Citrus Sinensis ID: 013572

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
MDSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLSISRKRKRTHSSEEELEPTHDDKTSRLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKASAIRSALATRARVQHDSSYHRDPSSSVQ
ccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHccccHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHcccHHHHHHHHHHHHHHHHHcccccEEcccHHHHHHHHHHHHHHHcccccEEcccccEEEEEccccccccccccccEEEEEEcccccEEEEEEccccccccHHHHcccHHHHHHHHcccccccccccccccccEEEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccc
ccHHHHHHHHHHHHHHHHHHccccccccccccHccHHHHHHHHHcHHHHHHHHHHHHHHHHHcccccccccccccHccccHHHHHHHccccccccHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccEEEEEccEEEEEcccccccccccEEEEEEEEEccccEEEEEEEcccccccHHHHHHHHHHHHHHHccccccccccccccccccEEEEEcccccccccEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccccHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccc
MDSQKLSAFLSSLVSQLFLLLLLlfpdsdatqrtnlfpLISHFISSQQVAASLTFLSISRkrkrthsseeelepthddktsrlghglsqlgftqlpdsfrnsfkmsSSTFRWLSGlleplldcrdpvglplnlsaDIRLGIGLFrlvngstyseiatRFEVTESVTRFCVKQLCRVLCTNfrfwvafpgpeelgLISKSFEeltglpnccgvidctrfkiikidgsnsskdedsIAVQIVVDSSSRMLSIVAGirgdkgdsrvlkssTLYKDieekkllnsspicvngvavdqyligdggypllpwlmvpfvdanpgsseenfNAAHNLMRVPALKAIASLknwgvlsrpideDFKTAVALIGACSILHNALLMREDFSGLFEElgdyslhdessqyysdasleenstEKKASAIRSALATRARvqhdssyhrdpsssvq
MDSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLSISrkrkrthsseeelepthddktsrlGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKidgsnsskdedsIAVQIVVDSSSRMLSIVagirgdkgdsrvlKSSTLYKdieekkllnsspicvNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKASAIRSALATrarvqhdssyhrdpsssvq
MDSQKlsaflsslvsqlfllllllfPDSDATQRTNLFPLISHFISSQQVAASLTFLSISRKRKRTHSSEEELEPTHDDKTSRLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKASAIRSALATRARVQHDSSYHRDPSSSVQ
*******AFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLS***********************************************MSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKID**********IAVQIVVDSSSRMLSIVAGIRGD****RVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDAN******NFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSL**************************************************
**********SSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAAS********************EPTHDDKTSRLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDC*D******NLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDE*********************IRSALATRARVQHDSSYHRD******
MDSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLSIS**********************RLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQY*******************************************
*DSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLSISRKRK***************KTSRLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGD********QYYSDASLEENSTEKKASAIRSALATRARVQHDSSYHR*******
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTNLFPLISHFISSQQVAASLTFLSISRKRKRTHSSEEELEPTHDDKTSRLGHGLSQLGFTQLPDSFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKASAIRSALATRARVQHDSSYHRDPSSSVQ
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 ?
Query440 2.2.26 [Sep-21-2011]
Q6AZB8349 Putative nuclease HARBI1 no no 0.504 0.636 0.243 4e-10
Q5U538347 Putative nuclease HARBI1 N/A no 0.518 0.657 0.226 4e-07
Q96MB7349 Putative nuclease HARBI1 yes no 0.5 0.630 0.222 1e-06
Q17QR8349 Putative nuclease HARBI1 yes no 0.413 0.521 0.222 5e-06
B0BN95349 Putative nuclease HARBI1 yes no 0.5 0.630 0.214 6e-06
Q8BR93349 Putative nuclease HARBI1 yes no 0.415 0.524 0.218 5e-05
>sp|Q6AZB8|HARB1_DANRE Putative nuclease HARBI1 OS=Danio rerio GN=harbi1 PE=2 SV=1 Back     alignment and function desciption
 Score = 66.6 bits (161), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 61/251 (24%), Positives = 102/251 (40%), Gaps = 29/251 (11%)

Query: 133 LSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEE 192
           +S D+++   L    +GS  S++     ++++    CV  + + L      ++ F   E 
Sbjct: 67  ISPDVQILAALGFYTSGSFQSKMGDAIGISQASMSRCVSNVTKALIEKAPEFIGFTRDEA 126

Query: 193 LGLISK-SFEELTGLPNCCGVIDCTRFKIIKIDGSNSS----KDEDSIAVQIVVDSSSRM 247
                K  F  + G+PN  GV+DC    I   +  +SS    K   SI  Q+V D+   +
Sbjct: 127 TKQQFKDEFYRIAGIPNVTGVVDCAHIAIKAPNADDSSYVNKKGFHSINCQLVCDARGLL 186

Query: 248 LSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWL 307
           LS      G   D  V K S + K  EE++  +             +L+GD  YPL  WL
Sbjct: 187 LSAETHWPGSLTDRAVFKQSNVAKLFEEQENDDEG-----------WLLGDNRYPLKKWL 235

