arabidopsis thaliana GN=GYRBM PE=2 SV=1 Back     alignment and function description
>sp|Q9SS38|GYRBP_ARATH DNA gyrase subunit B, chloroplastic OS=Arabidopsis thaliana GN=GYRBC PE=2 SV=3 Back     alignment and function description
>sp|Q5NBJ3|GYRB_ORYSJ DNA gyrase subunit B, chloroplastic/mitochondrial OS=Oryza sativa subsp. japonica GN=GYRB PE=2 SV=1 Back     alignment and function description
>sp|P77966|GYRB_SYNY3 DNA gyrase subunit B OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=gyrB PE=3 SV=1 Back     alignment and function description
>sp|P77993|GYRB_THEMA DNA gyrase subunit B OS=Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN=gyrB PE=3 SV=2 Back     alignment and function description
>sp|P94604|GYRB_CLOAB DNA gyrase subunit B OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) GN=gyrB PE=3 SV=2 Back     alignment and function description
>sp|D4GZ01|GYRB_HALVD DNA gyrase subunit B OS=Haloferax volcanii (strain ATCC 29605 / DSM 3757 / JCM 8879 / NBRC 14742 / NCIMB 2012 / VKM B-1768 / DS2) GN=gyrB PE=1 SV=1 Back     alignment and function description
>sp|P05652|GYRB_BACSU DNA gyrase subunit B OS=Bacillus subtilis (strain 168) GN=gyrB PE=3 SV=1 Back     alignment and function description
>sp|P21558|GYRB_HALL2 DNA gyrase subunit B OS=Haloferax lucentense (strain DSM 14919 / JCM 9276 / NCIMB 13854 / Aa 2.2) GN=gyrB PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query538
255562314 732 DNA gyrase subunit B, putative [Ricinus 0.957 0.703 0.808 0.0
297739950 707 unnamed protein product [Vitis vinifera] 0.957 0.728 0.808 0.0
225441215 719 PREDICTED: DNA gyrase subunit B, chlorop 0.972 0.727 0.786 0.0
356504692 726 PREDICTED: DNA gyrase subunit B, chlorop 0.986 0.731 0.769 0.0
75288399 731 RecName: Full=DNA gyrase subunit B, chlo 0.981 0.722 0.781 0.0
356571931 724 PREDICTED: DNA gyrase subunit B, chlorop 0.947 0.704 0.787 0.0
224139720 700 predicted protein [Populus trichocarpa] 0.921 0.708 0.798 0.0
224086827 653 predicted protein [Populus trichocarpa] 0.868 0.715 0.837 0.0
297810505 729 hypothetical protein ARALYDRAFT_487191 [ 0.972 0.717 0.755 0.0
18414465 732 DNA gyrase subunit B [Arabidopsis thalia 0.918 0.674 0.798 0.0
>gi|255562314|ref|XP_002522164.1| DNA gyrase subunit B, putative [Ricinus communis] gi|223538602|gb|EEF40205.1| DNA gyrase subunit B, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  847 bits (2187), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/518 (80%), Positives = 466/518 (89%), Gaps = 3/518 (0%)

Query: 17  MASRCFCSFSSSLF-FKPRTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSK 75
           +  + F S S  L  FKPR +F  R V+S+V T  N    RAF+SSS ATE F+E+  SK
Sbjct: 31  LHCQSFSSLSRPLVSFKPRVSFQWRAVTSRV-TVQNAGSARAFMSSSTATEPFQESASSK 89

Query: 76  TYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALL 135
            YGS+QIQVL+GLE VRKRP MYIGSTGPRGLHHLVYEILDNA+DEAQAGYAS ++V L 
Sbjct: 90  AYGSDQIQVLKGLEPVRKRPGMYIGSTGPRGLHHLVYEILDNAIDEAQAGYASRVDVILH 149

Query: 136 ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSV 195
           +DNSVS++DNGRGIP DLHP T KSALETVLTVLHAGGKFGGS+SGYSVSGGLHGVGLSV
Sbjct: 150 SDNSVSISDNGRGIPTDLHPVTKKSALETVLTVLHAGGKFGGSNSGYSVSGGLHGVGLSV 209

Query: 196 VNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 255
           VNALSE LEVTVWRDGMEY Q+YSRG PVT L CH L V+S+DRQGT +RFWPDK+VFTT
Sbjct: 210 VNALSEGLEVTVWRDGMEYRQRYSRGNPVTILMCHSLAVESRDRQGTCVRFWPDKEVFTT 269

Query: 256 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK 315
           AI+FD+NTIAGR+RELAFLNPKLTI L+KED+DPEKNQY+EYF+AGGL EYV+WLNTDKK
Sbjct: 270 AIEFDYNTIAGRVRELAFLNPKLTITLKKEDNDPEKNQYDEYFYAGGLIEYVKWLNTDKK 329

Query: 316 PLHDVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLN 375
           PLHDVVGF K++DGITID+ALQWCSDAYSDT+LGYANSIRTIDGGTHI+G KASLTRTLN
Sbjct: 330 PLHDVVGFGKEIDGITIDMALQWCSDAYSDTILGYANSIRTIDGGTHIDGFKASLTRTLN 389

Query: 376 SLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQ 435
           SLGKKSK +K+KDI+LSGEHVREGLTCI+SV+VP+PEFEGQTKTRLGNPEVRKVVDQSVQ
Sbjct: 390 SLGKKSKIIKEKDINLSGEHVREGLTCIVSVKVPSPEFEGQTKTRLGNPEVRKVVDQSVQ 449

Query: 436 EYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKLADCSSTT 495
           EYLTEYLELHPDVLDSILSKSL+ALKAALAAK+AR+LVRQKSVLR+SSLPGKLADCSST 
Sbjct: 450 EYLTEYLELHPDVLDSILSKSLNALKAALAAKKARELVRQKSVLRTSSLPGKLADCSSTN 509

Query: 496 PEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIF 533
           PEESEIFIVEGDSAGGSAKQGRDRRFQ I+ PL+  I 
Sbjct: 510 PEESEIFIVEGDSAGGSAKQGRDRRFQAIL-PLRGKIL 546

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297739950|emb|CBI30132.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|225441215|ref|XP_002266668.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|356504692|ref|XP_003521129.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Glycine max] Back     alignment and taxonomy information
>gi|75288399|sp|Q5YLB4.1|GYRB_NICBE RecName: Full=DNA gyrase subunit B, chloroplastic/mitochondrial; Flags: Precursor gi|38017095|gb|AAR07943.1| DNA gyrase B subunit [Nicotiana benthamiana] Back     alignment and taxonomy information
>gi|356571931|ref|XP_003554124.1| PREDICTED: DNA gyrase subunit B, chloroplastic/mitochondrial-like [Glycine max] Back     alignment and taxonomy information
>gi|224139720|ref|XP_002323244.1| predicted protein [Populus trichocarpa] gi|222867874|gb|EEF05005.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224086827|ref|XP_002307976.1| predicted protein [Populus trichocarpa] gi|222853952|gb|EEE91499.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297810505|ref|XP_002873136.1| hypothetical protein ARALYDRAFT_487191 [Arabidopsis lyrata subsp. lyrata] gi|297318973|gb|EFH49395.1| hypothetical protein ARALYDRAFT_487191 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|18414465|ref|NP_568133.1| DNA gyrase subunit B [Arabidopsis thaliana] gi|75165162|sp|Q94BZ7.1|GYRBM_ARATH RecName: Full=DNA gyrase subunit B, mitochondrial; Flags: Precursor gi|14517374|gb|AAK62578.1| AT3g10270/F14P13_13 [Arabidopsis thaliana] gi|22655426|gb|AAM98305.1| At3g10270/F14P13_13 [Arabidopsis thaliana] gi|332003319|gb|AED90702.1| DNA gyrase subunit B [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query538
TAIR|locus:2146698 732 GYRB2 "DNA GYRASE B2" [Arabido 0.916 0.673 0.713 4.4e-187
UNIPROTKB|Q5NBJ3 729 GYRB "DNA gyrase subunit B, ch 0.923 0.681 0.645 8.2e-170
UNIPROTKB|Q7NHM9 644 gyrB "DNA gyrase subunit B" [G 0.840 0.701 0.529 1.1e-124
UNIPROTKB|A8IIG8 649 TOP3 "DNA gyrase subunit B-lik 0.834 0.691 0.509 1e-114
TIGR_CMR|CHY_2705 635 CHY_2705 "DNA gyrase, B subuni 0.823 0.697 0.469 1.7e-107
UNIPROTKB|P77993 636 gyrB "DNA gyrase subunit B" [T 0.819 0.693 0.468 1.8e-101
UNIPROTKB|Q8TQG0 634 gyrB "DNA gyrase subunit B" [M 0.828 0.703 0.468 5.6e-100
UNIPROTKB|P05652 638 gyrB "DNA gyrase subunit B" [B 0.830 0.700 0.441 7.1e-100
TIGR_CMR|BA_0005 640 BA_0005 "DNA gyrase, B subunit 0.825 0.693 0.456 1.3e-98
TIGR_CMR|DET_0004 642 DET_0004 "DNA gyrase, B subuni 0.828 0.694 0.456 2e-97
TAIR|locus:2146698 GYRB2 "DNA GYRASE B2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1814 (643.6 bits), Expect = 4.4e-187, P = 4.4e-187
 Identities = 356/499 (71%), Positives = 396/499 (79%)

Query:    34 RTNFAIRGVSSQVLTRSNVVLPRAFLSSSIATEAFKENPVSKTYGSEQIQVLEGLEAVRK 93
             R  F +  V SQ L + N +  R FLS    TEA +E   SK Y SEQIQVLEGL+ VRK
Sbjct:    53 RLKFQLTSVLSQRLIQRNAISSR-FLS----TEASQETTTSKGYSSEQIQVLEGLDPVRK 107

Query:    94 RPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDL 153
             RP MYIGSTG RGLHHLVYEILDNA+DEAQAGYAS ++V L AD SVSV DNGRGIP DL
Sbjct:   108 RPGMYIGSTGSRGLHHLVYEILDNAIDEAQAGYASKVDVVLHADGSVSVVDNGRGIPTDL 167

Query:   154 HPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALSESLEVTVWRDGME 213
             HPAT KS+LETVLTVLHA                         NALSE+LEV+VWRDGME
Sbjct:   168 HPATKKSSLETVLTVLHAGGKFGGTSSGYSVSGGLHGVGLSVVNALSEALEVSVWRDGME 227

Query:   214 YHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAF 273
             + Q YSRGKP+TTLTC VLP++SK  +GT IRFWPDK+VFTTAI+FDHNTIAGRIRELAF
Sbjct:   228 HKQNYSRGKPITTLTCRVLPLESKGTKGTSIRFWPDKEVFTTAIEFDHNTIAGRIRELAF 287

Query:   274 LNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLHDVVGFRKDVDGITID 333
             LNPK+TI+L+KED DPEK QY+EY FAGGL EYV WLNTDK P+HDV+GFR++++G T+D
Sbjct:   288 LNPKVTISLKKEDDDPEKTQYSEYSFAGGLTEYVSWLNTDKNPIHDVLGFRREINGATVD 347

Query:   334 LALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG 393
             +ALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLN+L KKSKTVK+KDISLSG
Sbjct:   348 VALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNTLAKKSKTVKEKDISLSG 407

Query:   394 EHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVXXXXX 453
             EHVREGLTCI+SV+VPNPEFEGQTKTRLGNPEVRK+VDQSVQEYLTE+LELHPD+     
Sbjct:   408 EHVREGLTCIVSVKVPNPEFEGQTKTRLGNPEVRKIVDQSVQEYLTEFLELHPDILESII 467

Query:   454 XXXXXXXXXXXXXXXXXXXVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSA 513
                                VR KSVL+SSSLPGKLADCSST PE SEIFIVEGDSAGGSA
Sbjct:   468 SKSLNAYKAALAAKRARELVRSKSVLKSSSLPGKLADCSSTDPEVSEIFIVEGDSAGGSA 527

