Citrus Sinensis ID: 005638

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-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680------
MWRNLARQSSTRNFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAAEAIASESELSGSEEVQELIDQFNEKGVSILDSSSMLDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
cHHHHHHHHHccccccccccccccHHHccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccHHHHHHHHHcccccccccHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHcccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccEEHHHHHHHHHHcccEEEEEEEcHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccHHHHHHHHHHHccccEEEcHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEcccccccccccccccccccccccHHHHHHHHccccccccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccccccHHHHccccHHHHHHHHHHHHHHHccccccccccccccHHHHcccc
cHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccHHHHcccccccccHHHHHHHHHHHHHccccHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHccHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHEEHHHHHHccccEEEEEEccHHHHHHHHHccHcccccccccccccccccccccccEEEcccEEEEcccHHHHHHHHHHcccccHHHHHHHHHHHcccccEEcHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccHHHHHHHHHHHccccccHcHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccccccEEEcccccHHHHHHHHHHHHHHHccccHHHHHccccEEEEEEEcc
mwrnlarqsstrnfkfspskvsqtTNFLKKITSLETQtlldsscpllgfrrtsflssqksnlgqsnftqsiypfgvltsrsYASAAEAIAseselsgsEEVQELIDQFNEKGvsildsssmldkqpkkkgtgmgtaKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEqklapnlpyvkslflgwFEPLRDAIAKDQATAQDkwkhmtyapyfnnlpaDMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKStkkknatdnnlegdsepltndpeKLIKEQEKLKKRVTSLIKKQKLQQVRGIVkghvdskpwgqdALVKVGCRLIQLLMEtayiqppvdqlgdsppdirpAFVHTLKSFTKEAlkgrrygviecdplVRKGLEktgrhmiipympmlvpplnwrgynrgghfflpsyvmrthgarqqretikmtprsqlePVFQALDTLGSTKWRVNKRILGVIDRMWAsggclaglvdqedvplpekpntddeteiKKWKWKVKTAKKqnsekhsqrcDIELKLSVARKMkdeegfyyphnldfrgraypmhpylnhlgsdlcrgvlefeeghplgkaGLHWLKIHLANLyaggvdklsyegrvaftenhlddifdsadrplegrrwwlgaedpfqCLATCINlsealrspspestishipvHMVFSVFT
mwrnlarqsstrnfkfspskvsqttNFLKKITSLETQTLLDSSCPLLGFRRTSFLssqksnlgqsnfTQSIYPFGVLTSRSYASAAEAIASESELSGSEEVQELIDQFNEKGVSildsssmldkqpkkkgtgmgtakyyMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFkstkkknatdnnlegdsepltndpekLIKEQEKLKKRVtslikkqklqqvrgivkghvdskpwgqdALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSftkealkgrrygviecdplVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETikmtprsqlePVFQAldtlgstkwrVNKRILGVIDRMWASGGCLAglvdqedvplpekpntddeteikkwkwkvktakkqnsekhsqrcdieLKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPspestishipvHMVFSVFT
MWRNLARQSSTRNFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTsrsyasaaeaiaseselsgseeVQELIDQFNEKGVSILDSSSMLDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPeklikeqeklkkRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIkkwkwkvktakkQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
**************************FLKKITSLETQTLLDSSCPLLGFRRTSFL**********NFTQSIYPFGVLTSR******************************************************TAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSF*****************************************LIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLG****DIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHG***************LEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVD********************WKWK*****************IELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEA***********HIPVHMVFS***
MWRN**RQS**********************TSLETQTLLDS*******************************FGVLTSRSYASAAE******************************************************KRRQIKIETEAWEQAAKEY*******************KSLFLGWFEPLRDAIA*************TYAPYFNNLPADMMAVITMHKLVGLLMT*AGEVRVVQAACQIGEAIENEARIQSFF**************GDSEPLTNDPEKLIKEQEKL*KRVTSLIKKQKLQ******KGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGAR***ETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDV**************KKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
************NFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAA**************VQELIDQFNEKGVSILDSSSM***********MGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKW****************CDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
*W*****Q*ST*******************ITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAAEAIASESELSGSEEVQELIDQFNEKGVSILDSSS*LDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MWRNLARQSSTRNFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAAEAIASESELSGSEEVQELIDQFNEKGVSILDSSSMLDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSVFT
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 ?
Query686 2.2.26 [Sep-21-2011]
Q93Y94 1002 DNA-directed RNA polymera N/A no 0.956 0.654 0.660 0.0
Q8L6J5 1002 DNA-directed RNA polymera N/A no 0.970 0.664 0.630 0.0
P92969 976 DNA-directed RNA polymera yes no 0.970 0.682 0.597 0.0
Q8L6J3 1021 DNA-directed RNA polymera N/A no 0.975 0.655 0.599 0.0
Q8VWF8 1020 DNA-directed RNA polymera N/A no 0.962 0.647 0.593 0.0
Q9LFV6 1011 DNA-directed RNA polymera no no 0.959 0.650 0.595 0.0
P69242 977 DNA-directed RNA polymera N/A no 0.763 0.536 0.611 0.0
P69243 977 DNA-directed RNA polymera N/A no 0.763 0.536 0.611 0.0
O24600 993 DNA-directed RNA polymera no no 0.797 0.550 0.574 0.0
Q8L6J1 977 DNA-directed RNA polymera N/A no 0.765 0.537 0.619 0.0
>sp|Q93Y94|RPOT1_NICSY DNA-directed RNA polymerase 1, mitochondrial OS=Nicotiana sylvestris GN=RPOT1 PE=2 SV=1 Back     alignment and function desciption
 Score =  874 bits (2259), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 446/675 (66%), Positives = 533/675 (78%), Gaps = 19/675 (2%)

Query: 8   QSSTRNFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNF 67
           + ST N     S+ S  +   +K+  LE      S  P LG  + S  SS K +      
Sbjct: 43  EESTTNPNLGLSQNSIFSRISRKVRHLEGICEESSKNPHLGLSQNSLFSSVKGDFRVCGK 102

Query: 68  TQSIYPFGVLTSRSYASAAEAIASESELSGSEEVQELIDQFNEKGVSILDSSSMLDKQPK 127
             S    G L  RSY SAAEAIAS SE    +E+QELI++ N++  ++   +++  KQPK
Sbjct: 103 RGS-GSLGFL--RSYGSAAEAIASTSE-EDIDEIQELIEEMNKENEAL--KTNLQPKQPK 156

Query: 128 KKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWF 187
             G GMG  KY +L+RRQIK+ETEAWE+AAKEYQ+LL DMCEQKLAPNLPY+KSLFLGWF
Sbjct: 157 TIG-GMGVGKYNLLRRRQIKVETEAWEEAAKEYQELLMDMCEQKLAPNLPYMKSLFLGWF 215

Query: 188 EPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAG--EVRVVQ 245
           EPLRDAIA +Q    +      YAP+F+ LPA+MMAVITMHKL+GLLMT  G    RVVQ
Sbjct: 216 EPLRDAIAAEQKLCDEGKNRGAYAPFFDQLPAEMMAVITMHKLMGLLMTGGGTGSARVVQ 275

Query: 246 AACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSL 305
           AA  IGEAIE+EARI  F + TKK NA   +LE       + P  ++KE+E+++K+V  L
Sbjct: 276 AASHIGEAIEHEARIHRFLEKTKKSNALSGDLE-------DTPGDIMKERERVRKKVKIL 328

Query: 306 IKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRP 365
           +KKQKLQQVR IVK   D KPWGQD LVKVGCRLIQ+LMETAYIQPP DQL D PPDIRP
Sbjct: 329 MKKQKLQQVRKIVKQQDDEKPWGQDNLVKVGCRLIQILMETAYIQPPNDQLDDCPPDIRP 388

Query: 366 AFVHTLKSFTKEALKG-RRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRG 424
           AFVHTLK  T E +KG RRYGVI+CDPLVRKGL+KT RHM+IPYMPMLVPP +W GY++G
Sbjct: 389 AFVHTLK--TVETMKGSRRYGVIQCDPLVRKGLDKTARHMVIPYMPMLVPPQSWLGYDKG 446

Query: 425 GHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWA 484
            + FLPSY+MRTHGA+QQRE +K  P+ QLEPVFQALDTLG+TKWR+N+++LG++DR+WA
Sbjct: 447 AYLFLPSYIMRTHGAKQQREAVKRVPKKQLEPVFQALDTLGNTKWRLNRKVLGIVDRIWA 506

Query: 485 SGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVAR 544
           SGG LA LVD+EDVPLPE+P+ +DE +I+KWKWKVK  KK+N E+HSQRCDIELKL+VAR
Sbjct: 507 SGGRLADLVDREDVPLPEEPDAEDEAQIRKWKWKVKGVKKENCERHSQRCDIELKLAVAR 566

Query: 545 KMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLA 604
           KMKDE+GFYYPHNLDFRGRAYPMHPYLNHLGSDLCRG+LEF EG PLGK+GL WLKIHLA
Sbjct: 567 KMKDEDGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGILEFAEGRPLGKSGLRWLKIHLA 626