Query:   514 KQGRDRRFQVIINPLQESI 532
             KQGRDRRFQ I+ PL+  I
Sbjct:   528 KQGRDRRFQAIL-PLRGKI 545
GO:0003677 "DNA binding" evidence=IEA;ISS
GO:0003918 "DNA topoisomerase type II (ATP-hydrolyzing) activity" evidence=IEA;ISS;IBA
GO:0005524 "ATP binding" evidence=IEA;ISS
GO:0005694 "chromosome" evidence=IEA
GO:0005739 "mitochondrion" evidence=ISM;IDA
GO:0006200 "ATP catabolic process" evidence=IBA
GO:0006259 "DNA metabolic process" evidence=ISS
GO:0006261 "DNA-dependent DNA replication" evidence=IBA
GO:0006265 "DNA topological change" evidence=IEA;ISS;IBA
GO:0007059 "chromosome segregation" evidence=IBA
GO:0008094 "DNA-dependent ATPase activity" evidence=IBA
GO:0009330 "DNA topoisomerase complex (ATP-hydrolyzing)" evidence=IBA
GO:0003916 "DNA topoisomerase activity" evidence=IGI
UNIPROTKB|Q5NBJ3 GYRB "DNA gyrase subunit B, chloroplastic/mitochondrial" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|Q7NHM9 gyrB "DNA gyrase subunit B" [Gloeobacter violaceus PCC 7421 (taxid:251221)] Back     alignment and assigned GO terms
UNIPROTKB|A8IIG8 TOP3 "DNA gyrase subunit B-like protein" [Chlamydomonas reinhardtii (taxid:3055)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_2705 CHY_2705 "DNA gyrase, B subunit" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms
UNIPROTKB|P77993 gyrB "DNA gyrase subunit B" [Thermotoga maritima MSB8 (taxid:243274)] Back     alignment and assigned GO terms
UNIPROTKB|Q8TQG0 gyrB "DNA gyrase subunit B" [Methanosarcina acetivorans C2A (taxid:188937)] Back     alignment and assigned GO terms
UNIPROTKB|P05652 gyrB "DNA gyrase subunit B" [Bacillus subtilis subsp. subtilis str. 168 (taxid:224308)] Back     alignment and assigned GO terms
TIGR_CMR|BA_0005 BA_0005 "DNA gyrase, B subunit" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|DET_0004 DET_0004 "DNA gyrase, B subunit" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P77993GYRB_THEMA5, ., 9, 9, ., 1, ., 30.52680.82340.6965yesno
P05652GYRB_BACSU5, ., 9, 9, ., 1, ., 30.50430.84200.7100yesno
P94604GYRB_CLOAB5, ., 9, 9, ., 1, ., 30.51180.82890.7001yesno
P0A0K8GYRB_STAAU5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
O08399GYRB_TREPA5, ., 9, 9, ., 1, ., 30.51180.80850.6828yesno
Q6GD85GYRB_STAAS5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
Q8CQK4GYRB_STAES5, ., 9, 9, ., 1, ., 30.52780.84570.7076yesno
Q5YLB4GYRB_NICBE5, ., 9, 9, ., 1, ., 30.78160.98140.7222N/Ano
P0A0K7GYRB_STAAW5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
Q5HK03GYRB_STAEQ5, ., 9, 9, ., 1, ., 30.52780.84570.7076yesno
P66936GYRB_STAAM5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
P66937GYRB_STAAN5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
Q9X3Y6GYRB_BACAN5, ., 9, 9, ., 1, ., 30.50210.83640.7031yesno
D4GZ01GYRB_HALVD5, ., 9, 9, ., 1, ., 30.52500.83270.7010yesno
Q5NBJ3GYRB_ORYSJ5, ., 9, 9, ., 1, ., 30.75360.89400.6598yesno
Q6GKU0GYRB_STAAR5, ., 9, 9, ., 1, ., 30.52140.84750.7080yesno
Q5HJZ1GYRB_STAAC5, ., 9, 9, ., 1, ., 30.51930.84750.7080yesno
Q94BZ7GYRBM_ARATH5, ., 9, 9, ., 1, ., 30.7980.91820.6748yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer5.99.1.30.946
3rd Layer5.99.10.963

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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
PRK05644 638 PRK05644, gyrB, DNA gyrase subunit B; Validated 0.0
PRK14939 756 PRK14939, gyrB, DNA gyrase subunit B; Provisional 0.0
TIGR01059 654 TIGR01059, gyrB, DNA gyrase, B subunit 0.0
COG0187 635 COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/ 0.0
PRK05559 631 PRK05559, PRK05559, DNA topoisomerase IV subunit B 0.0
smart00433 594 smart00433, TOP2c, TopoisomeraseII 0.0
TIGR01058 637 TIGR01058, parE_Gpos, DNA topoisomerase IV, B subu 1e-162
PTZ00109 903 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisio 1e-153
TIGR01055 625 TIGR01055, parE_Gneg, DNA topoisomerase IV, B subu 1e-106
cd00822172 cd00822, TopoII_Trans_DNA_gyrase, TopoIIA_Trans_DN 5e-76
pfam00204173 pfam00204, DNA_gyraseB, DNA gyrase B 5e-63
PHA02569 602 PHA02569, 39, DNA topoisomerase II large subunit; 2e-36
PTZ00108 1388 PTZ00108, PTZ00108, DNA topoisomerase 2-like prote 5e-21
PLN03128 1135 PLN03128, PLN03128, DNA topoisomerase 2; Provision 3e-17
pfam02518111 pfam02518, HATPase_c, Histidine kinase-, DNA gyras 1e-16
smart00387111 smart00387, HATPase_c, Histidine kinase-like ATPas 3e-16
cd00329107 cd00329, TopoII_MutL_Trans, MutL_Trans: transducer 2e-15
cd00075103 cd00075, HATPase_c, Histidine kinase-like ATPases; 2e-14
cd03366114 cd03366, TOPRIM_TopoIIA_GyrB, TOPRIM_TopoIIA_GyrB: 2e-13
cd01030115 cd01030, TOPRIM_TopoIIA_like, TOPRIM_TopoIIA_like: 3e-10
PLN03237 1465 PLN03237, PLN03237, DNA topoisomerase 2; Provision 9e-10
cd03481153 cd03481, TopoIIA_Trans_ScTopoIIA, TopoIIA_Trans_Sc 4e-04
>gnl|CDD|235542 PRK05644, gyrB, DNA gyrase subunit B; Validated Back     alignment and domain information 
 Score =  763 bits (1974), Expect = 0.0
 Identities = 264/460 (57%), Positives = 341/460 (74%), Gaps = 12/460 (2%)

Query: 70  ENPVSKTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASN 129
           +   ++ Y + QIQVLEGLEAVRKRP MYIGSTG RGLHHLVYEI+DN++DEA AGY  +
Sbjct: 1   KEEKAQEYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDH 60

Query: 130 IEVALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLH 189
           IEV +  D S++V DNGRGIP+D+HP T K A+E VLTVLHAGGKFGG   GY VSGGLH
Sbjct: 61  IEVTINEDGSITVTDNGRGIPVDIHPKTGKPAVEVVLTVLHAGGKFGGG--GYKVSGGLH 118

Query: 190 GVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPD 249
           GVG+SVVNALS  LEV V RDG  Y+Q+Y RG PVT L      +   D  GT + F PD
Sbjct: 119 GVGVSVVNALSTWLEVEVKRDGKIYYQEYERGVPVTPLEV----IGETDETGTTVTFKPD 174

Query: 250 KQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQW 309
            ++F T  +FD++T+A R+RELAFLN  L I L   D    + +   + + GG++EYV++
Sbjct: 175 PEIFET-TEFDYDTLATRLRELAFLNKGLKITLT--DEREGEEKEETFHYEGGIKEYVEY 231

Query: 310 LNTDKKPLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKA 368
           LN +K+PLH + + F  + DGI +++A+Q+  D YS+ +L +AN+I T +GGTH EG K 
Sbjct: 232 LNRNKEPLHEEPIYFEGEKDGIEVEVAMQYN-DGYSENILSFANNINTHEGGTHEEGFKT 290

Query: 369 SLTRTLNSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRK 428
           +LTR +N   +K+K +K+KD +L+GE VREGLT +ISV+ P P+FEGQTKT+LGN EVR 
Sbjct: 291 ALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAVISVKHPEPQFEGQTKTKLGNSEVRG 350

Query: 429 VVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLVRQKSVLRSSSLPGKL 488
           +VD  V E L+E+LE +P+V   I+ K++ A +A  AA++AR+L R+KS L SSSLPGKL
Sbjct: 351 IVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTRRKSALESSSLPGKL 410

Query: 489 ADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPL 528
           ADCSS  PEESE++IVEGDSAGGSAKQGRDRRFQ I+ PL
Sbjct: 411 ADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAIL-PL 449