Query: 605 NLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEAL 664
           N+Y GGVDKLSYEGRVAF+ENH++DIFDSA+RPLEG+RWWLGAEDPFQCLATCIN++EAL
Sbjct: 627 NVYGGGVDKLSYEGRVAFSENHVEDIFDSAERPLEGKRWWLGAEDPFQCLATCINIAEAL 686

Query: 665 RSPSPESTISHIPVH 679
           RSPSPE+ IS++P+H
Sbjct: 687 RSPSPETAISYMPIH 701
DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
Nicotiana sylvestris (taxid: 4096)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6
>sp|Q8L6J5|RPO1B_TOBAC DNA-directed RNA polymerase 1B, mitochondrial OS=Nicotiana tabacum GN=RPOT1-TOM PE=2 SV=2 Back     alignment and function description
>sp|P92969|RPOT1_ARATH DNA-directed RNA polymerase 1, mitochondrial OS=Arabidopsis thaliana GN=RPOT1 PE=2 SV=1 Back     alignment and function description
>sp|Q8L6J3|RPO2B_TOBAC DNA-directed RNA polymerase 2B, chloroplastic/mitochondrial OS=Nicotiana tabacum GN=RPOT2-TOM PE=2 SV=2 Back     alignment and function description
>sp|Q8VWF8|RPOT2_NICSY DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Nicotiana sylvestris GN=RPOT2 PE=2 SV=2 Back     alignment and function description
>sp|Q9LFV6|RPOT2_ARATH DNA-directed RNA polymerase 2, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=RPOT2 PE=1 SV=1 Back     alignment and function description
>sp|P69242|RPOT3_NICSY DNA-directed RNA polymerase 3, chloroplastic OS=Nicotiana sylvestris GN=RPOT3 PE=2 SV=1 Back     alignment and function description
>sp|P69243|RPO3A_TOBAC DNA-directed RNA polymerase 3A, chloroplastic OS=Nicotiana tabacum GN=RPOT3-SYL PE=3 SV=1 Back     alignment and function description
>sp|O24600|RPOT3_ARATH DNA-directed RNA polymerase 3, chloroplastic OS=Arabidopsis thaliana GN=RPOT3 PE=2 SV=1 Back     alignment and function description
>sp|Q8L6J1|RPO3B_TOBAC DNA-directed RNA polymerase 3B, chloroplastic OS=Nicotiana tabacum GN=RPOT3-TOM PE=2 SV=2 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 ?
Query686
225425009 978 PREDICTED: DNA-directed RNA polymerase 1 0.966 0.677 0.686 0.0
449435282 968 PREDICTED: DNA-directed RNA polymerase 2 0.957 0.678 0.636 0.0
255547027 997 DNA-directed RNA polymerase 2, chloropla 0.989 0.681 0.670 0.0
224111836 852 predicted protein [Populus trichocarpa] 0.795 0.640 0.755 0.0
224099265 877 predicted protein [Populus trichocarpa] 0.807 0.631 0.737 0.0
15823750 1002 T7 bacteriophage-type single subunit RNA 0.956 0.654 0.657 0.0
225451858 1035 PREDICTED: DNA-directed RNA polymerase 2 0.976 0.647 0.632 0.0
21425663 1002 mitochondrial RNA polymerase [Nicotiana 0.956 0.654 0.662 0.0
34925359 1002 RecName: Full=DNA-directed RNA polymeras 0.956 0.654 0.660 0.0
88933965 1002 RecName: Full=DNA-directed RNA polymeras 0.970 0.664 0.630 0.0
>gi|225425009|ref|XP_002267464.1| PREDICTED: DNA-directed RNA polymerase 1, mitochondrial [Vitis vinifera] Back     alignment and taxonomy information
 Score =  955 bits (2469), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 476/693 (68%), Positives = 554/693 (79%), Gaps = 30/693 (4%)

Query: 1   MWRNLARQSSTRNFKFSPS-------KVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTS 53
           MWRNLA+ + TR  + S           +    F  K  +LE+Q  ++S  P+ G RR  
Sbjct: 1   MWRNLAKHAYTRRLQLSSQHSSFSPSNCTSRFYFPDKARALESQDHVNSLRPVAGLRRIG 60

Query: 54  FLSSQKSNLGQSNFTQSIYP---FGVLT-SRSYASAAEAIASESELSGSEEVQELIDQFN 109
            LS Q+  LG+  F  +  P   FG+    + YASAAEAIASE ++SG +EVQEL+++ N
Sbjct: 61  VLSFQQDELGRPGFGVTKTPVNFFGLFGYQKGYASAAEAIASEEDMSGVDEVQELVEEVN 120

Query: 110 EKGVSILDSSSMLDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCE 169
           +           L+KQPK  G G+   K+ +L+RRQIK+ETEAWE+AAKEY++LL+DMCE
Sbjct: 121 K--------GDKLEKQPKLIG-GVAQGKHNVLRRRQIKMETEAWEEAAKEYRELLSDMCE 171

Query: 170 QKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHK 229
           QKLAPNLPY+KSLFLGWFEPLRD IA +Q   +       YAPYF++LPADMMAVITMHK
Sbjct: 172 QKLAPNLPYIKSLFLGWFEPLRDVIAAEQDLCKQGKNRAAYAPYFDHLPADMMAVITMHK 231

Query: 230 LVGLLMTNAGE--VRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTND 287
           L+GLLMT  G    RVVQAAC IGEAIE+E RIQ F + TKKK+A+ NN +G S P+T  
Sbjct: 232 LMGLLMTGEGNGSARVVQAACHIGEAIEHEVRIQRFMEKTKKKSASSNNPDGGSNPVT-- 289

Query: 288 PEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETA 347
                KEQEKL+K+V+ L+KKQKLQQVR IVK   DSKPWGQDA VKVG RLI+LL+ETA
Sbjct: 290 -----KEQEKLRKKVSMLMKKQKLQQVRQIVKRQDDSKPWGQDANVKVGSRLIELLIETA 344

Query: 348 YIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKG-RRYGVIECDPLVRKGLEKTGRHMII 406
           YIQPP DQLGD PPDIRPAFVHTLK+  KE  KG RRYGVIECDPLVRKGLEKT RHM+I
Sbjct: 345 YIQPPADQLGDGPPDIRPAFVHTLKTVIKETQKGTRRYGVIECDPLVRKGLEKTARHMVI 404

Query: 407 PYMPMLVPPLNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGS 466
           PYMPMLVPPLNW GY++G + FLPSYVMR HGARQQRE IK  PR  LEP F+AL+TLG+
Sbjct: 405 PYMPMLVPPLNWTGYDKGAYLFLPSYVMRIHGARQQREAIKRAPRKALEPAFEALNTLGN 464

Query: 467 TKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQN 526
           TKWR+NKR+LGVIDR+WASGG LA LVD+EDVPLPE+P+T+DE EI+KWKWKV++ KK+N
Sbjct: 465 TKWRINKRVLGVIDRIWASGGRLADLVDREDVPLPEEPDTEDEAEIRKWKWKVRSVKKEN 524

Query: 527 SEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFE 586
           SE+HSQRCDIELKL+VARKMKDE+GF+YPHNLDFRGRAYPMHPYLNHLGSDLCRG+LEF 
Sbjct: 525 SERHSQRCDIELKLAVARKMKDEDGFFYPHNLDFRGRAYPMHPYLNHLGSDLCRGILEFA 584

Query: 587 EGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLG 646
           EG PLGK+GL WLKIHLAN+YAGGVDKLSYEGRVAFTENHL+DIFDSADRPLEGRRWWL 
Sbjct: 585 EGRPLGKSGLRWLKIHLANVYAGGVDKLSYEGRVAFTENHLEDIFDSADRPLEGRRWWLS 644

Query: 647 AEDPFQCLATCINLSEALRSPSPESTISHIPVH 679
           AEDPFQCLATCINLSEALRS SPE+TISH+PVH
Sbjct: 645 AEDPFQCLATCINLSEALRSSSPETTISHMPVH 677