Length = 638
>gnl|CDD|237860 PRK14939, gyrB, DNA gyrase subunit B; Provisional Back     alignment and domain information
>gnl|CDD|233254 TIGR01059, gyrB, DNA gyrase, B subunit Back     alignment and domain information
>gnl|CDD|223265 COG0187, GyrB, Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|235501 PRK05559, PRK05559, DNA topoisomerase IV subunit B; Reviewed Back     alignment and domain information
>gnl|CDD|214659 smart00433, TOP2c, TopoisomeraseII Back     alignment and domain information
>gnl|CDD|130130 TIGR01058, parE_Gpos, DNA topoisomerase IV, B subunit, Gram-positive Back     alignment and domain information
>gnl|CDD|240272 PTZ00109, PTZ00109, DNA gyrase subunit b; Provisional Back     alignment and domain information
>gnl|CDD|130127 TIGR01055, parE_Gneg, DNA topoisomerase IV, B subunit, proteobacterial Back     alignment and domain information
>gnl|CDD|238419 cd00822, TopoII_Trans_DNA_gyrase, TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E Back     alignment and domain information
>gnl|CDD|215785 pfam00204, DNA_gyraseB, DNA gyrase B Back     alignment and domain information
>gnl|CDD|177398 PHA02569, 39, DNA topoisomerase II large subunit; Provisional Back     alignment and domain information
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional Back     alignment and domain information
>gnl|CDD|215593 PLN03128, PLN03128, DNA topoisomerase 2; Provisional Back     alignment and domain information
>gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase Back     alignment and domain information
>gnl|CDD|214643 smart00387, HATPase_c, Histidine kinase-like ATPases Back     alignment and domain information
>gnl|CDD|238202 cd00329, TopoII_MutL_Trans, MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins Back     alignment and domain information
>gnl|CDD|238030 cd00075, HATPase_c, Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins Back     alignment and domain information
>gnl|CDD|173786 cd03366, TOPRIM_TopoIIA_GyrB, TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit Back     alignment and domain information
>gnl|CDD|173780 cd01030, TOPRIM_TopoIIA_like, TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II Back     alignment and domain information
>gnl|CDD|215641 PLN03237, PLN03237, DNA topoisomerase 2; Provisional Back     alignment and domain information
>gnl|CDD|239563 cd03481, TopoIIA_Trans_ScTopoIIA, TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 538
COG0187 635 GyrB Type IIA topoisomerase (DNA gyrase/topo II, t 100.0
PTZ00109 903 DNA gyrase subunit b; Provisional 100.0
PRK14939 756 gyrB DNA gyrase subunit B; Provisional 100.0
TIGR01058 637 parE_Gpos DNA topoisomerase IV, B subunit, Gram-po 100.0
PRK05644 638 gyrB DNA gyrase subunit B; Validated 100.0
PRK05559 631 DNA topoisomerase IV subunit B; Reviewed 100.0
TIGR01055 625 parE_Gneg DNA topoisomerase IV, B subunit, proteob 100.0
TIGR01059 654 gyrB DNA gyrase, B subunit. This model describes t 100.0
PHA02569 602 39 DNA topoisomerase II large subunit; Provisional 100.0
PLN03128 1135 DNA topoisomerase 2; Provisional 100.0
PTZ00108 1388 DNA topoisomerase 2-like protein; Provisional 100.0
smart00433 594 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomeras 100.0
PLN03237 1465 DNA topoisomerase 2; Provisional 100.0
KOG0355 842 consensus DNA topoisomerase type II [Chromatin str 100.0
cd00822172 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: 100.0
PF00204173 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA 100.0
cd03481153 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: T 99.97
PRK00095 617 mutL DNA mismatch repair protein; Reviewed 99.96
COG0323 638 MutL DNA mismatch repair enzyme (predicted ATPase) 99.91
TIGR01052488 top6b DNA topoisomerase VI, B subunit. This model 99.91
COG1389538 DNA topoisomerase VI, subunit B [DNA replication, 99.9
PRK04184535 DNA topoisomerase VI subunit B; Validated 99.87
TIGR00585312 mutl DNA mismatch repair protein MutL. All protein 99.86
cd03366114 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisome 99.82
cd01030115 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisome 99.8
PRK14867 659 DNA topoisomerase VI subunit B; Provisional 99.76
cd03365120 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-prima 99.76
PRK14868 795 DNA topoisomerase VI subunit B; Provisional 99.74
KOG1978 672 consensus DNA mismatch repair protein - MLH2/PMS1/ 99.63
KOG1979 694 consensus DNA mismatch repair protein - MLH1 famil 99.53
PRK05218 613 heat shock protein 90; Provisional 99.25
PF13589137 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and 98.99
KOG1977 1142 consensus DNA mismatch repair protein - MLH3 famil 98.98
PF02518111 HATPase_c: Histidine kinase-, DNA gyrase B-, and H 98.88
cd00329107 TopoII_MutL_Trans MutL_Trans: transducer domain, h 98.86
PRK14083 601 HSP90 family protein; Provisional 98.76
COG0326 623 HtpG Molecular chaperone, HSP90 family [Posttransl 98.52
PTZ00272 701 heat shock protein 83 kDa (Hsp83); Provisional 98.34
cd00075103 HATPase_c Histidine kinase-like ATPases; This fami 98.06
PTZ00130 814 heat shock protein 90; Provisional 98.05
smart00387111 HATPase_c Histidine kinase-like ATPases. Histidine 97.6
COG3290537 CitA Signal transduction histidine kinase regulati 97.55
PF13581125 HATPase_c_2: Histidine kinase-like ATPase domain 97.49
PRK11086542 sensory histidine kinase DcuS; Provisional 97.41
TIGR02938494 nifL_nitrog nitrogen fixation negative regulator N 97.38
TIGR01925137 spIIAB anti-sigma F factor. This model describes t 97.38
PRK04069161 serine-protein kinase RsbW; Provisional 97.35
TIGR01386457 cztS_silS_copS heavy metal sensor kinase. Members 97.3
PRK10604433 sensor protein RstB; Provisional 97.28
COG3920221 Signal transduction histidine kinase [Signal trans 97.26
PRK15053545 dpiB sensor histidine kinase DpiB; Provisional 97.21
PRK03660146 anti-sigma F factor; Provisional 97.2
PRK09303380 adaptive-response sensory kinase; Validated 97.17
PRK10364457 sensor protein ZraS; Provisional 97.1
PRK11006430 phoR phosphate regulon sensor protein; Provisional 97.07
TIGR01924159 rsbW_low_gc serine-protein kinase RsbW. This model 96.96
COG4191603 Signal transduction histidine kinase regulating C4 96.94
COG2205890 KdpD Osmosensitive K+ channel histidine kinase [Si 96.91
PRK11100475 sensory histidine kinase CreC; Provisional 96.9
PRK10815485 sensor protein PhoQ; Provisional 96.88
PRK09470461 cpxA two-component sensor protein; Provisional 96.87
PRK10337449 sensor protein QseC; Provisional 96.87
PRK10549466 signal transduction histidine-protein kinase BaeS; 96.87
PRK11073348 glnL nitrogen regulation protein NR(II); Provision 96.82
PRK09835482 sensor kinase CusS; Provisional 96.77
TIGR03785703 marine_sort_HK proteobacterial dedicated sortase s 96.76
PRK09467435 envZ osmolarity sensor protein; Provisional 96.75
PRK15347921 two component system sensor kinase SsrA; Provision 96.59
PRK10755356 sensor protein BasS/PmrB; Provisional 96.58
PRK11360607 sensory histidine kinase AtoS; Provisional 96.46
PRK11644495 sensory histidine kinase UhpB; Provisional 96.41
TIGR02966333 phoR_proteo phosphate regulon sensor kinase PhoR. 96.38
COG0642336 BaeS Signal transduction histidine kinase [Signal 96.36
PRK11466914 hybrid sensory histidine kinase TorS; Provisional 96.34
TIGR02916679 PEP_his_kin putative PEP-CTERM system histidine ki 96.21
COG3850574 NarQ Signal transduction histidine kinase, nitrate 96.2
TIGR02956968 TMAO_torS TMAO reductase sytem sensor TorS. This p 95.99
PRK13837828 two-component VirA-like sensor kinase; Provisional 95.99
PRK13560807 hypothetical protein; Provisional 95.93
PRK10490895 sensor protein KdpD; Provisional 95.93
PRK11091779 aerobic respiration control sensor protein ArcB; P 95.91
PRK13557540 histidine kinase; Provisional 95.82
PRK10841924 hybrid sensory kinase in two-component regulatory 95.68
PRK10547670 chemotaxis protein CheA; Provisional 95.68
PRK10618894 phosphotransfer intermediate protein in two-compon 95.44
COG5002459 VicK Signal transduction histidine kinase [Signal 95.4
PRK13559361 hypothetical protein; Provisional 95.36
COG4585365 Signal transduction histidine kinase [Signal trans 95.3
KOG0020 785 consensus Endoplasmic reticulum glucose-regulated 95.24
PRK10600569 nitrate/nitrite sensor protein NarX; Provisional 95.15
PRK11107919 hybrid sensory histidine kinase BarA; Provisional 95.11
COG2172146 RsbW Anti-sigma regulatory factor (Ser/Thr protein 94.86
COG5000712 NtrY Signal transduction histidine kinase involved 94.76
PRK099591197 hybrid sensory histidine kinase in two-component r 94.28
KOG0787414 consensus Dehydrogenase kinase [Signal transductio 94.26
COG3852363 NtrB Signal transduction histidine kinase, nitroge 94.15
COG4192673 Signal transduction histidine kinase regulating ph 93.75
PRK10935565 nitrate/nitrite sensor protein NarQ; Provisional 93.39
COG4251750 Bacteriophytochrome (light-regulated signal transd 92.95
COG3851497 UhpB Signal transduction histidine kinase, glucose 92.75
PF14501100 HATPase_c_5: GHKL domain 91.96
PF01751100 Toprim: Toprim domain; InterPro: IPR006171 This is 91.96
COG0643716 CheA Chemotaxis protein histidine kinase and relat 91.54
KOG0019 656 consensus Molecular chaperone (HSP90 family) [Post 91.33
COG4564459 Signal transduction histidine kinase [Signal trans 90.41
cd00823151 TopoIIB_Trans TopoIIB_Trans: Transducer domain, ha 87.91
COG2972456 Predicted signal transduction protein with a C-ter 87.61
COG3275557 LytS Putative regulator of cell autolysis [Signal 87.33
PF09239160 Topo-VIb_trans: Topoisomerase VI B subunit, transd 85.15
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=5e-146  Score=1168.91  Aligned_cols=453  Identities=53%  Similarity=0.912  Sum_probs=431.3

Q ss_pred             CCCCCcccceeccchhhhhhCCCeeeccCCC-CchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCC
Q 009294           74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID  152 (538)
Q Consensus        74 ~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~-~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~  152 (538)
                      ..+|++++||+|+|||||||||||||||++. +||||||||||||||||+++|||+.|.|+|++||+|+|.|||||||++
T Consensus         3 ~~~Y~a~~I~vL~GLEaVRkRPGMYIGst~~~~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~sisV~DnGRGIPvd   82 (635)
T COG0187           3 TNNYDASSIQVLEGLEAVRKRPGMYIGSTGDGRGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGSISVEDNGRGIPVD   82 (635)
T ss_pred             cCcCCHhHceeccCcHHhhcCCCceeccCCCCCcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCeEEEEECCCCCccc
Confidence            4579999999999999999999999999998 999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeec
Q 009294          153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL  232 (538)
Q Consensus       153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~  232 (538)
                      +||++++|++|+|||.|||||||+++  .|++|||+||||+|||||||+||+|+++|+|+.|+|+|++|+++.+++.+  
T Consensus        83 iH~~~~~~~vEvI~T~LHAGGKFd~~--~YkvSGGLHGVG~SVVNALS~~l~v~v~r~gk~y~q~f~~G~~~~~l~~i--  158 (635)
T COG0187          83 IHPKEKVSAVEVIFTVLHAGGKFDND--SYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYRQRFERGVPVTPLEVI--  158 (635)
T ss_pred             cCCCCCCCceEEEEEeeccCcccCCC--ccEeecCCCccceEEEecccceEEEEEEECCEEEEEEEeCCCcCCCceec--
Confidence            99999999999999999999999997  99999999999999999999999999999999999999999999777644  


Q ss_pred             CCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcC
Q 009294          233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNT  312 (538)
Q Consensus       233 ~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~  312 (538)
                      .....+.+||+|+|+||+++|.+ ..|+++.|.+||+++|+|||||+|.|+|++....  .. .|||++|+++||++++.
T Consensus       159 g~~~~~~~GT~V~F~PD~~iF~~-~~f~~~~l~~RlrelA~L~~gl~I~l~d~r~~~~--~~-~~~y~~Gl~~yv~~l~~  234 (635)
T COG0187         159 GSTDTKKTGTKVRFKPDPEIFGE-TEFDYEILKRRLRELAFLNKGVKITLTDERTGEE--KK-EFHYEGGLKDYVEYLNK  234 (635)
T ss_pred             ccCCCCCCccEEEEEcChHhcCC-cccCHHHHHHHHHHHhccCCCCEEEEEeccCCcc--cc-eeecccHHHHHHHHHhc
Confidence            22245678999999999999986 5799999999999999999999999999996522  12 59999999999999999


Q ss_pred             CCCCCCC-eeEEEEecceeEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCC
Q 009294          313 DKKPLHD-VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISL  391 (538)
Q Consensus       313 ~~~~~~~-~i~~~~~~~~i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l  391 (538)
                      +++++++ ++++..+.+++.||||+||+ ++|+++++||||+|+|++||||++||+++|+++||+|+++.++.|+++  +
T Consensus       235 ~k~~l~~~~~~~~~~~~~~~vEvA~q~~-d~~~e~~~SFvNnI~T~eGGTH~~Gfr~altr~in~y~~~~~~~k~~~--l  311 (635)
T COG0187         235 GKTPLHEEIFYFNGEKDGIAVEVALQWN-DGYSENILSFVNNIPTREGGTHEAGFRSALTRAINEYAKKKNLLKEGD--L  311 (635)
T ss_pred             CCCccccCceecccCccceEEEEEEEEe-cCCceEEEEeecCccCCCCchHHHHHHHHHHHHHHHHHHHhCcCcccC--C
Confidence            9999996 56667777899999999999 899999999999999999999999999999999999999999988765  9


Q ss_pred             CHHhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294          392 SGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARD  471 (538)
Q Consensus       392 ~~~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~  471 (538)
                      +++||||||++||||+||||+|+||||+||+|++++.+|++++++.|..||++||.+++.|+++++.+++||+|+|++|+
T Consensus       312 ~g~Diregl~aviSvki~~PqFegQTK~KL~n~e~~~~V~~~v~~~~~~~l~enp~~a~~i~~k~i~aa~aR~aarkare  391 (635)
T COG0187         312 TGDDIREGLTAVISVKIPDPQFEGQTKEKLGNSEVRSIVEKLVSEAFSLFLEENPQEAKKIVEKAIAAAKAREAARKARE  391 (635)
T ss_pred             CHHHHhhccEEEEEEECCCCCcCcccccccccHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhccccccCCCCCCCCCCCCCCCCceEEEEEeCCCCcccccccCCCCceEeeccCccccccccCC
Q 009294          472 LVRQKSVLRSSSLPGKLADCSSTTPEESEIFIVEGDSAGGSAKQGRDRRFQVIINPLQESIFAFASA  538 (538)
Q Consensus       472 ~~~~k~~~~~~~lpgKL~Dc~~~~~~~~eL~lvEGDSA~Gsak~gRdr~~qail~PLrGKiLNv~ka  538 (538)
                      ++|+|+.++...|||||+||+++||++|||||||||||||||||||||+||||| ||||||||||||
T Consensus       392 ~~R~k~~~~~~~LpGKLadC~skd~~~~ELfiVEGDSAGGSAKqgRdR~~QAIL-PLRGKiLNVeka  457 (635)
T COG0187         392 LTRRKSALDIPGLPGKLADCTSKDPEKSELFLVEGDSAGGSAKQGRDREFQAIL-PLRGKILNVEKA  457 (635)
T ss_pred             HHhhhcccccCCCCCcCcccccCCcccceEEEEecCCcchhhhhccCccceEEe-cccCcchhhhhc
Confidence            999999899999999999999999999999999999999999999999999999 999999999997