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449435282|ref|XP_004135424.1| PREDICTED: DNA-directed RNA polymerase 2, chloroplastic/mitochondrial-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255547027|ref|XP_002514571.1| DNA-directed RNA polymerase 2, chloroplast/mitochondrial precursor, putative [Ricinus communis] gi|223546175|gb|EEF47677.1| DNA-directed RNA polymerase 2, chloroplast/mitochondrial precursor, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224111836|ref|XP_002315996.1| predicted protein [Populus trichocarpa] gi|222865036|gb|EEF02167.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224099265|ref|XP_002311418.1| predicted protein [Populus trichocarpa] gi|222851238|gb|EEE88785.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|15823750|dbj|BAB69063.1| T7 bacteriophage-type single subunit RNA polymerase [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|225451858|ref|XP_002278535.1| PREDICTED: DNA-directed RNA polymerase 2, chloroplastic/mitochondrial [Vitis vinifera] gi|298204431|emb|CBI16911.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|21425663|emb|CAC95019.1| mitochondrial RNA polymerase [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|34925359|sp|Q93Y94.1|RPOT1_NICSY RecName: Full=DNA-directed RNA polymerase 1, mitochondrial; AltName: Full=NsRpoT-A; AltName: Full=T7 bacteriophage-type single subunit RNA polymerase 1; Flags: Precursor gi|15824083|dbj|BAB69431.1| T7 bacteriophage-type single subunit RNA polymerase [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|88933965|sp|Q8L6J5.2|RPO1B_TOBAC RecName: Full=DNA-directed RNA polymerase 1B, mitochondrial; AltName: Full=NictaRpoT1-tom; AltName: Full=T7 bacteriophage-type single subunit RNA polymerase 1B; Flags: Precursor 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 ?
Query686
UNIPROTKB|Q93Y94 1002 RPOT1 "DNA-directed RNA polyme 0.956 0.654 0.623 7.1e-226
UNIPROTKB|Q8VWF8 1020 RPOT2 "DNA-directed RNA polyme 0.979 0.658 0.565 4.9e-204
UNIPROTKB|P69242 977 RPOT3 "DNA-directed RNA polyme 0.775 0.544 0.590 9.3e-178
TAIR|locus:2047515 993 SCA3 "SCABRA 3" [Arabidopsis t 0.797 0.550 0.560 7.7e-174
POMBASE|SPAC26H5.12 1154 rpo41 "mitochondrial RNA polym 0.750 0.446 0.318 1.7e-67
DICTYBASE|DDB_G0267416 950 rpmA "DNA-dependent RNA polyme 0.526 0.38 0.358 2e-63
ASPGD|ASPL0000068622 1391 AN7609 [Emericella nidulans (t 0.510 0.251 0.372 2.7e-63
SGD|S000001858 1351 RPO41 "Mitochondrial RNA polym 0.498 0.253 0.380 4.9e-63
UNIPROTKB|F1PCF7 1221 POLRMT "DNA-directed RNA polym 0.504 0.283 0.361 1.9e-58
CGD|CAL0005126 1300 RPO41 [Candida albicans (taxid 0.527 0.278 0.348 2.2e-58
UNIPROTKB|Q93Y94 RPOT1 "DNA-directed RNA polymerase 1, mitochondrial" [Nicotiana sylvestris (taxid:4096)] Back     alignment and assigned GO terms
 Score = 2153 (763.0 bits), Expect = 7.1e-226, Sum P(2) = 7.1e-226
 Identities = 421/675 (62%), Positives = 499/675 (73%)

Query:     8 QSSTRNFKFSPSKVSQTTNFLKKITSLETQTLLDSSCPLLGFRRTSFLSSQKSNLGQSNF 67
             + ST N     S+ S  +   +K+  LE      S  P LG  + S  SS K +      
Sbjct:    43 EESTTNPNLGLSQNSIFSRISRKVRHLEGICEESSKNPHLGLSQNSLFSSVKGDFRVCGK 102

Query:    68 TQSIYPFGVLTXXXXXXXXXXXXXXXXXXXXXXVQELIDQFNEKGVSILDSSSMLDKQPK 127
               S    G L                       +QELI++ N++  ++   +++  KQPK
Sbjct:   103 RGS----GSLGFLRSYGSAAEAIASTSEEDIDEIQELIEEMNKENEAL--KTNLQPKQPK 156

Query:   128 KKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWF 187
               G GMG  KY +L+RRQIK+ETEAWE+AAKEYQ+LL DMCEQKLAPNLPY+KSLFLGWF
Sbjct:   157 TIG-GMGVGKYNLLRRRQIKVETEAWEEAAKEYQELLMDMCEQKLAPNLPYMKSLFLGWF 215

Query:   188 EPLRDAIAKDQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAG--EVRVVQ 245
             EPLRDAIA +Q    +      YAP+F+ LPA+MMAVITMHKL+GLLMT  G    RVVQ
Sbjct:   216 EPLRDAIAAEQKLCDEGKNRGAYAPFFDQLPAEMMAVITMHKLMGLLMTGGGTGSARVVQ 275

Query:   246 AACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPXXXXXXXXXXXXRVTSL 305
             AA  IGEAIE+EARI  F + TKK NA    L GD E   + P            +V  L
Sbjct:   276 AASHIGEAIEHEARIHRFLEKTKKSNA----LSGDLE---DTPGDIMKERERVRKKVKIL 328

Query:   306 IKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRP 365
             +KKQKLQQVR IVK   D KPWGQD LVKVGCRLIQ+LMETAYIQPP DQL D PPDIRP
Sbjct:   329 MKKQKLQQVRKIVKQQDDEKPWGQDNLVKVGCRLIQILMETAYIQPPNDQLDDCPPDIRP 388

Query:   366 AFVHTLKSFTKEALKG-RRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRG 424
             AFVHTLK  T E +KG RRYGVI+CDPLVRKGL+KT RHM+IPYMPMLVPP +W GY++G
Sbjct:   389 AFVHTLK--TVETMKGSRRYGVIQCDPLVRKGLDKTARHMVIPYMPMLVPPQSWLGYDKG 446

Query:   425 GHFFLPSYVMRTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWA 484
              + FLPSY+MRTHGA+QQRE +K  P+ QLEPVFQALDTLG+TKWR+N+++LG++DR+WA
Sbjct:   447 AYLFLPSYIMRTHGAKQQREAVKRVPKKQLEPVFQALDTLGNTKWRLNRKVLGIVDRIWA 506

Query:   485 SGGCLAGLVDQEDVPLPEKPNTDDETEIXXXXXXXXXXXXQNSEKHSQRCDIELKLSVAR 544
             SGG LA LVD+EDVPLPE+P+ +DE +I            +N E+HSQRCDIELKL+VAR
Sbjct:   507 SGGRLADLVDREDVPLPEEPDAEDEAQIRKWKWKVKGVKKENCERHSQRCDIELKLAVAR 566

Query:   545 KMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLA 604
             KMKDE+GFYYPHNLDFRGRAYPMHPYLNHLGSDLCRG+LEF EG PLGK+GL WLKIHLA
Sbjct:   567 KMKDEDGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGILEFAEGRPLGKSGLRWLKIHLA 626

Query:   605 NLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEAL 664
             N+Y GGVDKLSYEGRVAF+ENH++DIFDSA+RPLEG+RWWLGAEDPFQCLATCIN++EAL
Sbjct:   627 NVYGGGVDKLSYEGRVAFSENHVEDIFDSAERPLEGKRWWLGAEDPFQCLATCINIAEAL 686

Query:   665 RSPSPESTISHIPVH 679
             RSPSPE+ IS++P+H
Sbjct:   687 RSPSPETAISYMPIH 701
GO:0005739 "mitochondrion" evidence=IDA
UNIPROTKB|Q8VWF8 RPOT2 "DNA-directed RNA polymerase 2, chloroplastic/mitochondrial" [Nicotiana sylvestris (taxid:4096)] Back     alignment and assigned GO terms
UNIPROTKB|P69242 RPOT3 "DNA-directed RNA polymerase 3, chloroplastic" [Nicotiana sylvestris (taxid:4096)] Back     alignment and assigned GO terms
TAIR|locus:2047515 SCA3 "SCABRA 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
POMBASE|SPAC26H5.12 rpo41 "mitochondrial RNA polymerase Rpo41" [Schizosaccharomyces pombe (taxid:4896)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267416 rpmA "DNA-dependent RNA polymerase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
ASPGD|ASPL0000068622 AN7609 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
SGD|S000001858 RPO41 "Mitochondrial RNA polymerase" [Saccharomyces cerevisiae (taxid:4932)] Back     alignment and assigned GO terms
UNIPROTKB|F1PCF7 POLRMT "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
CGD|CAL0005126 RPO41 [Candida albicans (taxid:5476)] 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) ?
P92969RPOT1_ARATH2, ., 7, ., 7, ., 60.59730.97080.6823yesno

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 Layer2.7.70.921
4th Layer2.7.7.60.914

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00021161001
RecName- Full=DNA-directed RNA polymerase; EC=2.7.7.6;; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates (By similarity) (978 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query686
COG5108 1117 COG5108, RPO41, Mitochondrial DNA-directed RNA pol 2e-97
PHA00452 807 PHA00452, PHA00452, T3/T7-like RNA polymerase 2e-82
pfam00940 394 pfam00940, RNA_pol, DNA-dependent RNA polymerase 1e-38
>gnl|CDD|227439 COG5108, RPO41, Mitochondrial DNA-directed RNA polymerase [Transcription] Back     alignment and domain information 
 Score =  323 bits (830), Expect = 2e-97
 Identities = 161/569 (28%), Positives = 255/569 (44%), Gaps = 63/569 (11%)

Query: 135 TAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPY-VKSLFLGWFEPLRDA 193
           T +   L++  I +  E W+   + +        E++   N     ++  L W+  +   
Sbjct: 250 TERQKWLEKSAIALAEEMWKAGIERF--------EKRGEKNREKNAEASNLSWYRMIIHL 301

Query: 194 IAK----------DQATAQDKWKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGE--V 241
             +           +A+     K +TY PY      D +A +T+ +L  L+     +  +
Sbjct: 302 HKEEIAGLLEALLAEASLGKAGKRLTYGPYLKLADLDKVAHLTIRELFDLVSMRRYDRGM 361

Query: 242 RVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKR 301
           R+   + ++G  +E+E   + F    K                   PE+           
Sbjct: 362 RLTPLSIRLGAMVEDEFFSEQFKGHEKDAYEDARK---------KIPEQF----HNAVHN 408

Query: 302 VTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQL--GDS 359
             S+ +  K +              W QD   KVG   + LL+  A I+  +  +    +
Sbjct: 409 KRSMTRHAKHKGAE------WQD--WPQDIKAKVGSVALCLLLSVAKIEVKLIDIATEQT 460

Query: 360 PPDIRPAFVHTLKSFTKEALKGRRYGVI----ECDPLVRKGLEKTGRHMIIPYMPMLVPP 415
                 AF H+      +   G + GV+      D L+ +        +    +PMLVPP
Sbjct: 461 LKGEFEAFRHS-----YQYHNGTKIGVVATHETLDWLLTENSRLA--PLSPQLLPMLVPP 513

Query: 416 LNWRGYNRGGHFFLPSYVMRTHGARQQRETIKMTPRS-QLEPVFQALDTLGSTKWRVNKR 474
             W  + RGG+++    ++R     +Q   + M   +  ++ V+ +++ LG+T W +N R
Sbjct: 514 KPWTSWFRGGYWYGRVRLLRLKKTGEQVRYLLMASENGDMDKVYHSINALGNTAWSINHR 573

Query: 475 ILGVIDRMWASGG---CLAGLVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHS 531
           +  V+  +W +G    C+    D    P P         E  +WK + KT  + N+   S
Sbjct: 574 VFEVMASLWNNGETFLCIPQADDMWLAP-PMPREDMSPEEFSRWKSERKTIAEANARAVS 632

Query: 532 QRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPL 591
           +RCD   KL +AR   DE+ FY+PH LDFRGRAYP+  +LNH G+D  RG+L+F  G PL
Sbjct: 633 KRCDFNYKLEIARAFLDEK-FYFPHQLDFRGRAYPLSLHLNHQGNDASRGLLQFANGKPL 691

Query: 592 GKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPF 651
           G  GL WLKIHLANL+  GVDK S   RVAF   +  +I DSA+ PL+G RWWL A+ P+
Sbjct: 692 GPEGLDWLKIHLANLF--GVDKCSMNERVAFVMANQQEILDSAENPLDGNRWWLTADKPW 749

Query: 652 QCLATCINLSEALRSPSPESTISHIPVHM 680
           Q LA C    E +     E+ ISH+PV  
Sbjct: 750 QALAFCFEWQEYVAEGDHEAFISHLPVQQ 778

Length = 1117
>gnl|CDD|222797 PHA00452, PHA00452, T3/T7-like RNA polymerase Back     alignment and domain information
>gnl|CDD|216207 pfam00940, RNA_pol, DNA-dependent RNA polymerase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 686
KOG1038 1088 consensus Mitochondrial/chloroplast DNA-directed R 100.0
PHA00452 807 T3/T7-like RNA polymerase 100.0
COG5108 1117 RPO41 Mitochondrial DNA-directed RNA polymerase [T 100.0
PF14700318 RPOL_N: DNA-directed RNA polymerase N-terminal; PD 100.0
PF00940 405 RNA_pol: DNA-dependent RNA polymerase; InterPro: I 100.0
>KOG1038 consensus Mitochondrial/chloroplast DNA-directed RNA polymerase RPO41, provides primers for DNA replication-initiation [Transcription; Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=8.6e-151  Score=1262.74  Aligned_cols=624  Identities=55%  Similarity=0.924  Sum_probs=559.8

Q ss_pred             cCCCCCCccccccccccccccccCCCCCccCCCCccccccccccchhhhhhc---ccccCchHHHHHHHHHHHhhcccc-
Q 005638           40 LDSSCPLLGFRRTSFLSSQKSNLGQSNFTQSIYPFGVLTSRSYASAAEAIAS---ESELSGSEEVQELIDQFNEKGVSI-  115 (686)
Q Consensus        40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~-  115 (686)
                      ..++++..|+++..+++-.|      +|.+...+.+| ..+||+-+++..-+   +.+++..+++.+++++|.++.... 
T Consensus       146 ~~~p~~~~~~~~~~~l~~~n------sF~~~~~~l~G-~~~g~s~a~e~~~~~~~~~~s~~~~~~~~~~~~m~ke~~~~~  218 (1088)
T KOG1038|consen  146 LVSPEHVRGIRQLLGLNNIN------SFPHSSEVLSG-LIKGSSLAGESENPTDQEGDSSNKQEINELVTKMEKEGNSLN  218 (1088)
T ss_pred             ccCchhhhhhHHhhccchhh------cccchhhhhhc-ccccchHHHHHhCcccccccccchhhHHHHHhHhhhhhhhhh
Confidence            35677788888888877666      45566666666 67888444455444   334445789999999999988431 


Q ss_pred             ----ccccccccccccccccCCChH-HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhcccCCCChh-HHHHHHHHHH
Q 005638          116 ----LDSSSMLDKQPKKKGTGMGTA-KYYMLKRRQIKIETEAWEQAAKEYQ-DLLADMCEQKLAPNLPY-VKSLFLGWFE  188 (686)
Q Consensus       116 ----~~~~~~~~~~~~~~~~~~~~~-~~~~l~eRQ~~lE~~a~~~a~~r~r-~~~~~~~~~g~a~~~p~-~~~ll~~W~~  188 (686)
                          .......+...+.+..++|.. +|-.+.+||..+|+++|++|+++|+ ++..+||+..+++++|| +++++++||+
T Consensus       219 ~~~~~~~~~~~~~~lk~v~k~~~~~~d~~~l~~Rq~~~e~~~~e~a~e~~k~el~~~~c~~~l~~~lp~~lk~lf~~W~~  298 (1088)
T KOG1038|consen  219 QISSKFLEESRDLPLKAVRKGFGDFKDFFNLDRRQVKLETEAWERAAEEWKIELESDMCEGSLAPNLPYNLKSLFLGWFK  298 (1088)
T ss_pred             HHHHHHHHHHhcccHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhhhcccccchHHHHHHHHHHH
Confidence                122222234445677788877 8999999999999999999999999 88899999999999999 9999999999


Q ss_pred             HHHHHHHHHHHHhhhc--cCccccccccccCCchhHHHHHHHHHHHHHhcCC--CCchHHHHHHHHHHHHHHHHHHHHHH
Q 005638          189 PLRDAIAKDQATAQDK--WKHMTYAPYFNNLPADMMAVITMHKLVGLLMTNA--GEVRVVQAACQIGEAIENEARIQSFF  264 (686)
Q Consensus       189 ~L~~~I~~e~~~~~~~--~~r~~y~p~L~~l~pe~lA~Iti~~~l~~l~~~~--~~~~v~~la~~IG~aVE~E~~~~~~~  264 (686)
                      +|+++|++|++.++..  +.|..|+|||++||++++|+|||+++|+++|+|+  +++++++++.+||++||+|+|++.++
T Consensus       299 ~l~~ai~ee~n~~r~~~~~~r~~Y~p~L~lL~a~k~aviti~el~~ll~tg~~~~~~~v~~aa~~~G~aveqe~ri~~~l  378 (1088)
T KOG1038|consen  299 PLRDAIKEEINLLRALVRKGRLNYAPFLKLLDADKMAVITIHELMGLLMTGGETGGVRVVQAAKSLGRAVEQEFRIEQFL  378 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHhcCccccchHHHhcChhhHHHHHHHHHHhhhccCCCccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998875  8899999999999999999999999999999987  89999999999999999999999998


Q ss_pred             HhhhhcccCCCCCCCCCCCCCCChHHhHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCCCCCCCHHHHHHHHHHHHHHHH
Q 005638          265 KSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLM  344 (686)
Q Consensus       265 ~~~kk~~~~~~~~~~~~~~l~~~~~~~~k~~~~lrk~~~~l~k~~~~~~~~~~~~~~~~~~~W~~~~~~kVG~~Li~~L~  344 (686)
                      ++..|++...             .....++....+++++.++++.++.+....+..+....+|+..++++||++|+++||
T Consensus       379 q~~~k~~~~~-------------~~~~~ke~~~~~~~v~~l~~~~k~~~~~~~~~~~~~~~pWp~~v~~kvGs~L~~lL~  445 (1088)
T KOG1038|consen  379 QRKTKNKAGD-------------SYCELKELGKSRKEVRQLVQNLKLSQRLSGPESHLSEKPWPSAVQAKVGSRLIELLM  445 (1088)
T ss_pred             HHHhhcccch-------------HHHHHHHhhcccHHHHHHHHHHHHHHHhcccccccccCCccHHHHHHHHHHHHHHHH
Confidence            8754333221             112235667778889999998888888877777677889999999999999999999


Q ss_pred             HHccccCCCCCCCCCCCCccCceEEEeeeeeecccCCeEEEEEEeCHHHHHHHHhccccccCCCCceeeCCcCcccCCCc
Q 005638          345 ETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRG  424 (686)
Q Consensus       345 ~~~~i~~~~~~~~~~~~~~~PAF~h~~~~~~~~~~~~k~~gvi~~~~~v~~~l~~~~~~~~~~~lPMlvpPkpW~~~~~G  424 (686)
                      ++++|+++.++..++.++.+|||+|+|+ +.+..+.+++||+|+|||.+..+|++.+.++.++++||||||+||+++++|
T Consensus       446 ~~aki~~~~~~~~~~~~~~~paf~h~f~-~~n~~~~~~~~g~ie~~pll~r~leks~~~~~~~~vPMLvpPkpWt~~~~G  524 (1088)
T KOG1038|consen  446 QVAKIQVPADQPDTKLPDERPAFVHTFQ-VTNGQKGGRKYGVIECHPLLSRGLEKSALHFVPPLVPMLVPPKPWTGYDSG  524 (1088)
T ss_pred             HHhcCCCcccCcCcCccccchhhhhhee-eecccccceeeeeeecCHHHHHHhhhhhccccccccccccCCCCCCCCCCC
Confidence            9999999999988889999999999999 444444588999999999999999999989999999999999999999999