>PTZ00109 DNA gyrase subunit b; Provisional Back     alignment and domain information
>PRK14939 gyrB DNA gyrase subunit B; Provisional Back     alignment and domain information
>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive Back     alignment and domain information
>PRK05644 gyrB DNA gyrase subunit B; Validated Back     alignment and domain information
>PRK05559 DNA topoisomerase IV subunit B; Reviewed Back     alignment and domain information
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial Back     alignment and domain information
>TIGR01059 gyrB DNA gyrase, B subunit Back     alignment and domain information
>PHA02569 39 DNA topoisomerase II large subunit; Provisional Back     alignment and domain information
>PLN03128 DNA topoisomerase 2; Provisional Back     alignment and domain information
>PTZ00108 DNA topoisomerase 2-like protein; Provisional Back     alignment and domain information
>smart00433 TOP2c TopoisomeraseII Back     alignment and domain information
>PLN03237 DNA topoisomerase 2; Provisional Back     alignment and domain information
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics] Back     alignment and domain information
>cd00822 TopoII_Trans_DNA_gyrase TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E Back     alignment and domain information
>PF00204 DNA_gyraseB: DNA gyrase B; InterPro: IPR013506 DNA topoisomerases regulate the number of topological links between two DNA strands (i Back     alignment and domain information
>cd03481 TopoIIA_Trans_ScTopoIIA TopoIIA_Trans_ScTopoIIA: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topo IIA Back     alignment and domain information
>PRK00095 mutL DNA mismatch repair protein; Reviewed Back     alignment and domain information
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR01052 top6b DNA topoisomerase VI, B subunit Back     alignment and domain information
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK04184 DNA topoisomerase VI subunit B; Validated Back     alignment and domain information
>TIGR00585 mutl DNA mismatch repair protein MutL Back     alignment and domain information
>cd03366 TOPRIM_TopoIIA_GyrB TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit Back     alignment and domain information
>cd01030 TOPRIM_TopoIIA_like TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II Back     alignment and domain information
>PRK14867 DNA topoisomerase VI subunit B; Provisional Back     alignment and domain information
>cd03365 TOPRIM_TopoIIA TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II Back     alignment and domain information
>PRK14868 DNA topoisomerase VI subunit B; Provisional Back     alignment and domain information
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair] Back     alignment and domain information
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair] Back     alignment and domain information
>PRK05218 heat shock protein 90; Provisional Back     alignment and domain information
>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B Back     alignment and domain information
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair] Back     alignment and domain information
>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins Back     alignment and domain information
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins Back     alignment and domain information
>PRK14083 HSP90 family protein; Provisional Back     alignment and domain information
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional Back     alignment and domain information
>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins Back     alignment and domain information
>PTZ00130 heat shock protein 90; Provisional Back     alignment and domain information
>smart00387 HATPase_c Histidine kinase-like ATPases Back     alignment and domain information
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms] Back     alignment and domain information
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain Back     alignment and domain information
>PRK11086 sensory histidine kinase DcuS; Provisional Back     alignment and domain information
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL Back     alignment and domain information
>TIGR01925 spIIAB anti-sigma F factor Back     alignment and domain information
>PRK04069 serine-protein kinase RsbW; Provisional Back     alignment and domain information
>TIGR01386 cztS_silS_copS heavy metal sensor kinase Back     alignment and domain information
>PRK10604 sensor protein RstB; Provisional Back     alignment and domain information
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional Back     alignment and domain information
>PRK03660 anti-sigma F factor; Provisional Back     alignment and domain information
>PRK09303 adaptive-response sensory kinase; Validated Back     alignment and domain information
>PRK10364 sensor protein ZraS; Provisional Back     alignment and domain information
>PRK11006 phoR phosphate regulon sensor protein; Provisional Back     alignment and domain information
>TIGR01924 rsbW_low_gc serine-protein kinase RsbW Back     alignment and domain information
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms] Back     alignment and domain information
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>PRK11100 sensory histidine kinase CreC; Provisional Back     alignment and domain information
>PRK10815 sensor protein PhoQ; Provisional Back     alignment and domain information
>PRK09470 cpxA two-component sensor protein; Provisional Back     alignment and domain information
>PRK10337 sensor protein QseC; Provisional Back     alignment and domain information
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional Back     alignment and domain information
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional Back     alignment and domain information
>PRK09835 sensor kinase CusS; Provisional Back     alignment and domain information
>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase Back     alignment and domain information
>PRK09467 envZ osmolarity sensor protein; Provisional Back     alignment and domain information
>PRK15347 two component system sensor kinase SsrA; Provisional Back     alignment and domain information
>PRK10755 sensor protein BasS/PmrB; Provisional Back     alignment and domain information
>PRK11360 sensory histidine kinase AtoS; Provisional Back     alignment and domain information
>PRK11644 sensory histidine kinase UhpB; Provisional Back     alignment and domain information
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR Back     alignment and domain information
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>PRK11466 hybrid sensory histidine kinase TorS; Provisional Back     alignment and domain information
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase Back     alignment and domain information
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms] Back     alignment and domain information
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS Back     alignment and domain information
>PRK13837 two-component VirA-like sensor kinase; Provisional Back     alignment and domain information
>PRK13560 hypothetical protein; Provisional Back     alignment and domain information
>PRK10490 sensor protein KdpD; Provisional Back     alignment and domain information
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional Back     alignment and domain information
>PRK13557 histidine kinase; Provisional Back     alignment and domain information
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional Back     alignment and domain information
>PRK10547 chemotaxis protein CheA; Provisional Back     alignment and domain information
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional Back     alignment and domain information
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>PRK13559 hypothetical protein; Provisional Back     alignment and domain information
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional Back     alignment and domain information
>PRK11107 hybrid sensory histidine kinase BarA; Provisional Back     alignment and domain information
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms] Back     alignment and domain information
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms] Back     alignment and domain information
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Back     alignment and domain information
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms] Back     alignment and domain information
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms] Back     alignment and domain information
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms] Back     alignment and domain information
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional Back     alignment and domain information
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms] Back     alignment and domain information
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms] Back     alignment and domain information
>PF14501 HATPase_c_5: GHKL domain Back     alignment and domain information
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase Back     alignment and domain information
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms] Back     alignment and domain information
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>cd00823 TopoIIB_Trans TopoIIB_Trans: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIB family of DNA topoisomerases similar to Sulfolobus shibatae topoisomerase VI (topoVI) Back     alignment and domain information
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms] Back     alignment and domain information
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms] Back     alignment and domain information
>PF09239 Topo-VIb_trans: Topoisomerase VI B subunit, transducer; InterPro: IPR015320 DNA topoisomerases regulate the number of topological links between two DNA strands (i Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
1ei1_A391 Dimerization Of E. Coli Dna Gyrase B Provides A Str 6e-76
1kij_A390 Crystal Structure Of The 43k Atpase Domain Of Therm 2e-61
3ttz_A198 Crystal Structure Of A Topoisomerase Atpase Inhibit 3e-48
4hxz_A390 Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To 8e-47
4gee_A215 Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To 2e-44
1s16_A390 Crystal Structure Of E. Coli Topoisomerase Iv Pare 2e-44
3lnu_A408 Crystal Structure Of Pare Subunit Length = 408 5e-43
4duh_A220 Crystal Structure Of 24 Kda Domain Of E. Coli Dna G 6e-43
4b6c_A196 Structure Of The M. Smegmatis Gyrb Atpase Domain In 1e-42
1aj6_A219 Novobiocin-resistant Mutant (r136h) Of The N-termin 3e-42
3g75_A184 Crystal Structure Of Staphylococcus Aureus Gyrase B 4e-42
4em7_A226 Crystal Structure Of A Topoisomerase Atp Inhibitor 9e-40
4hyp_A215 Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To 1e-39
1kzn_A205 Crystal Structure Of E. Coli 24kda Domain In Comple 2e-39
3g7e_A203 Crystal Structure Of E. Coli Gyrase B Co-Complexed 3e-39
4hz5_A216 Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To 4e-39
3cwv_A369 Crystal Structure Of B-Subunit Of The Dna Gyrase Fr 1e-33
1s14_A194 Crystal Structure Of Escherichia Coli Topoisomerase 3e-29
4hz0_A213 Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And To 4e-28
3fv5_A201 Crystal Structure Of E. Coli Topoisomerase Iv Co-Co 3e-27
2xkk_A 767 Crystal Structure Of Moxifloxacin, Dna, And A. Baum 5e-14
2xkj_E 767 Crystal Structure Of Catalytic Core Of A. Baumannii 6e-14
2xco_A 726 The 3.1a Crystal Structure Of The Catalytic Core (B 6e-14
2xcr_B 726 The 3.5a Crystal Structure Of The Catalytic Core (B 6e-14
2xcs_B 692 The 2.1a Crystal Structure Of S. Aureus Gyrase Comp 6e-14
3nuh_B 420 A Domain Insertion In E. Coli Gyrb Adopts A Novel F 3e-12
3foe_C 268 Structural Insight Into The Quinolone-Dna Cleavage 4e-10
3ig0_A 242 Crystal Structure Of The Second Part Of The Mycobac 2e-06
2zjt_A 247 Crystal Structure Of Dna Gyrase B' Domain Sheds Lig 3e-06
4gfh_F 1099 Topoisomerase Ii-Dna-Amppnp Complex Length = 1099 6e-05
4gfh_A 1103 Topoisomerase Ii-Dna-Amppnp Complex Length = 1103 6e-05
1qzr_A418 Crystal Structure Of The Atpase Region Of Saccharom 7e-05
1pvg_A418 Crystal Structure Of The Atpase Region Of Saccharom 1e-04
>pdb|1EI1|A Chain A, Dimerization Of E. Coli Dna Gyrase B Provides A Structural Mechanism For Activating The Atpase Catalytic Center Length = 391 Back     alignment and structure 
Iteration: 1

 Score =  281 bits (719), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 147/367 (40%), Positives = 221/367 (60%), Gaps = 13/367 (3%)
Query: 82  IQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSV 140
           I+VL+GL+AVRKRP MYIG T    GLHH+V+E++DNA+DEA AG+   I V + ADNSV
Sbjct: 9   IKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSV 68
Query: 141 SVADNGRGIPIDLHPATNKSALETVLTVLHAXXXXXXXXXXXXXXXXXXXXXXXXXNALS 200
           SV D+GRGIP  +HP    SA E ++TVLHA                         NALS
Sbjct: 69  SVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVV--NALS 126
Query: 201 ESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTTAIQFD 260
           + LE+ + R+G  + Q Y  G P   L          ++ GT +RFWP  + FT   +F+
Sbjct: 127 QKLELVIQREGKIHRQIYEHGVPQAPLAV----TGETEKTGTMVRFWPSLETFTNVTEFE 182
Query: 261 HNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKKPLH-D 319
           +  +A R+REL+FL+  ++I LR    D    + + + + GG++ +V++LN +K P+H +
Sbjct: 183 YEILAKRLRELSFLDSGVSIRLR----DKRDGKEDHFHYEGGIKAFVEYLNKNKTPIHPN 238
Query: 320 VVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGK 379
           +  F  + DGI +++ALQW +D + + +  + N+I   DGGTH+ G +A++TRTLN+   
Sbjct: 239 IFYFSTEKDGIGVEVALQW-NDGFQENIYCFTNNIPQRDGGTHLAGFRAAMTRTLNAYMD 297
Query: 380 KSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLT 439
           K    K   +S +G+  REGL  ++SV+VP+P+F  QTK +L + EV+  V+Q + E L 
Sbjct: 298 KEGYSKKAKVSATGDDAREGLIAVVSVKVPDPKFSSQTKDKLVSSEVKSAVEQQMNELLA 357
Query: 440 EYLELHP 446
           EYL  +P
Sbjct: 358 EYLLENP 364
>pdb|1KIJ|A Chain A, Crystal Structure Of The 43k Atpase Domain Of Thermus Thermophilus Gyrase B In Complex With Novobiocin Length = 390 Back     alignment and structure
>pdb|3TTZ|A Chain A, Crystal Structure Of A Topoisomerase Atpase Inhibitor Length = 198 Back     alignment and structure
>pdb|4HXZ|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 390 Back     alignment and structure
>pdb|4GEE|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 215 Back     alignment and structure
>pdb|1S16|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Pare 43kda Subunit Complexed With Adpnp Length = 390 Back     alignment and structure
>pdb|3LNU|A Chain A, Crystal Structure Of Pare Subunit Length = 408 Back     alignment and structure
>pdb|4DUH|A Chain A, Crystal Structure Of 24 Kda Domain Of E. Coli Dna Gyrase B In Complex With Small Molecule Inhibitor Length = 220 Back     alignment and structure
>pdb|4B6C|A Chain A, Structure Of The M. Smegmatis Gyrb Atpase Domain In Complex With An Aminopyrazinamide Length = 196 Back     alignment and structure
>pdb|1AJ6|A Chain A, Novobiocin-resistant Mutant (r136h) Of The N-terminal 24 Kda Fragment Of Dna Gyrase B Complexed With Novobiocin At 2.3 Angstroms Resolution Length = 219 Back     alignment and structure
>pdb|3G75|A Chain A, Crystal Structure Of Staphylococcus Aureus Gyrase B Co- Complexed With Inhibitor Length = 184 Back     alignment and structure
>pdb|4EM7|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor Length = 226 Back     alignment and structure
>pdb|4HYP|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 215 Back     alignment and structure
>pdb|1KZN|A Chain A, Crystal Structure Of E. Coli 24kda Domain In Complex With Clorobiocin Length = 205 Back     alignment and structure
>pdb|3G7E|A Chain A, Crystal Structure Of E. Coli Gyrase B Co-Complexed With Inhibitor Length = 203 Back     alignment and structure
>pdb|4HZ5|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity Length = 216 Back     alignment and structure
>pdb|3CWV|A Chain A, Crystal Structure Of B-Subunit Of The Dna Gyrase From Myxococcus Xanthus Length = 369 Back     alignment and structure
>pdb|1S14|A Chain A, Crystal Structure Of Escherichia Coli Topoisomerase Iv Pare 24kda Subunit Length = 194 Back     alignment and structure
>pdb|4HZ0|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And Topoisomerase Iv, Part I: Structure Guided Discovery And Optimization Of Dual Targeting Agents With Potent, Broad-spectrum Enzymatic Activity. Length = 213 Back     alignment and structure
>pdb|3FV5|A Chain A, Crystal Structure Of E. Coli Topoisomerase Iv Co-Complexed With Inhibitor Length = 201 Back     alignment and structure
>pdb|2XKK|A Chain A, Crystal Structure Of Moxifloxacin, Dna, And A. Baumannii Topo Iv (Pare-Parc Fusion Truncate) Length = 767 Back     alignment and structure
>pdb|2XKJ|E Chain E, Crystal Structure Of Catalytic Core Of A. Baumannii Topo Iv (Pare-Parc Fusion Truncate) Length = 767 Back     alignment and structure
>pdb|2XCO|A Chain A, The 3.1a Crystal Structure Of The Catalytic Core (B'a' Region) Of Staphylococcus Aureus Dna Gyrase Length = 726 Back     alignment and structure
>pdb|2XCR|B Chain B, The 3.5a Crystal Structure Of The Catalytic Core (B'a' Region) Of Staphylococcus Aureus Dna Gyrase Complexed With Gsk299423 And Dna Length = 726 Back     alignment and structure
>pdb|2XCS|B Chain B, The 2.1a Crystal Structure Of S. Aureus Gyrase Complex With Gsk299423 And Dna Length = 692 Back     alignment and structure
>pdb|3NUH|B Chain B, A Domain Insertion In E. Coli Gyrb Adopts A Novel Fold That Plays A Critical Role In Gyrase Function Length = 420 Back     alignment and structure
>pdb|3FOE|C Chain C, Structural Insight Into The Quinolone-Dna Cleavage Complex Of Type Iia Topoisomerases Length = 268 Back     alignment and structure
>pdb|3IG0|A Chain A, Crystal Structure Of The Second Part Of The Mycobacterium Tuberculosis Dna Gyrase Reaction Core: The Toprim Domain At 2.1 A Resolution Length = 242 Back     alignment and structure
>pdb|2ZJT|A Chain A, Crystal Structure Of Dna Gyrase B' Domain Sheds Lights On The Mechanism For T-Segment Navigation Length = 247 Back     alignment and structure
>pdb|1QZR|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces Cerevisiae Topoisomerase Ii Bound To Icrf-187 (Dexrazoxane) Length = 418 Back     alignment and structure
>pdb|1PVG|A Chain A, Crystal Structure Of The Atpase Region Of Saccharomyces Cerevisiae Topoisomerase Ii Length = 418 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query538
1kij_A390 DNA gyrase subunit B; topoisomerase, gyrase B-coum 0.0
1ei1_A391 DNA gyrase B, GYRB; ATPase domain, dimer, isomeras 0.0
1s16_A390 Topoisomerase IV subunit B; two-domain protein com 0.0
3lnu_A408 Topoisomerase IV subunit B; PARE, ATP-binding, nuc 0.0
3cwv_A369 DNA gyrase, B subunit, truncated; structural genom 0.0
1pvg_A418 DNA topoisomerase II; GHKL ATPase domain; HET: DNA 1e-140
1zxm_A400 TOPO IIA ATPase, DNA topoisomerase II, alpha isozy 1e-127
4emv_A226 DNA topoisomerase IV, B subunit; protein-inhibitor 1e-127
4duh_A220 DNA gyrase subunit B; structure-based drug design, 1e-122
3fv5_A201 DNA topoisomerase 4 subunit B; topoisomerase IV B 1e-112
3ttz_A198 DNA gyrase subunit B; protein-inhibitor complex, A 1e-109
3k9f_C 268 DNA topoisomerase 4 subunit B; quinolone, topoisom 3e-36
3nuh_B 420 DNA gyrase subunit B; topoisomerase, supercoiling, 2e-30
3m4i_A 242 DNA gyrase subunit B; GYRB, toprim, type II topois 2e-24
2xkj_E 767 Topoisomerase IV; type IIA topoisomerase; 2.20A {A 2e-16
2xcs_B 692 DNA gyrase subunit B, DNA gyrase subunit A; isomer 3e-14
3qx3_A 803 DNA topoisomerase 2-beta; toprim domain, winged-he 3e-12
2q2e_B 621 Type 2 DNA topoisomerase 6 subunit B; DNA-binding, 1e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-08
2zbk_B530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 3e-07
1mu5_A471 Type II DNA topoisomerase VI subunit B; GHKL ATPas 1e-04
>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex, isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2 Length = 390 Back     alignment and structure
 Score =  620 bits (1602), Expect = 0.0
 Identities = 168/399 (42%), Positives = 236/399 (59%), Gaps = 11/399 (2%)

Query: 76  TYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALL 135
           +Y +  I+VL+GLE VR RPAMYIG TG  G HHL  EILDNAVDEA AGYA+ I V L 
Sbjct: 2   SYDASAIRVLKGLEGVRHRPAMYIGGTGVEGYHHLFKEILDNAVDEALAGYATEILVRLN 61

Query: 136 ADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSV 195
            D S++V DNGRGIP+DL P   K A+E +   LH+GGKF   +  Y VSGGLHGVG SV
Sbjct: 62  EDGSLTVEDNGRGIPVDLMPEEGKPAVEVIYNTLHSGGKFEQGA--YKVSGGLHGVGASV 119

Query: 196 VNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQVFTT 255
           VNALSE   V V+R+G  +   +SRG+    L   V+    + + GTR+ F PD ++F  
Sbjct: 120 VNALSEWTVVEVFREGKHHRIAFSRGEVTEPL--RVVGEAPRGKTGTRVTFKPDPEIFGN 177

Query: 256 AIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDKK 315
            ++FD + I  R+RE+A+L   L +  +      E+     +   GG+  + + L   + 
Sbjct: 178 -LRFDPSKIRARLREVAYLVAGLKLVFQDRQHGKEE----VFLDKGGVASFAKALAEGED 232

Query: 316 PLH-DVVGFRKDVDGITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTL 374
            L+      R     + +++        Y+  +L YAN I T DGGTH+   K++ +R L
Sbjct: 233 LLYEKPFLIRGTHGEVEVEVGFLHT-QGYNAEILTYANMIPTRDGGTHLTAFKSAYSRAL 291

Query: 375 NSLGKKSKTVKDKDISLSGEHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSV 434
           N   KK+   K+K    +G+ + EGL  ++SV++PNP+FEGQTK +L NPE    V Q V
Sbjct: 292 NQYAKKAGLNKEKGPQPTGDDLLEGLYAVVSVKLPNPQFEGQTKGKLLNPEAGTAVGQVV 351