Q ss_pred             cccccCcceeecCcchhhHHHH-HcCCCCChhHHHHHHHhhcCccceechhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 005638          425 GHFFLPSYVMRTHGARQQRETI-KMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAGLVDQEDVPLPEK  503 (686)
Q Consensus       425 GYL~~~~~l~R~~~~~~q~~~l-~~~~~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~~g~~i~~l~~~~~~p~P~~  503 (686)
                      |||++|+++||++++++|..|+ ++.+.+++++||+|||.||+||||||++||||+.++|++||.+.++|++.+.|+|++
T Consensus       525 gyl~~~s~lmRt~g~~~Q~~~llkas~~~~l~~v~daL~~LG~t~WrVN~rvldvV~riw~~Gg~~~~~v~r~~~~lP~~  604 (1088)
T KOG1038|consen  525 GYLFLPSYLMRTHGAKEQVDYLLKASPPGQLDPVFDALDTLGNTKWRVNRRVLDVVIRIWQNGGCFLLIVPREDVPLPPK  604 (1088)
T ss_pred             ceEecchhhhhcCCcHHHHHHHHhcCChhhhHHHHHHHHHhcCCCeeecchHHHHHHHHHhcCCCccCCCCCCCCCCCCC
Confidence            9999999999999999999865 455788999999999999999999999999999999999999999999999999999


Q ss_pred             C-CCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhh
Q 005638          504 P-NTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGV  582 (686)
Q Consensus       504 p-~~~d~~~~~~wk~~~~~~~~~~~~~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsL  582 (686)
                      | ..+|+++++.|+++.+.+.+.++++||+|||++|+|+||++|+|+ .||||||||||||+||+||||||+|||+||||
T Consensus       605 P~~s~dp~~~~~wk~e~k~~~k~~~e~HS~RCD~~ykLsvAr~~~de-~Fy~PHNmDFRGRaYP~~PHlNHLgsDlcRgl  683 (1088)
T KOG1038|consen  605 PTLSEDPAELKAWKWEVKKAQKVNRERHSLRCDAEYKLSVARKMKDE-EFYYPHNMDFRGRAYPLPPHLNHLGSDLCRGL  683 (1088)
T ss_pred             CCCCcChHHHHHhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhccC-eeecCcccCcCCccCCCCchhcccchHHHHHH
Confidence            9 678999999999999999999999999999999999999999998 59999999999999999999999999999999


Q ss_pred             eecccCCcCchhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHH
Q 005638          583 LEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSE  662 (686)
Q Consensus       583 L~FaegkpLG~~Gl~WLkIhlAN~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~  662 (686)
                      |+||+|||||.+||+|||||+||+|| |+||+|+++|++|+++|+++|+|||++||+|++||++|||||||||+||||++
T Consensus       684 LeF~~GkPLG~sGL~WLKIHlaNL~~-g~~kl~~~~RlAF~E~hl~DI~DSAd~PLtG~rWW~~AedPfQ~LA~C~elae  762 (1088)
T KOG1038|consen  684 LEFAEGKPLGPSGLRWLKIHLANLYA-GVDKLSLRDRLAFTEEHLDDIFDSADRPLTGRRWWLKAEDPFQCLAACMELAE  762 (1088)
T ss_pred             HHHhcCCcCCccchhHHHHHHHHHhc-ccccccHHHHHHHHHHHHHHHhhcccCCCcccchhhcCCChHHHHHHHHHHHH
Confidence            99999999999999999999999997 99999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCCCCCccccCCcccccCCCC
Q 005638          663 ALRSPSPESTISHIPVHMVFSVFT  686 (686)
Q Consensus       663 a~~s~~P~~y~S~lPVhqDGSCsg  686 (686)
                      |++++||+.|+|||||||||||||
T Consensus       763 a~RspdPeayiSH~PIHQDGSCNG  786 (1088)
T KOG1038|consen  763 ALRSPDPEAYISHIPIHQDGSCNG  786 (1088)
T ss_pred             HHcCCCHHHHHhcCCcccCCCcch
Confidence            999999999999999999999998

>PHA00452 T3/T7-like RNA polymerase Back     alignment and domain information
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription] Back     alignment and domain information
>PF14700 RPOL_N: DNA-directed RNA polymerase N-terminal; PDB: 3SPA_A 1CEZ_A 1H38_B 1S77_D 1QLN_A 1S0V_D 3E2E_A 2PI4_A 3E3J_B 1S76_D Back     alignment and domain information
>PF00940 RNA_pol: DNA-dependent RNA polymerase; InterPro: IPR002092 DNA-directed RNA polymerases 2 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 ?
Query686
3spa_A 1134 Crystal Structure Of Human Mitochondrial Rna Polyme 1e-57
2pi4_A 878 T7rnap Complexed With A Phi10 Protein And Initiatin 7e-35
4rnp_A 883 Bacteriophage T7 Rna Polymerase, High Salt Crystal 7e-35
3e2e_A 889 Crystal Structure Of An Intermediate Complex Of T7 2e-34
1aro_P 883 T7 Rna Polymerase Complexed With T7 Lysozyme Length 2e-34
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase Length = 1134 Back     alignment and structure 
Iteration: 1

 Score =  221 bits (562), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 128/364 (35%), Positives = 195/364 (53%), Gaps = 17/364 (4%)
Query: 325 KPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRY 384
           +PW     +++G  L ++L++   +   +D+   S   + P   H   SF       ++ 
Sbjct: 469 QPWPLPVQMELGKLLAEMLVQATQMPCSLDKPHRSS-RLVPVLYHVY-SFRNV----QQI 522
Query: 385 GVIECDPLVRKGLEKTGRHMII---PYMPMLVPPLNWRGYNRGGHFFLPSYVMRT-HGAR 440
           G+++  P   + LEK     +      +PML PPL W   + G     P+ +MRT  GA 
Sbjct: 523 GILKPHPAYVQLLEKAAEPTLTFEAVDVPMLCPPLPWTSPHSGAFLLSPTKLMRTVEGAT 582
Query: 441 QQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGC--LAGLVDQEDV 498
           Q +E ++  P + L     AL  LG+  WRVN R+L ++ +++ + GC  L       + 
Sbjct: 583 QHQELLETCPPTALHGALDALTQLGNCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEA 642
Query: 499 PLPEK---PNTDDETEIXXXXXXXXXXXXQNSEKHSQRCDIELKLSVARKMKDEEGFYYP 555
           P P +   P++                     E HS R +   +LS+A+ ++D   F+ P
Sbjct: 643 PQPPEAHLPHSAAPARKAELRRELAHCQKVAREMHSLRAEALYRLSLAQHLRDRV-FWLP 701
Query: 556 HNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLS 615
           HN+DFRGR YP  P+ NHLGSD+ R +LEF +G PLG  GL WLKIHL NL  G   +  
Sbjct: 702 HNMDFRGRTYPCPPHFNHLGSDVARALLEFAQGRPLGPHGLDWLKIHLVNL-TGLKKREP 760
Query: 616 YEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISH 675
              R+AF E  +DDI DSAD+PL GR+WW+GAE+P+Q LA C+ ++ A+R+  P + +SH
Sbjct: 761 LRKRLAFAEEVMDDILDSADQPLTGRKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSH 820
Query: 676 IPVH 679
           +PVH
Sbjct: 821 LPVH 824
>pdb|2PI4|A Chain A, T7rnap Complexed With A Phi10 Protein And Initiating Gtps. Length = 878 Back     alignment and structure
>pdb|4RNP|A Chain A, Bacteriophage T7 Rna Polymerase, High Salt Crystal Form, Low Temperature Data, Alpha-Carbons Only Length = 883 Back     alignment and structure
>pdb|3E2E|A Chain A, Crystal Structure Of An Intermediate Complex Of T7 Rnap And 7nt Of Rna Length = 889 Back     alignment and structure
>pdb|1ARO|P Chain P, T7 Rna Polymerase Complexed With T7 Lysozyme Length = 883 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 ?
Query686
3spa_A 1134 Mtrpol, DNA-directed RNA polymerase, mitochondrial 1e-100
1msw_D 883 DNA-directed RNA polymerase, bacteriophage T7 RNA; 3e-80
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 8e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-04
>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134 Back     alignment and structure
 Score =  332 bits (850), Expect = e-100
 Identities = 147/580 (25%), Positives = 252/580 (43%), Gaps = 43/580 (7%)

Query: 114 SILDSSSMLDKQPKKKGTGMGTAKYYMLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLA 173
            +L      D +       +       L  +Q+ +E  A        +       E K A
Sbjct: 276 KLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHME-LASRVCVVSVEKPTLPSKEVKHA 334