Query: 435 QEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV 473
            E L E LE +P +  ++  K+L A +A  AA++AR+LV
Sbjct: 352 YERLLEILEENPRIAKAVYEKALRAAQAREAARKARELV 390
>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Length = 391 Back     alignment and structure
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Length = 390 Back     alignment and structure
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB: 3lps_A* Length = 408 Back     alignment and structure
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown function, B-subunit binding, isomerase, nucleotide-binding, topoisomerase; HET: DNA; 1.95A {Myxococcus xanthus} Length = 369 Back     alignment and structure
>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A* Length = 418 Back     alignment and structure
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo sapiens} PDB: 1zxn_A* Length = 400 Back     alignment and structure
>4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP binding, structure-based drug antimicrobial, virtual screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae GA47373} PDB: 4em7_A* Length = 226 Back     alignment and structure
>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial, DNA gyrase B, GY isomerase-isomerase inhibitor complex; HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A* 1kzn_A* 3g7e_A* Length = 220 Back     alignment and structure
>3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex, antibiotic resistance, ATP-binding, nucleotide-binding; HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A* Length = 201 Back     alignment and structure
>3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding, structure-based drug antimicrobial, isomerase-isomerase inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A* Length = 198 Back     alignment and structure
>3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase, protein-DNA cleavage complex; HET: DNA LFX; 2.90A {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C* 3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C* Length = 268 Back     alignment and structure
>3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} Length = 420 Back     alignment and structure
>3m4i_A DNA gyrase subunit B; GYRB, toprim, type II topoisomerase, tuberculosi quinolone binding site, DNA binding site, ATP-binding; HET: DNA; 1.95A {Mycobacterium tuberculosis} PDB: 3ig0_A* 2zjt_A* Length = 242 Back     alignment and structure
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Length = 767 Back     alignment and structure
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A* Length = 692 Back     alignment and structure
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain, coiled-coil domain, DNA and cleavage, nucleus; HET: DNA EVP; 2.16A {Homo sapiens} Length = 803 Back     alignment and structure
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} Length = 621 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Length = 530 Back     alignment and structure
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Length = 471 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query538
3lnu_A408 Topoisomerase IV subunit B; PARE, ATP-binding, nuc 100.0
1ei1_A391 DNA gyrase B, GYRB; ATPase domain, dimer, isomeras 100.0
4gfh_A 1177 DNA topoisomerase 2; topoisomerase, protein-DNA co 100.0
1s16_A390 Topoisomerase IV subunit B; two-domain protein com 100.0
1kij_A390 DNA gyrase subunit B; topoisomerase, gyrase B-coum 100.0
1pvg_A418 DNA topoisomerase II; GHKL ATPase domain; HET: DNA 100.0
1zxm_A400 TOPO IIA ATPase, DNA topoisomerase II, alpha isozy 100.0
3cwv_A369 DNA gyrase, B subunit, truncated; structural genom 100.0
4duh_A220 DNA gyrase subunit B; structure-based drug design, 100.0
4emv_A226 DNA topoisomerase IV, B subunit; protein-inhibitor 100.0
3ttz_A198 DNA gyrase subunit B; protein-inhibitor complex, A 100.0
3fv5_A201 DNA topoisomerase 4 subunit B; topoisomerase IV B 100.0
2q2e_B 621 Type 2 DNA topoisomerase 6 subunit B; DNA-binding, 100.0
3na3_A348 DNA mismatch repair protein MLH1; MUTL protein hom 99.96
3h4l_A367 DNA mismatch repair protein PMS1; ATP binding, DNA 99.96
1b63_A333 MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A 99.95
2zbk_B530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 99.94
1h7s_A365 PMS1 protein homolog 2; DNA repair, GHL ATPase, mi 99.94
3k9f_C 268 DNA topoisomerase 4 subunit B; quinolone, topoisom 99.93
3nuh_B 420 DNA gyrase subunit B; topoisomerase, supercoiling, 99.92
2xkj_E 767 Topoisomerase IV; type IIA topoisomerase; 2.20A {A 99.91
1mu5_A471 Type II DNA topoisomerase VI subunit B; GHKL ATPas 99.85
3qx3_A 803 DNA topoisomerase 2-beta; toprim domain, winged-he 99.72
3l4j_A 757 DNA topoisomerase 2; topoisomerase, protein-DNA co 99.58
2xcs_B 692 DNA gyrase subunit B, DNA gyrase subunit A; isomer 99.46
3t0h_A228 Heat shock protein HSP 90-alpha; chaperone, ATPase 99.33
3o0i_A256 HSP90AA1 protein; HSP90 heat-shock proteins, chape 99.3
1y4s_A559 Chaperone protein HTPG; HSP90, molecular chaperone 99.29
2ior_A235 Chaperone protein HTPG; heat shock protein, HSP90; 99.29
2ioq_A 624 Chaperone protein HTPG; heat shock protein, HSP90; 99.24
2wer_A220 ATP-dependent molecular chaperone HSP82; ATPase, A 99.15
1yc1_A264 HSP 86, heat shock protein HSP 90-alpha; cell-cycl 99.12
2gqp_A236 Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, 99.11
2o1u_A 666 Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, 99.04
3peh_A281 Endoplasmin homolog; structural genomics, structur 98.85
1qy5_A269 Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: N 98.84
2cg9_A 677 ATP-dependent molecular chaperone HSP82; chaperone 98.83
3nmq_A239 Heat shock protein HSP 90-beta; ATPase, chaperone- 98.79
3ied_A272 Heat shock protein; HSP90, chaperone, structural g 98.44
1th8_A145 Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-s 98.17
3a0y_A152 Sensor protein; ATP-LID, kinase, phosphoprotein, t 97.97
1id0_A152 PHOQ histidine kinase; PHOQ/PHOP, signal transduct 97.91
3sl2_A177 Sensor histidine kinase YYCG; ATP binding, intact 97.85
1ysr_A150 Sensor-type histidine kinase PRRB; ATP-binding dom 97.83
3ehg_A128 Sensor kinase (YOCF protein); GHL ATPase domain, t 97.82
2e0a_A394 Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP 97.81
3zxo_A129 Redox sensor histidine kinase response regulator; 97.8
2q8g_A407 [pyruvate dehydrogenase [lipoamide]] kinase isozy; 97.77
1bxd_A161 ENVZ(290-450), protein (osmolarity sensor protein 97.73
1r62_A160 Nitrogen regulation protein NR(II); PII, histidine 97.71
1gkz_A388 [3-methyl-2-oxobutanoate dehydrogenase [lipoamide] 97.67
2btz_A394 Pyruvate dehydrogenase kinase isoenzyme 2; GHKL mo 97.67
1y8o_A419 [pyruvate dehydrogenase [lipoamide]] kinase isozy; 97.65
2c2a_A258 Sensor histidine kinase; phosphotransfer, PHOQ, se 97.64
3zxq_A124 Hypoxia sensor histidine kinase response regulato; 97.64
4ew8_A268 Sensor protein DIVL; signal transduction, two-comp 97.58
3ehh_A218 Sensor kinase (YOCF protein); four-helix bundle, G 97.46
1i58_A189 Chemotaxis protein CHEA; beta-alpha sandwich, sign 97.42
3jz3_A222 Sensor protein QSEC; helix-turn-helix, kinase doma 97.42
3a0r_A349 Sensor protein; four helix bundle, PAS fold, kinas 97.39
1b3q_A379 Protein (chemotaxis protein CHEA); histine kinase, 97.36
3d36_A244 Sporulation kinase B; GHKL ATPase, four helix bund 97.28
3ke6_A399 Protein RV1364C/MT1410; anti-sigma factor, anti-si 96.93
4fpp_A247 Phosphotransferase; four helix bundle, bergerat fo 96.56
1ixm_A192 SPO0B, protein (sporulation response regulatory pr 85.96
2zbk_B530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 85.67
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB: 3lps_A* Back     alignment and structure
Probab=100.00  E-value=6.3e-111  Score=885.47  Aligned_cols=386  Identities=34%  Similarity=0.594  Sum_probs=320.3

Q ss_pred             CCCCcccceeccchhhhhhCCCeeeccCCCCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCCcc
Q 009294           75 KTYGSEQIQVLEGLEAVRKRPAMYIGSTGPRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPIDLH  154 (538)
Q Consensus        75 ~~y~~~~i~~L~~lE~VrkRP~mYIGs~~~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~~h  154 (538)
                      ++|++++||+|+|||||||||||||||+++   ||+|||||||||||+++|+|+.|+|+|+.||+|+|+|||||||+++|
T Consensus        22 ~~Y~a~~I~vL~glE~VRkRPgMYiGst~~---~hlv~EivdNsiDea~ag~~~~I~V~i~~dgsI~V~DnGrGIPv~~h   98 (408)
T 3lnu_A           22 TRYNAADIEVLSGLDPVKRRPGMYTDTARP---NHLAQEVIDNSVDEALAGHAKQIEVTLYKDGSCEVSDDGRGMPVDIH   98 (408)
T ss_dssp             ------------CCHHHHHCGGGTSCTTST---HHHHHHHHHHHHHHHHTTSCCEEEEEECTTSCEEEEECSSCCCCSBC
T ss_pred             CCcCHhHceeccccHHHhcCCccEECCCCc---chhhHHHHHHHHHHhhcCCCceEEEEEeCCCeEEEEEcCCCCCcccc
Confidence            469999999999999999999999999976   99999999999999999999999999999999999999999999999


Q ss_pred             CCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeecCC
Q 009294          155 PATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPV  234 (538)
Q Consensus       155 ~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~~~  234 (538)
                      |++|+|++|+|||+|||||||+++  .|++||||||||+++|||||++|+|+++|+|+.|+|+|++|+++.++..+.  .
T Consensus        99 ~~~~~~~~e~i~t~lhaggKfd~~--~ykvSgGlhGvG~svVNALS~~l~v~v~rdGk~~~q~f~~G~~~~~l~~ig--~  174 (408)
T 3lnu_A           99 PEEKIPGVELILTRLHAGGKFNNR--NYTFSGGLHGVGVSVVNALSTKVELFIKREGSEHRMEFRDGNAASKLEVVG--T  174 (408)
T ss_dssp             TTTCSBHHHHHHHCC----------------------CHHHHHHTEEEEEEEEEETTEEEEEEEETTEECSCCEEEE--E
T ss_pred             cccCCcchheEEEecccCCCcCCC--ceeecCCccccccceehhccCeEEEEEEECCEEEEEEECCCEECCCceEec--c
Confidence            999999999999999999999987  999999999999999999999999999999999999999999988775431  1


Q ss_pred             CCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecccHHHHHHHHcCCC
Q 009294          235 DSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAGGLEEYVQWLNTDK  314 (538)
Q Consensus       235 ~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~Gl~~yv~~l~~~~  314 (538)
                      ....++||+|+|+||+++|.+ ..|+++.|.+||+++|++||||+|+|+|++.+    ..+.|+|++||++||++++.++
T Consensus       175 ~~~~~~GT~V~F~PD~~iF~~-~~f~~~~l~~rlrelA~Ln~Gv~I~l~der~~----~~~~f~yegGi~~yv~~l~~~k  249 (408)
T 3lnu_A          175 VGKKNTGTRLRFWADPKYFDT-PKFNVRALRHLLRAKAVLCPGLTVKLHDEATG----EQDSWYFENGLRDYLKGEMAEH  249 (408)
T ss_dssp             CCTTCCEEEEEEEECGGGSSC-SCCCHHHHHHHHHHHHHHSTTCEEEEEETTTC----CEEEEECSSSHHHHHHHHTTTS
T ss_pred             CcCCCCCcEEEEEECHHHhCC-CCcCHHHHHHHHHHHHhhcCCCEEEEEeccCC----ceeEEEcCchHHHHHHHHhcCC
Confidence            212579999999999999964 57999999999999999999999999999864    3579999999999999999988


Q ss_pred             CCCCCeeEEEEecce-eEEEEEEEeccCCCCceEEEeeCceeccCCccchHHHHHHHHHHHHHHHHhcCCCCCcCCCCCH
Q 009294          315 KPLHDVVGFRKDVDG-ITIDLALQWCSDAYSDTMLGYANSIRTIDGGTHIEGVKASLTRTLNSLGKKSKTVKDKDISLSG  393 (538)
Q Consensus       315 ~~~~~~i~~~~~~~~-i~veval~~s~~~~~~~~~SFVN~I~T~~GGTHv~g~~~al~k~in~~~kk~~~~k~~~~~l~~  393 (538)
                      +++++.+.+..+.++ +.+|||+||+ ++|+++++||||+|+|++||||++||++||+++||+|+++.+++|++ .++++
T Consensus       250 ~~~~~~~~~~~~~~~~~~ve~Al~~~-~~~~e~~~SFvN~I~T~~GGTH~~gfr~altr~in~y~~~~~l~kk~-~~l~~  327 (408)
T 3lnu_A          250 EMLPADLFVGSLKKDTEIVDWAAGWV-PEGELVQESYVNLIPTAQHGTHVNGLRSGLTDALREFCDFRNLLPRG-VKLAP  327 (408)
T ss_dssp             CCEEEEEEEEEEECSSCEEEEEEEEC-SSSCCCEEEEETTEECTTCBHHHHHHHHHHHHHHHHHHHHTTCCCTT-CCCCH
T ss_pred             CcCCCCCeEeeEecCceeEEEEEEEc-CCCCeEEEEEeCCcCCCCCCcHHHHHHHHHHHHHHHHHHHhCcccCC-CCCCH
Confidence            777755555555567 8999999999 67999999999999999999999999999999999999998888865 89999


Q ss_pred             HhHhccceEEEEEeecCCCCCCccccccCChhhhhhhhhHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009294          394 EHVREGLTCIISVRVPNPEFEGQTKTRLGNPEVRKVVDQSVQEYLTEYLELHPDVLDSILSKSLSALKAALAAKRARDLV  473 (538)
Q Consensus       394 ~dIregL~~~vsvki~nP~FegQTKekL~n~ev~~~v~~~v~~~l~~~l~~n~~~~~~I~~~~~~~~ka~~aakkar~~~  473 (538)
                      +||||||++||||+++||+|+||||+||+|++++.+|++++.+.|..||++||++++.|++|++.+++||+  |||||++
T Consensus       328 ~DiregL~aviSvkv~~PqFegQTK~kL~n~ev~~~V~~~v~~~l~~~l~enp~~ak~i~~k~i~aa~aR~--rkare~~  405 (408)
T 3lnu_A          328 EDVWDRVTFVLSLKMTDPQFSGQTKERLSSRQAAGFIEGAAHDAFSLYLNQNVEIGEKIAQIAIDRASARL--KTEKQIV  405 (408)
T ss_dssp             HHHHTTEEEEEEEECSSCCEESTTSCEECCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHTC----------
T ss_pred             HHHhhCeEEEEEEEcCCCcccCcccccccCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHH--HHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999996  8999999