Query: 174 PNLPYVKSLFLGWFEPLRDAIAKDQATAQDKWK--HMTYAPYFNNLPADMMAVITMHKLV 231
                +K+L   W + L  A+ + +   + +      +  P+   L    +  + +  L 
Sbjct: 335 RK--TLKTLRDQWEKALCRALRETKNRLEREVYEGRFSLYPFLCLLDEREVVRMLLQVLQ 392

Query: 232 GLLMTNA--GEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPE 289
            L         +    +A      +    R+    ++ +                     
Sbjct: 393 ALPAQGESFTTLARELSARTFSRHVVQRQRVSGQVQALQN-----------------HYR 435

Query: 290 KLIKEQEKLKKRVTSLIKKQKLQQVRGIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYI 349
           K +       +     + +Q  + +       +  +PW     +++G  L ++L++   +
Sbjct: 436 KYLCLLASDAEVPEPCLPRQYWEAL--GAPEALREQPWPLPVQMELGKLLAEMLVQATQM 493

Query: 350 QPPVDQLGDSPPDIRPAFVHTLKSFTKEALKGRRYGVIECDPLVRKGLEKTGRHMII--- 406
              +D+       + P   H            ++ G+++  P   + LEK     +    
Sbjct: 494 PCSLDK-PHRSSRLVPVLYHVYSFR-----NVQQIGILKPHPAYVQLLEKAAEPTLTFEA 547

Query: 407 PYMPMLVPPLNWRGYNRGGHFFLPSYVMRT-HGARQQRETIKMTPRSQLEPVFQALDTLG 465
             +PML PPL W   + G     P+ +MRT  GA Q +E ++  P + L     AL  LG
Sbjct: 548 VDVPMLCPPLPWTSPHSGAFLLSPTKLMRTVEGATQHQELLETCPPTALHGALDALTQLG 607

Query: 466 STKWRVNKRILGVIDRMWASGGCLAGLV-----DQEDVPLPEKPNTDDETEIKKWKWKVK 520
           +  WRVN R+L ++ +++ + GC    V     +    P    P++       + + ++ 
Sbjct: 608 NCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHSAAPARKAELRRELA 667

Query: 521 TAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCR 580
             +K   E HS R +   +LS+A+ ++D   F+ PHN+DFRGR YP  P+ NHLGSD+ R
Sbjct: 668 HCQKVAREMHSLRAEALYRLSLAQHLRDRV-FWLPHNMDFRGRTYPCPPHFNHLGSDVAR 726

Query: 581 GVLEFEEGHPLGKAGLHWLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEG 640
            +LEF +G PLG  GL WLKIHL NL  G   +     R+AF E  +DDI DSAD+PL G
Sbjct: 727 ALLEFAQGRPLGPHGLDWLKIHLVNLT-GLKKREPLRKRLAFAEEVMDDILDSADQPLTG 785

Query: 641 RRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHM 680
           R+WW+GAE+P+Q LA C+ ++ A+R+  P + +SH+PVH 
Sbjct: 786 RKWWMGAEEPWQTLACCMEVANAVRASDPAAYVSHLPVHQ 825
>1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A 1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A* 3e3j_C* 1aro_P 2pi4_A* 2pi5_A Length = 883 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query686
1msw_D 883 DNA-directed RNA polymerase, bacteriophage T7 RNA; 100.0
3spa_A 1134 Mtrpol, DNA-directed RNA polymerase, mitochondrial 100.0
3q23_A 1118 Virion RNA polymerase; protein-DNA complex; HET: D 95.74
>1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A 1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A* 3e3j_C* 1aro_P 2pi4_A* 2pi5_A Back     alignment and structure
Probab=100.00  E-value=3.6e-120  Score=1061.09  Aligned_cols=499  Identities=26%  Similarity=0.453  Sum_probs=423.5

Q ss_pred             HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHhh-hccCccccccc
Q 005638          136 AKYY-MLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQ-DKWKHMTYAPY  213 (686)
Q Consensus       136 ~~~~-~l~eRQ~~lE~~a~~~a~~r~r~~~~~~~~~g~a~~~p~~~~ll~~W~~~L~~~I~~e~~~~~-~~~~r~~y~p~  213 (686)
                      +.|+ .|++||++||++++++|++||++.+++|+++|+++++|++++++.+|+++|+++|+++++..+ +.+.++.|+||
T Consensus        26 ~~~~~~l~~rQ~~lE~e~~~~a~~r~~~~~~~~~~~g~~~~~~~~~~l~~~~~~~l~~~i~~~~~~~~~~~g~~~~~~~~  105 (883)
T 1msw_D           26 DHYGERLAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRPTAFQF  105 (883)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCGGGSTTTHHHHHHHHHHHHHHHHHHHHHHHHSCSCCCTTTTT
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCChhhHHHHHHHHHHHHHHHHHHHHHHhcccCcchHHHHH
Confidence            3454 568999999999999999999999999999999999999999999999999999999988776 35668999999


Q ss_pred             cccCCchhHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCChHHhHH
Q 005638          214 FNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIK  293 (686)
Q Consensus       214 L~~l~pe~lA~Iti~~~l~~l~~~~~~~~v~~la~~IG~aVE~E~~~~~~~~~~kk~~~~~~~~~~~~~~l~~~~~~~~k  293 (686)
                      |++|+||++|+|||+++|+++++ ++++++++++.+||++||+|++++++.++.++++.+                   +
T Consensus       106 L~~l~~e~lA~iti~~~l~~~~~-~~~~~~~~~~~~iG~ave~E~~~~~~~~~~~~~~~~-------------------~  165 (883)
T 1msw_D          106 LQEIKPEAVAYITIKTTLACLTS-ADNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKK-------------------N  165 (883)
T ss_dssp             TTSSCHHHHHHHHHHHHHHHHHH-CSCCBHHHHHHHHHHHHHHHHHHHHHHHSSCSSHHH-------------------H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhcc-cCCccHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH-------------------H
Confidence            99999999999999999999987 467899999999999999999999988766543221                   0


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-hhhC----CCCCCCCCHHHHHHHHHHHHHHHHHH-ccccCCCCCCCCCCCCccCce
Q 005638          294 EQEKLKKRVTSLIKKQKLQQVRG-IVKG----HVDSKPWGQDALVKVGCRLIQLLMET-AYIQPPVDQLGDSPPDIRPAF  367 (686)
Q Consensus       294 ~~~~lrk~~~~l~k~~~~~~~~~-~~~~----~~~~~~W~~~~~~kVG~~Li~~L~~~-~~i~~~~~~~~~~~~~~~PAF  367 (686)
                      ..+.++++.+...++...+.+.. ..+.    .+++.+|+..++++||++|+++|+++ +.|+++..             
T Consensus       166 ~~~~l~~~~~~~~k~~~~~~~~~~~~~~g~~~~~~~~~W~~~~~~~vG~~Li~~l~~~~~~~~~~~~-------------  232 (883)
T 1msw_D          166 VEEQLNKRVGHVYKKAFMQVVEADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQ-------------  232 (883)
T ss_dssp             TSHHHHHSCSHHHHHHHHHHHHHHSTTTTTTTTCCCCCCCTTHHHHHHHHHHHHHHHHCTTEEEECC-------------
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhhhccccccCCCCCCCHHHHHHHHHHHHHHHHHhhCCcceecc-------------
Confidence            11233333333333333333332 1121    36789999999999999999999995 66654221             


Q ss_pred             EEEeeeeeecccC-CeEEEEEEeCHHHHHHHHhc---cccccCCCCceeeCCcCcccCCCcccccc---CcceeecCcch
Q 005638          368 VHTLKSFTKEALK-GRRYGVIECDPLVRKGLEKT---GRHMIIPYMPMLVPPLNWRGYNRGGHFFL---PSYVMRTHGAR  440 (686)
Q Consensus       368 ~h~~~~~~~~~~~-~k~~gvi~~~~~v~~~l~~~---~~~~~~~~lPMlvpPkpW~~~~~GGYL~~---~~~l~R~~~~~  440 (686)
                               ..++ ++++|+|++||.+++.+.+.   ...+.+.+|||||||+||+++.+||||+.   +..++|++.  
T Consensus       233 ---------~~~~~~k~~~~i~~~~~~~~~l~~~~~~~~~~~~~~lPMlvpP~pW~~~~~GGYl~~~~~~~~~ir~~~--  301 (883)
T 1msw_D          233 ---------NAGVVGQDSETIELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHS--  301 (883)
T ss_dssp             -----------------CCEEEECHHHHHHHHHHHHHHTTSCCCCCCBSSCCBCCSSSBSCBSSSCCSSCCBSEECSS--
T ss_pred             ---------ccCCCCceeeEEEeCHHHHHHHhhcccchhhcCCCCCceeeCCccCCCCCCCCccCCCcccchhhcccC--
Confidence                     1122 57899999999999999763   23455569999999999999999999975   345677653  


Q ss_pred             hhHHHHHcCCCCChhHHHHHHHhhcCccceechhHHHHHHHHHh-cCCCCCCCCCCCCCCCCCCCCCCC--HHHHHHHHH
Q 005638          441 QQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWA-SGGCLAGLVDQEDVPLPEKPNTDD--ETEIKKWKW  517 (686)
Q Consensus       441 ~q~~~l~~~~~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~-~g~~i~~l~~~~~~p~P~~p~~~d--~~~~~~wk~  517 (686)
                        +.++++..+.+++.||++||+||+|||+||++||+||+++|+ +|+++++||+..+.|+|++|++.|  ++++++|++
T Consensus       302 --~~~~~~~~~~~l~~v~~aLN~L~~t~w~IN~~vL~vi~~~~~~~g~~~~~ip~~~~~~~P~~p~~~d~~~~~~~~~k~  379 (883)
T 1msw_D          302 --KKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKPEDIDMNPEALTAWKR  379 (883)
T ss_dssp             --TTHHHHTTTCCCHHHHHHHHHHHTCCEEECHHHHHHHHHHTTCSSCSSTTCCCSSCCCCCCC-----------CCTTH
T ss_pred             --HHHHHhccccchHHHHHHHHHhccCCeEecHHHHHHHHHHHhhcCCcccCCCCcCcCCCCCCCCccccCHHHHHHHHH
Confidence              345666677899999999999999999999999999999999 999999999998899999987644  678899999


Q ss_pred             HHHHHHHHHhhhhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhheecccCCcCchhhHH
Q 005638          518 KVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLH  597 (686)
Q Consensus       518 ~~~~~~~~~~~~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsLL~FaegkpLG~~Gl~  597 (686)
                      .++.+++.++++||+||+++++|+||++|+|++.||||||+|||||+||+| ||||||+|+|||||+||+|+|||++||+
T Consensus       380 ~~~~~~~~~~~~~S~r~~~~~~L~iA~~f~~~~~fYfPhnlDFRGR~Yp~p-~Ln~~GsDl~RsLL~FaegkpLG~~Gl~  458 (883)
T 1msw_D          380 AAAAVYRKDKARKSRRISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAVS-MFNPQGNDMTKGLLTLAKGKPIGKEGYY  458 (883)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTSSSSSCSCBBCCEEEETTSCEEESS-SSCTTSCHHHHHHEEESSCEECHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEeecccCCCCcCCCCC-CCCCCcchHHHHHHHhccCCccChhHHH
Confidence            999999999999999999999999999999988999999999999999995 9999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHHHhcCCCCCCccccCC
Q 005638          598 WLKIHLANLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIP  677 (686)
Q Consensus       598 WLkIhlAN~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~a~~s~~P~~y~S~lP  677 (686)
                      |||||+||+|  |+||+||+||++||++|+++|++||+|||+ .+||++||+||||||+||||++|+++|+  +|+||||
T Consensus       459 WLkIhlAN~~--G~dK~s~~eRi~wv~~n~~~I~dsA~~Pl~-~~wW~~Ad~PwQfLA~C~El~~a~~~~~--~y~S~lP  533 (883)
T 1msw_D          459 WLKIHGANCA--GVDKVPFPERIKFIEENHENIMACAKSPLE-NTWWAEQDSPFCFLAFCFEYAGVQHHGL--SYNCSLP  533 (883)
T ss_dssp             HHHHHHHHHT--TCCSSCHHHHHHHHHHTHHHHHHHHHCHHH-HCGGGGSSSHHHHHHHHHHHHHHHHHCT--TCEECCC
T ss_pred             HHHHHHHHhc--CCCcCCHHHHHHHHHHHHHHHHHHhcCccc-chHHHcCCcHHHHHHHHHHHHHHHhCCC--ccccccc
Confidence            9999999999  899999999999999999999999999998 5899999999999999999999999876  8999999


Q ss_pred             cccccCCCC
Q 005638          678 VHMVFSVFT  686 (686)
Q Consensus       678 VhqDGSCsg  686 (686)
                      |||||||||
T Consensus       534 VhqDgSCnG  542 (883)
T 1msw_D          534 LAFDGSCSG  542 (883)
T ss_dssp             EEEECSCHH
T ss_pred             cccCCCCcH
Confidence            999999998
>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Back     alignment and structure
>3q23_A Virion RNA polymerase; protein-DNA complex; HET: DNA G2P; 1.80A {Enterobacteria phage N4} PDB: 3q0a_A* 3q22_A* 4ff1_A 4ff2_A* 4ff3_A* 4ff4_A* 3q24_A* 3c3l_A 3c46_A 3c2p_A* 2po4_A 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 686
d1mswd_ 882 e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [ 1e-124
>d1mswd_ e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760]} Length = 882 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: T7 RNA polymerase
domain: T7 RNA polymerase
species: Bacteriophage T7 [TaxId: 10760]

 Score =  389 bits (999), Expect = e-124
 Identities = 122/550 (22%), Positives = 218/550 (39%), Gaps = 53/550 (9%)

Query: 141 LKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQAT 200
           L R Q+ +E E++E     ++ +     +     +    K L       +   I      
Sbjct: 31  LAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEE 90

Query: 201 AQDKW-KHMTYAPYFNNLPADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEAR 259
            + K  K  T   +   +  + +A IT+   +  L +      V   A  IG AIE+EAR
Sbjct: 91  VKAKRGKRPTAFQFLQEIKPEAVAYITIKTTLACLTSA-DNTTVQAVASAIGRAIEDEAR 149

Query: 260 IQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKLKKRVTSLIKKQKLQQVRGIVK 319
                    K                   +K ++EQ  L KRV  + KK  +Q V   + 
Sbjct: 150 FGRIRDLEAKHF-----------------KKNVEEQ--LNKRVGHVYKKAFMQVVEADML 190

Query: 320 -----GHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKSF 374
                G      W ++  + VG R I++L+E+  +     Q                +  
Sbjct: 191 SKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVSLHRQNAGVVGQDSETIELAPE-- 248

Query: 375 TKEALKGRRYGVIECDPLVRKGLEKTGRHMIIPYMPMLVPPLNWRGYNRGGHFFLPSYVM 434
             EA+  R   +    P+               + P +VPP  W G   GG++      +
Sbjct: 249 YAEAIATRAGALAGISPM---------------FQPCVVPPKPWTGITGGGYWANGRRPL 293

Query: 435 RTHGARQQRETIKMTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWASGGCLAG--- 491
                   ++ +       +  V++A++   +T W++NK++L V + +     C      
Sbjct: 294 ALVR-THSKKALMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIP 352

Query: 492 LVDQEDVPLPEKPNTDDETEIKKWKWKVKTAKKQNSEKHSQRCDIELKLSVARKMKDEEG 551
            +++E++P+  +    +   +  WK       +++  + S+R  +E  L  A K  + + 
Sbjct: 353 AIEREELPMKPEDIDMNPEALTAWKRAAAAVYRKDKARKSRRISLEFMLEQANKFANHKA 412

Query: 552 FYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLANLYAGGV 611
            ++P+N+D+RGR Y      N  G+D+ +G+L   +G P+GK G +WLKIH AN    GV
Sbjct: 413 IWFPYNMDWRGRVYA-VSMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGANCA--GV 469

Query: 612 DKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPES 671
           DK+ +  R+ F E + ++I   A  PLE   WW   + PF  LA C   +          
Sbjct: 470 DKVPFPERIKFIEENHENIMACAKSPLE-NTWWAEQDSPFCFLAFCFEYAGVQHHGLS-- 526

Query: 672 TISHIPVHMV 681
               +P+   
Sbjct: 527 YNCSLPLAFD 536

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query686
d1mswd_ 882 T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760] 100.0
>d1mswd_ e.8.1.3 (D:) T7 RNA polymerase {Bacteriophage T7 [TaxId: 10760]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: T7 RNA polymerase
domain: T7 RNA polymerase
species: Bacteriophage T7 [TaxId: 10760]

Probab=100.00  E-value=4.6e-108  Score=966.86  Aligned_cols=497  Identities=25%  Similarity=0.444  Sum_probs=409.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHHHHHHHHHHHHHHhhh-ccCccccccccccCC
Q 005638          140 MLKRRQIKIETEAWEQAAKEYQDLLADMCEQKLAPNLPYVKSLFLGWFEPLRDAIAKDQATAQD-KWKHMTYAPYFNNLP  218 (686)
Q Consensus       140 ~l~eRQ~~lE~~a~~~a~~r~r~~~~~~~~~g~a~~~p~~~~ll~~W~~~L~~~I~~e~~~~~~-~~~r~~y~p~L~~l~  218 (686)
                      .|++||++||+++++.|++||++.+++++++|.+++++|+++++.+|+++|+++|+++++..+. .+.++.|+|||..|+
T Consensus        30 ~L~~rQ~~LE~ea~~~g~~R~r~~~e~~~~rg~~s~~~~g~~li~~~l~~l~~~I~~~~~~~~~~~G~~~~~~~yL~~l~  109 (882)
T d1mswd_          30 RLAREQLALEHESYEMGEARFRKMFERQLKAGEVADNAAAKPLITTLLPKMIARINDWFEEVKAKRGKRPTAFQFLQEIK  109 (882)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCGGGSTTTHHHHHHHHHHHHHHHHHHHHHHHHSCSCCCTTTTTTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHhcCC
Confidence            4888999999999999999999999999999999999999999999999999999998887654 456788999999999