Q ss_pred             hhc
Q 009294          474 RQK  476 (538)
Q Consensus       474 ~~k  476 (538)
                      |||
T Consensus       406 rrK  408 (408)
T 3lnu_A          406 RKK  408 (408)
T ss_dssp             ---
T ss_pred             ccC
Confidence            876
>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Back     alignment and structure
>4gfh_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, DNA supercoiling, DNA replication; HET: DNA PTR TSP ANP; 4.41A {Saccharomyces cerevisiae} Back     alignment and structure
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2 Back     alignment and structure
>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex, isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2 Back     alignment and structure
>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A* Back     alignment and structure
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo sapiens} PDB: 1zxn_A* Back     alignment and structure
>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown function, B-subunit binding, isomerase, nucleotide-binding, topoisomerase; HET: DNA; 1.95A {Myxococcus xanthus} Back     alignment and structure
>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial, DNA gyrase B, GY isomerase-isomerase inhibitor complex; HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A* 1kzn_A* 3g7e_A* Back     alignment and structure
>4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP binding, structure-based drug antimicrobial, virtual screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae GA47373} PDB: 4em7_A* Back     alignment and structure
>3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding, structure-based drug antimicrobial, isomerase-isomerase inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A* Back     alignment and structure
>3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex, antibiotic resistance, ATP-binding, nucleotide-binding; HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A* Back     alignment and structure
>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} Back     alignment and structure
>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag repair, structural genomics consortium, SGC, protein bindin; HET: DNA ATP; 2.50A {Homo sapiens} Back     alignment and structure
>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA damage, nucleus, phosphop DNA binding protein, protein binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae} Back     alignment and structure
>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A* 1bkn_A 1nhj_A* 1b62_A* Back     alignment and structure
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Back     alignment and structure
>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair, HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2 PDB: 1h7u_A* 1ea6_A* Back     alignment and structure
>3k9f_C DNA topoisomerase 4 subunit B; quinolone, topoisomerase, protein-DNA cleavage complex; HET: DNA LFX; 2.90A {Streptococcus pneumoniae} PDB: 3fof_C* 3foe_C* 3ksa_C* 3ksb_C* 3ltn_C* 3rad_C* 3rae_C* 3raf_C* Back     alignment and structure
>3nuh_B DNA gyrase subunit B; topoisomerase, supercoiling, specialization, isomera; HET: DNA; 3.10A {Escherichia coli} Back     alignment and structure
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter baumannii} PDB: 2xkk_A* Back     alignment and structure
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Back     alignment and structure
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain, coiled-coil domain, DNA and cleavage, nucleus; HET: DNA EVP; 2.16A {Homo sapiens} PDB: 4fm9_A* Back     alignment and structure
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, covalently linked comple supercoiling; HET: DNA PTR TSP; 2.48A {Saccharomyces cerevisiae} SCOP: e.11.1.1 PDB: 3l4k_A* 1bjt_A 1bgw_A 2rgr_A* Back     alignment and structure
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A* Back     alignment and structure
>3t0h_A Heat shock protein HSP 90-alpha; chaperone, ATPase; 1.20A {Homo sapiens} SCOP: d.122.1.1 PDB: 3r4m_A 3t0z_A* 3t10_A* 3t1k_A* 3t2s_A* 1uyl_A 1uy7_A* 1uy8_A* 1uy9_A* 1uyc_A* 1uyd_A* 1uye_A* 1uyf_A* 1uyg_A* 1uyh_A* 1uyk_A* 1uy6_A 2cdd_A* 2uwd_A* 2vci_A* ... Back     alignment and structure
>3o0i_A HSP90AA1 protein; HSP90 heat-shock proteins, chaperone-inhibitor complex; HET: P54; 1.47A {Homo sapiens} PDB: 2fwz_A* 2fwy_A* 2h55_A* Back     alignment and structure
>1y4s_A Chaperone protein HTPG; HSP90, molecular chaperone, ATPase; HET: ADP; 2.90A {Escherichia coli} PDB: 1y4u_A Back     alignment and structure
>2ior_A Chaperone protein HTPG; heat shock protein, HSP90; HET: ADP; 1.65A {Escherichia coli} Back     alignment and structure
>2ioq_A Chaperone protein HTPG; heat shock protein, HSP90; 3.50A {Escherichia coli} PDB: 2iop_A Back     alignment and structure
>2wer_A ATP-dependent molecular chaperone HSP82; ATPase, ATP-binding, phosphoprotein, stress respo nucleotide-binding; HET: RDC; 1.60A {Saccharomyces cerevisiae} PDB: 2weq_A* 2wep_A* 1zwh_A* 1zw9_A* 2fxs_A* 3c11_A* 3c0e_A* 2yge_A* 2ygf_A* 2akp_A Back     alignment and structure
>1yc1_A HSP 86, heat shock protein HSP 90-alpha; cell-cycle, cancer, drug design, cell cycle; HET: 4BC; 1.70A {Homo sapiens} SCOP: d.122.1.1 PDB: 1yc3_A* 1yc4_A* Back     alignment and structure
>2gqp_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, ligand, NECA, NPCA, adenosine; HET: PA7 PG4 1PE; 1.50A {Canis lupus familiaris} SCOP: d.122.1.1 PDB: 1tc0_A* 1tbw_A* 1u0z_A* 1u2o_A* 1ysz_A* 1yt0_A* 1yt1_A* 2exl_A* 2fyp_A* 2gfd_A* 1tc6_A* 2h8m_A* 2hch_A* 2hg1_A* 3o2f_A* 2esa_A* Back     alignment and structure
>2o1u_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, AMP-PNP, GP96; HET: ANP; 2.40A {Canis lupus familiaris} PDB: 2o1v_A* 2o1w_A 2o1t_A Back     alignment and structure
>3peh_A Endoplasmin homolog; structural genomics, structural genomics consortium, SGC, HE protein, chaperone, ATP binding; HET: IBD; 2.75A {Plasmodium falciparum 3D7} PDB: 3pej_A* Back     alignment and structure
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A* 1u0y_A* 1yt2_A* Back     alignment and structure
>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90, heat shock protein, ATP-binding, heat shock, nucleotide-binding, acetylation; HET: ATP; 3.1A {Saccharomyces cerevisiae} Back     alignment and structure
>3nmq_A Heat shock protein HSP 90-beta; ATPase, chaperone-chaperone inhibitor complex; HET: 7PP; 2.20A {Homo sapiens} SCOP: d.122.1.1 Back     alignment and structure
>3ied_A Heat shock protein; HSP90, chaperone, structural genomics, structura genomics consortium, SGC, stress response; HET: AN2; 2.01A {Plasmodium falciparum} Back     alignment and structure
>1th8_A Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-sigma, sporulation, serine kinase, transcription; HET: ADP; 2.40A {Geobacillus stearothermophilus} SCOP: d.122.1.3 PDB: 1thn_A* 1til_A* 1l0o_A* 1tid_A* Back     alignment and structure
>3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase, two-component regulatory system; 1.57A {Thermotoga maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A Back     alignment and structure
>1id0_A PHOQ histidine kinase; PHOQ/PHOP, signal transduction, transferase; HET: ANP; 1.60A {Escherichia coli} SCOP: d.122.1.3 PDB: 3cgz_A 3cgy_A Back     alignment and structure
>3sl2_A Sensor histidine kinase YYCG; ATP binding, intact ATP, bergerat fold, TR; HET: ATP; 1.61A {Bacillus subtilis} Back     alignment and structure
>1ysr_A Sensor-type histidine kinase PRRB; ATP-binding domain, structural genomics, mycobacterium tuberculosis structural proteomics project; 1.78A {Mycobacterium tuberculosis} SCOP: d.122.1.3 PDB: 1ys3_A Back     alignment and structure
>3ehg_A Sensor kinase (YOCF protein); GHL ATPase domain, transferase; HET: ATP; 1.74A {Bacillus subtilis} Back     alignment and structure
>2e0a_A Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP-binding, structural genomics, NPPSFA, NATI project on protein structural and functional analyses; HET: ANP; 1.86A {Homo sapiens} PDB: 2zdx_A* 2zdy_A* 2zkj_A* 3d2r_A* Back     alignment and structure
>3zxo_A Redox sensor histidine kinase response regulator; transferase; HET: MSE; 1.90A {Mycobacterium tuberculosis} Back     alignment and structure
>2q8g_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; GHKL ATPase/kinase family, pyruvate dehydrogenase complex, mitochondrial kinase; HET: AZX; 1.90A {Homo sapiens} PDB: 2q8f_A* 2q8h_A Back     alignment and structure
>1bxd_A ENVZ(290-450), protein (osmolarity sensor protein (ENVZ)); histidine kinase, osmosensor, His-Asp phosphorelay system, signal transduction; HET: ANP; NMR {Escherichia coli BL21} SCOP: d.122.1.3 Back     alignment and structure
>1r62_A Nitrogen regulation protein NR(II); PII, histidine kinase, two component system, transfera; 1.60A {Escherichia coli} SCOP: d.122.1.3 Back     alignment and structure
>1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase; transferase, mitochondrial protein kinase, potassium; HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1 d.122.1.4 PDB: 1gjv_A 1gkx_A* Back     alignment and structure
>2btz_A Pyruvate dehydrogenase kinase isoenzyme 2; GHKL motif regulation, transferase; 2.2A {Homo sapiens} PDB: 2bu2_A* 2bu5_A* 2bu6_A* 2bu7_A* 2bu8_A* 3crk_A* 1jm6_A* 3crl_A* Back     alignment and structure
>1y8o_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; pyruvate dehydrogenase kinase 3, lipoyl-bearing domain; HET: RED ADP; 2.48A {Homo sapiens} SCOP: a.29.5.1 d.122.1.4 PDB: 1y8n_A* 1y8p_A* 2pnr_A* 2q8i_A* Back     alignment and structure
>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl MAD, two-component systems, transferase; HET: ADP; 1.9A {Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB: 3dge_A* Back     alignment and structure
>3zxq_A Hypoxia sensor histidine kinase response regulato; transferase; 1.90A {Mycobacterium tuberculosis} Back     alignment and structure
>4ew8_A Sensor protein DIVL; signal transduction, two-component regulatory system, hiska GHKL domain, structural genomics; 2.50A {Caulobacter crescentus} Back     alignment and structure
>3ehh_A Sensor kinase (YOCF protein); four-helix bundle, GHL ATPase domain, transferase; HET: MSE ADP; 2.10A {Bacillus subtilis} PDB: 3ehj_A* 3gie_A* 3gif_A* 3gig_A* 3ehf_A* Back     alignment and structure
>1i58_A Chemotaxis protein CHEA; beta-alpha sandwich, signaling protein, transferase; HET: ACP ADP; 1.60A {Thermotoga maritima} SCOP: d.122.1.3 PDB: 1i59_A* 1i5a_A* 1i5b_A* 1i5c_A* 1i5d_A* Back     alignment and structure
>3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding, cell inner MEM cell membrane, kinase, membrane, nucleotide-binding; 2.50A {Escherichia coli} Back     alignment and structure
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima} Back     alignment and structure
>1b3q_A Protein (chemotaxis protein CHEA); histine kinase, signal transduction, multi-domai protein, transferase; 2.60A {Thermotoga maritima} SCOP: a.30.2.1 b.40.7.1 d.122.1.3 PDB: 2ch4_A* 3ur1_A Back     alignment and structure
>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I two-component histidine kinase, phosphoprotein; HET: ADP; 2.03A {Geobacillus stearothermophilus} Back     alignment and structure
>3ke6_A Protein RV1364C/MT1410; anti-sigma factor, anti-sigma factor antagonist, phosphatase serine kinase, ATPase, unknown function; 2.60A {Mycobacterium tuberculosis} Back     alignment and structure
>4fpp_A Phosphotransferase; four helix bundle, bergerat fold, CCKA, CTRA, CPDR, bacterial cytoplasme; 2.20A {Caulobacter crescentus} PDB: 4fmt_A Back     alignment and structure
>1ixm_A SPO0B, protein (sporulation response regulatory protein); phosphotransferase, two component system; 2.60A {Bacillus subtilis} SCOP: d.123.1.1 PDB: 2ftk_A* 1f51_A Back     alignment and structure
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 538
d1ei1a2219 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli 1e-76
d1kija2212 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermoph 3e-69
d1s14a_168 d.122.1.2 (A:) Topoisomerase IV subunit B {Escheri 4e-57
d1ei1a1172 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia col 5e-44
d1kija1172 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermop 2e-43
d1s16a1167 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B 7e-42
d1pvga2239 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's 2e-41
d1pvga1161 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's 6e-21
d1bjta_ 760 e.11.1.1 (A:) DNA topoisomerase II, C-terminal fra 3e-11
d1h7sa2203 d.122.1.2 (A:29-231) DNA mismatch repair protein P 3e-07
d2hkja3219 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {A 5e-05
d2c2aa2161 d.122.1.3 (A:321-481) Sensor histidine kinase TM08 0.002
>d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]} Length = 219 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA gyrase B
species: Escherichia coli [TaxId: 562]

 Score =  239 bits (610), Expect = 1e-76
 Identities = 109/229 (47%), Positives = 147/229 (64%), Gaps = 11/229 (4%)

Query: 74  SKTYGSEQIQVLEGLEAVRKRPAMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYASNIEV 132
           S +  S  I+VL+GL+AVRKRP MYIG T    GLHH+V+E++DNA+DEA AG+   I V
Sbjct: 1   SNSSDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIV 60

Query: 133 ALLADNSVSVADNGRGIPIDLHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVG 192
            + ADNSVSV D+GRGIP  +HP    SA E ++TVLHAGGKF  +S  Y VSGGLHGVG
Sbjct: 61  TIHADNSVSVQDDGRGIPTGIHPEEGVSAAEVIMTVLHAGGKFDDNS--YKVSGGLHGVG 118

Query: 193 LSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVLPVDSKDRQGTRIRFWPDKQV 252
           +SVVNALS+ LE+ + R+G  + Q Y  G P   L          ++ GT +RFWP  + 
Sbjct: 119 VSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLA----VTGETEKTGTMVRFWPSLET 174

Query: 253 FTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG 301
           FT   +F++  +A R+REL+FL+  ++I LR +    E      + + G
Sbjct: 175 FTNVTEFEYEILAKRLRELSFLDSGVSIRLRDKRDGKED----HFHYEG 219
>d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Length = 212 Back     information, alignment and structure
>d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Length = 168 Back     information, alignment and structure
>d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId: 562]} Length = 172 Back     information, alignment and structure
>d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Length = 172 Back     information, alignment and structure
>d1s16a1 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Length = 167 Back     information, alignment and structure
>d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 239 Back     information, alignment and structure
>d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 161 Back     information, alignment and structure
>d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 760 Back     information, alignment and structure
>d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 203 Back     information, alignment and structure
>d2hkja3 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]} Length = 219 Back     information, alignment and structure
>d2c2aa2 d.122.1.3 (A:321-481) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]} Length = 161 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query538
d1ei1a2219 DNA gyrase B {Escherichia coli [TaxId: 562]} 100.0
d1kija2212 DNA gyrase B {Thermus thermophilus [TaxId: 274]} 100.0
d1pvga2239 DNA topoisomerase II {Baker's yeast (Saccharomyces 100.0
d1s14a_168 Topoisomerase IV subunit B {Escherichia coli [TaxI 100.0
d1kija1172 DNA gyrase B {Thermus thermophilus [TaxId: 274]} 100.0
d1ei1a1172 DNA gyrase B {Escherichia coli [TaxId: 562]} 100.0
d1s16a1167 Topoisomerase IV subunit B {Escherichia coli [TaxI 100.0
d1pvga1161 DNA topoisomerase II {Baker's yeast (Saccharomyces 99.95
d1h7sa2203 DNA mismatch repair protein PMS2 {Human (Homo sapi 99.89
d1b63a2218 DNA mismatch repair protein MutL {Escherichia coli 99.87
d2hkja3219 Topoisomerase VI-B subunit {Archaeon Sulfolobus sh 99.73
d1bjta_ 760 DNA topoisomerase II, C-terminal fragment (residue 99.62
d1uyla_208 HSP90 {Human (Homo sapiens) [TaxId: 9606]} 98.6
d2iwxa1213 HSP90 {Baker's yeast (Saccharomyces cerevisiae) [T 98.5
d2gqpa1227 HSP90 {Dog (Canis familiaris) [TaxId: 9615]} 98.31
d1ysra1148 Sensor-type histidine kinase PrrB {Mycobacterium t 98.19
d1jm6a2190 Pyruvate dehydrogenase kinase {Rat (Rattus norvegi 98.13
d1bxda_161 Histidine kinase domain of the osmosensor EnvZ {Es 98.06
d1id0a_146 Histidine kinase PhoQ domain {Escherichia coli [Ta 98.05
d1gkza2193 Branched-chain alpha-ketoacid dehydrogenase kinase 97.99
d1th8a_139 Anti-sigma factor spoIIab {Bacillus stearothermoph 97.87
d2c2aa2161 Sensor histidine kinase TM0853 {Thermotoga maritim 97.84
d1y8oa2125 Pyruvate dehydrogenase kinase {Human (Homo sapiens 97.41
d1r62a_156 Nitrogen regulation protein NtrB, C-terminal domai 97.23
d1ixma_179 Sporulation response regulatory protein Spo0B {Bac 97.04
d2hkja2164 Topoisomerase VI-B subunit {Archaeon Sulfolobus sh 91.3
>d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA gyrase B
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=4.4e-66  Score=502.90  Aligned_cols=218  Identities=49%  Similarity=0.849  Sum_probs=204.2

Q ss_pred             CCCCCcccceeccchhhhhhCCCeeeccCC-CCchhHHHHHHHHhhHhhhccCCCCeEEEEEecCCeEEEEECCCCccCC
Q 009294           74 SKTYGSEQIQVLEGLEAVRKRPAMYIGSTG-PRGLHHLVYEILDNAVDEAQAGYASNIEVALLADNSVSVADNGRGIPID  152 (538)
Q Consensus        74 ~~~y~~~~i~~L~~lE~VrkRP~mYIGs~~-~~gL~~lv~EivdNAiDe~~~g~~~~I~V~i~~dg~isV~DnGrGIP~~  152 (538)
                      +++|++++||+|+++||||+||+|||||++ ..|||||++|||+||+|++++|+|+.|.|+|+.||+|+|+|||||||++
T Consensus         1 ~~~~~~~~i~~L~~lE~Vr~RP~mYiGs~~~~~gl~~l~~Eil~Na~De~~~~~~~~i~v~i~~dgsIsV~ddGrGIPv~   80 (219)
T d1ei1a2           1 SNSSDSSSIKVLKGLDAVRKRPGMYIGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHADNSVSVQDDGRGIPTG   80 (219)
T ss_dssp             CCCCSGGGCEECCTTHHHHHCTHHHHCCSSSSHHHHHHHHHHHHHHHHHHHTTCCCEEEEEECTTSCEEEEECSSCCCCS
T ss_pred             CCcCCHhhCeeecchhHHHhCCCcEEccCCCcccchhhhHhHhhhhhhhhcCCCccceeEEEcCCCeEEEEECCcccccc
Confidence            467999999999999999999999999998 5899999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCcchHHHhhhhcccCCCCCCCCCCeeeccccccchhhHHHhhcCeEEEEEEeCCEEEEEEEeCCcccccceeeec
Q 009294          153 LHPATNKSALETVLTVLHAGGKFGGSSSGYSVSGGLHGVGLSVVNALSESLEVTVWRDGMEYHQKYSRGKPVTTLTCHVL  232 (538)
Q Consensus       153 ~h~~~g~~~~e~v~t~lhagskf~~~~~~yk~sgG~~GvGls~vnalS~~~~V~t~~~g~~y~q~f~~G~~~~~~~~~~~  232 (538)
                      .||++++|+||+||++||||+||+++  .|++|||+||+|++++||||++|+|+++|+|+.|+|+|++|++..++...  
T Consensus        81 ~h~~~~~~~~e~if~~l~tg~~fd~~--~~~~sgG~nGvG~~~~NalS~~f~v~~~r~g~~y~q~f~~g~~~~~~~~~--  156 (219)
T d1ei1a2          81 IHPEEGVSAAEVIMTVLHAGGKFDDN--SYKVSGGLHGVGVSVVNALSQKLELVIQREGKIHRQIYEHGVPQAPLAVT--  156 (219)
T ss_dssp             BCTTTSSBHHHHHHHSTTEESCSSSS--SCSSCSCCSSCHHHHHHHTEEEEEEEEEETTEEEEEEEETTEESSCCEEE--
T ss_pred             ccCccCCchhhhhhhhhhhccCCCCC--cceeEcCccccceeEEEEeeeEEEEEEEECCEEEEEEEeCCeECCCceec--
Confidence            99999999999999999999999988  99999999999999999999999999999999999999999998876544  


Q ss_pred             CCCCCCCCCcEEEEEeCccccccccccCHHHHHHHHHHHHhhCCCcEEEEeeCCCCCCCCceeEEeecc
Q 009294          233 PVDSKDRQGTRIRFWPDKQVFTTAIQFDHNTIAGRIRELAFLNPKLTIALRKEDSDPEKNQYNEYFFAG  301 (538)
Q Consensus       233 ~~~~~~~~GT~V~F~PD~~~F~~~~~~~~~~i~~rl~elA~lnpgl~i~l~d~~~~~~~~~~~~f~~~~  301 (538)
                        +.+.++||+|+|+||+++|.....++++.|.+|++++|+|||||+|+|+|++.+    .++.|+|+|
T Consensus       157 --~~~~~~gT~I~F~PD~~iF~~~~~~~~~~l~~R~~dlA~L~~Gl~V~lnder~~----~~~~f~~~G  219 (219)
T d1ei1a2         157 --GETEKTGTMVRFWPSLETFTNVTEFEYEILAKRLRELSFLDSGVSIRLRDKRDG----KEDHFHYEG  219 (219)
T ss_dssp             --EECSCCEEEEEEEECTTTCCSCCSCCHHHHHHHHHHHHHHSTTCEEEEEETTTC----CEEEECCCS
T ss_pred             --cCcCCCCEEEEEEECccccCCcccccHHHHHHHHHHHcccCCCcEEEEEEcCCC----cEEEEECCC
Confidence              345679999999999999965446899999999999999999999999999964    467898875
>d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1kija1 d.14.1.3 (A:221-392) DNA gyrase B {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1ei1a1 d.14.1.3 (A:221-392) DNA gyrase B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1s16a1 d.14.1.3 (A:1217-1383) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1pvga1 d.14.1.3 (A:246-406) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hkja3 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]} Back     information, alignment and structure
>d1bjta_ e.11.1.1 (A:) DNA topoisomerase II, C-terminal fragment (residues 410-1202) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1uyla_ d.122.1.1 (A:) HSP90 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2iwxa1 d.122.1.1 (A:2-214) HSP90 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2gqpa1 d.122.1.1 (A:74-337) HSP90 {Dog (Canis familiaris) [TaxId: 9615]} Back     information, alignment and structure
>d1ysra1 d.122.1.3 (A:299-446) Sensor-type histidine kinase PrrB {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1jm6a2 d.122.1.4 (A:1177-1366) Pyruvate dehydrogenase kinase {Rat (Rattus norvegicus), isozyme 2 [TaxId: 10116]} Back     information, alignment and structure
>d1bxda_ d.122.1.3 (A:) Histidine kinase domain of the osmosensor EnvZ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1id0a_ d.122.1.3 (A:) Histidine kinase PhoQ domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1gkza2 d.122.1.4 (A:186-378) Branched-chain alpha-ketoacid dehydrogenase kinase (BCK) {Rat (Rattus norvegicus) [TaxId: 10116]} Back     information, alignment and structure
>d1th8a_ d.122.1.3 (A:) Anti-sigma factor spoIIab {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d2c2aa2 d.122.1.3 (A:321-481) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1y8oa2 d.122.1.4 (A:177-301) Pyruvate dehydrogenase kinase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1r62a_ d.122.1.3 (A:) Nitrogen regulation protein NtrB, C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ixma_ d.123.1.1 (A:) Sporulation response regulatory protein Spo0B {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d2hkja2 d.14.1.3 (A:307-470) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]} Back     information, alignment and structure