Q ss_pred             chhHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhhhcccCCCCCCCCCCCCCCChHHhHHHHHHH
Q 005638          219 ADMMAVITMHKLVGLLMTNAGEVRVVQAACQIGEAIENEARIQSFFKSTKKKNATDNNLEGDSEPLTNDPEKLIKEQEKL  298 (686)
Q Consensus       219 pe~lA~Iti~~~l~~l~~~~~~~~v~~la~~IG~aVE~E~~~~~~~~~~kk~~~~~~~~~~~~~~l~~~~~~~~k~~~~l  298 (686)
                      ||++|+|||+++|++++++ ++.++++++.+||+|||+|++++++.+..++.+.+..                   .+.+
T Consensus       110 pe~lA~Itik~~ld~l~~~-~~~~~t~va~~IG~AVE~E~r~~~~~~~~~~~~~k~~-------------------~~~~  169 (882)
T d1mswd_         110 PEAVAYITIKTTLACLTSA-DNTTVQAVASAIGRAIEDEARFGRIRDLEAKHFKKNV-------------------EEQL  169 (882)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-SCCBHHHHHHHHHHHHHHHHHHHHHHHSSCSSHHHHT-------------------SHHH
T ss_pred             HHHHHHHHHHHHHHHhcCC-CCChHHHHHHHHHHHHHHHHHHHHHHHhChHHHHHhh-------------------HHHH
Confidence            9999999999999999875 4578999999999999999999998877654332210                   0122


Q ss_pred             HHHHHHHHHHHHHHHHH-----hhhhCCCCCCCCCHHHHHHHHHHHHHHHHHHccccCCCCCCCCCCCCccCceEEEeee
Q 005638          299 KKRVTSLIKKQKLQQVR-----GIVKGHVDSKPWGQDALVKVGCRLIQLLMETAYIQPPVDQLGDSPPDIRPAFVHTLKS  373 (686)
Q Consensus       299 rk~~~~l~k~~~~~~~~-----~~~~~~~~~~~W~~~~~~kVG~~Li~~L~~~~~i~~~~~~~~~~~~~~~PAF~h~~~~  373 (686)
                      +++.+...+++..+.+.     +.......|.+|+..+++|||++|+++|++++.+..                 .....
T Consensus       170 ~k~~~~~~kk~~~~~~~~~~~~~~~~~~~~w~~W~~~~r~kVG~~Lle~l~e~tg~~~-----------------~~~~~  232 (882)
T d1mswd_         170 NKRVGHVYKKAFMQVVEADMLSKGLLGGEAWSSWHKEDSIHVGVRCIEMLIESTGMVS-----------------LHRQN  232 (882)
T ss_dssp             HHSCSHHHHHHHHHHHHHHSTTTTTTTTCCCCCCCTTHHHHHHHHHHHHHHHHCTTEE-----------------EECC-
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHhhhccccccCccCHHHHHHHHHHHHHHHHHHhCCce-----------------eeccc
Confidence            22222223332222221     112223578899999999999999999999987621                 11110


Q ss_pred             eeecccCCeEEEEEEeCHHHHHHHHhcc---ccccCCCCceeeCCcCcccCCCccccccCcc---eeecCcchhhHHHHH
Q 005638          374 FTKEALKGRRYGVIECDPLVRKGLEKTG---RHMIIPYMPMLVPPLNWRGYNRGGHFFLPSY---VMRTHGARQQRETIK  447 (686)
Q Consensus       374 ~~~~~~~~k~~gvi~~~~~v~~~l~~~~---~~~~~~~lPMlvpPkpW~~~~~GGYL~~~~~---l~R~~~~~~q~~~l~  447 (686)
                         ...++++.++|.++|++.+.++...   ..+.+.+|||||||+||++..+||||+....   ++|++..    .++.
T Consensus       233 ---~~~~~k~~~~v~~t~~~~~~l~~~~~~~~~~~P~~lPMlvpP~pW~~~~~GGYl~~~~~~~~~~~~~~~----~~~~  305 (882)
T d1mswd_         233 ---AGVVGQDSETIELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSK----KALM  305 (882)
T ss_dssp             ----------CCEEEECHHHHHHHHHHHHHHTTSCCCCCCBSSCCBCCSSSBSCBSSSCCSSCCBSEECSST----THHH
T ss_pred             ---cccccCcCcceeecHHHHHHHHhhHhHHHhcCcccccccCCCccCCCCCcCCeeecCCCceeccccccH----hhhh
Confidence               0113667889999999998886542   2233449999999999999999999986543   5555432    2334


Q ss_pred             cCCCCChhHHHHHHHhhcCccceechhHHHHHHHHHh-cCCCCCCCCCCCCCCCCCCCCC--CCHHHHHHHHHHHHHHHH
Q 005638          448 MTPRSQLEPVFQALDTLGSTKWRVNKRILGVIDRMWA-SGGCLAGLVDQEDVPLPEKPNT--DDETEIKKWKWKVKTAKK  524 (686)
Q Consensus       448 ~~~~~~l~~v~~aLN~Lq~t~WrIN~~VL~vi~~~w~-~g~~i~~l~~~~~~p~P~~p~~--~d~~~~~~wk~~~~~~~~  524 (686)
                      +....+++.||++||+||+|||+||++||+|++.+|+ .|+.++++|+....+.|++|.+  .+++++++|++..+.+++
T Consensus       306 ~~~~~~l~~v~~aLN~LQst~wrIN~~vLdv~~~~~~~~~~~~~~iP~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~  385 (882)
T d1mswd_         306 RYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKPEDIDMNPEALTAWKRAAAAVYR  385 (882)
T ss_dssp             HTTTCCCHHHHHHHHHHHTCCEEECHHHHHHHHHHTTCSSCSSTTCCCSSCCCCCCC-----------CCTTHHHHHHHH
T ss_pred             hccccchHHHHHHHHHHhcCCeEeCHHHHHHHHHHHhcCCCcccccCcccccccCCcccccccCHHHHHHHHHHHHHHHH
Confidence            4566789999999999999999999999999999998 5566788988777677766653  467789999999999999


Q ss_pred             HHhhhhhhhhhHHHHHHHHHhccCCCceeeccccCCCCccccCCCCCCCCccccchhheecccCCcCchhhHHHHHHHHH
Q 005638          525 QNSEKHSQRCDIELKLSVARKMKDEEGFYYPHNLDFRGRAYPMHPYLNHLGSDLCRGVLEFEEGHPLGKAGLHWLKIHLA  604 (686)
Q Consensus       525 ~~~~~~S~R~~~~~~L~vA~~f~d~~~fYfPhnlDFRGR~YP~~p~Ln~qGsDl~RsLL~FaegkpLG~~Gl~WLkIhlA  604 (686)
                      .+++.+|+||+++++|++|++|+|++.||||||+|||||+||+ |+|||||+|+|||||+||+|+|||++|++|||||+|
T Consensus       386 ~~~~~~s~r~~~~~~l~~A~~~~~~~~fy~P~~~DfRGR~Y~~-~~ln~qg~D~~rsLl~Fa~~~~l~~~g~~wL~i~~A  464 (882)
T d1mswd_         386 KDKARKSRRISLEFMLEQANKFANHKAIWFPYNMDWRGRVYAV-SMFNPQGNDMTKGLLTLAKGKPIGKEGYYWLKIHGA  464 (882)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSSSSSCSCBBCCEEEETTSCEEES-SSSCTTSCHHHHHHEEESSCEECHHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHhCCCCceeeeeeeecccccccC-CCCCCCccchhhhhhhccCCCcccchhHHHHHHHHH
Confidence            9999999999999999999999998889999999999999997 589999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCHHHHHHHHHHhHHHHHHhccCCCCcchhhhcCCCHHHHHHHHHHHHHHhcCCCCCCccccCCcccccCC
Q 005638          605 NLYAGGVDKLSYEGRVAFTENHLDDIFDSADRPLEGRRWWLGAEDPFQCLATCINLSEALRSPSPESTISHIPVHMVFSV  684 (686)
Q Consensus       605 N~~g~G~DK~s~~eR~~wv~~n~~~I~dsA~dPl~g~~wW~~Ad~PwQfLA~C~El~~a~~s~~P~~y~S~lPVhqDGSC  684 (686)
                      |+|  |+||+||+||++||++|++.|+++|+||+.+ .||.+||+||||||+|+||++++.++  +.|+|+|||||||||
T Consensus       465 n~~--g~dK~s~~~r~~w~~~~~~~i~~~~~dp~~~-~~w~~a~~p~qfla~c~e~~~~~~~~--~~~~s~lpv~~D~sc  539 (882)
T d1mswd_         465 NCA--GVDKVPFPERIKFIEENHENIMACAKSPLEN-TWWAEQDSPFCFLAFCFEYAGVQHHG--LSYNCSLPLAFDGSC  539 (882)
T ss_dssp             HHT--TCCSSCHHHHHHHHHHTHHHHHHHHHCHHHH-CGGGGSSSHHHHHHHHHHHHHHHHHC--TTCEECCCEEEECSC
T ss_pred             hcc--CcchhhHHHHHHHHHHhHHHHHhhhcCcchh-hhhhhCchhHHHHHHHHHHHHHHhcC--CcccccceeeeccCc
Confidence            999  8999999999999999999999999999975 79999999999999999999998854  689999999999999


Q ss_pred             CC
Q 005638          685 FT  686 (686)
Q Consensus       685 sg  686 (686)
                      ||
T Consensus       540 nG  541 (882)
T d1mswd_         540 SG  541 (882)
T ss_dssp             HH
T ss_pred             cH
Confidence            98