Query: 308 MVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNW--------GVLSRPIDEDFKTAV 359
           M P V +    ++  +N AH        +   +++          G L    ++      
Sbjct: 236 MTP-VQSPESPADYRYNLAHTTTHEIVDRTFRAIQTRFRCLDGAKGYLQYSPEK----CS 290

Query: 360 ALIGACSILHN 370
            +I AC +LHN
Sbjct: 291 HIIQACCVLHN 301
Transposase-derived protein that may have nuclease activity (Potential). Does not have transposase activity.
Danio rerio (taxid: 7955)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|Q5U538|HARB1_XENLA Putative nuclease HARBI1 OS=Xenopus laevis GN=harbi1 PE=2 SV=1 Back     alignment and function description
>sp|Q96MB7|HARB1_HUMAN Putative nuclease HARBI1 OS=Homo sapiens GN=HARBI1 PE=1 SV=1 Back     alignment and function description
>sp|Q17QR8|HARB1_BOVIN Putative nuclease HARBI1 OS=Bos taurus GN=HARBI1 PE=2 SV=1 Back     alignment and function description
>sp|B0BN95|HARB1_RAT Putative nuclease HARBI1 OS=Rattus norvegicus GN=Harbi1 PE=2 SV=1 Back     alignment and function description
>sp|Q8BR93|HARB1_MOUSE Putative nuclease HARBI1 OS=Mus musculus GN=Harbi1 PE=2 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 ?
Query440
224056104433 predicted protein [Populus trichocarpa] 0.959 0.974 0.651 1e-151
255555409445 conserved hypothetical protein [Ricinus 0.897 0.887 0.662 1e-148
449446093386 PREDICTED: uncharacterized protein LOC10 0.795 0.906 0.557 1e-113
357475335399 hypothetical protein MTR_4g085850 [Medic 0.877 0.967 0.529 1e-103
294461349368 unknown [Picea sitchensis] 0.740 0.885 0.537 1e-101
226528653382 uncharacterized protein LOC100279167 pre 0.625 0.719 0.408 3e-48
242092118392 hypothetical protein SORBIDRAFT_10g00452 0.579 0.650 0.414 4e-48
326509193418 predicted protein [Hordeum vulgare subsp 0.663 0.698 0.394 8e-48
115466608370 Os06g0164500 [Oryza sativa Japonica Grou 0.672 0.8 0.405 4e-47
357118623429 PREDICTED: uncharacterized protein LOC10 0.668 0.685 0.386 6e-45
>gi|224056104|ref|XP_002298728.1| predicted protein [Populus trichocarpa] gi|222845986|gb|EEE83533.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  541 bits (1393), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 280/430 (65%), Positives = 337/430 (78%), Gaps = 8/430 (1%)

Query: 1   MDSQKLSAFLSSLVSQLFLLLLLLFPDSDATQRTN--LFPLISHFISSQQVAASLTFLSI 58
           M+S+KL+A LSSLVS+L +L+LLLFP       ++  LF +I H++S Q++A SL+   I
Sbjct: 1   MESKKLAALLSSLVSELLVLVLLLFPSDSYNSNSHGILFRIIRHYLSCQELATSLSLFPI 60

Query: 59  SRKRKRTHSSEEELEPTHDDKTSRLGHGLSQLG-FTQLPDSFRNSFKMSSSTFRWLSGLL 117
           S+KRKRT   E   EPTH+D+    G  L +L      PDSF+ +F+M SSTF WLSGLL
Sbjct: 61  SKKRKRTQLREAGSEPTHEDRDLERGSRLGELSRVAPNPDSFKTTFRMRSSTFEWLSGLL 120

Query: 118 EPLLDCRDPVGLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVL 177
           EPLL+CRDP+G P+NLS+++RLGIGLFRL  GS+Y EIA RF VTESVTRFC KQLCRVL
Sbjct: 121 EPLLECRDPIGTPINLSSELRLGIGLFRLATGSSYIEIAGRFGVTESVTRFCAKQLCRVL 180

Query: 178 CTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKID----GSNSSKDED 233
           CTNFRFW+AFP   EL L+SK  E LTGLPNCCGVIDCTRF ++K +     S+    +D
Sbjct: 181 CTNFRFWIAFPTSTELQLVSKDIEGLTGLPNCCGVIDCTRFNVVKRNDCKLASDDEVQDD 240

Query: 234 SIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSSTLYKDIEEKKLLNSSPICVNGVAVDQ 293
           SIAVQIVVDSSSR+LSI+AG RGDK DSR+LKS+TL  DIE ++LLN++P+ VNGVA+DQ
Sbjct: 241 SIAVQIVVDSSSRILSIIAGFRGDKNDSRILKSTTLCHDIEGRRLLNATPVIVNGVAIDQ 300

Query: 294 YLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVPALKAIASLKNWGVLSRPIDE 353
           YLIGDGGYPLLPWLMVPFVD  PGSSEE FNAA+NLM V AL+ IASLKNWGVL++P++E
Sbjct: 301 YLIGDGGYPLLPWLMVPFVDVVPGSSEEKFNAANNLMHVFALRTIASLKNWGVLNKPVEE 360

Query: 354 DFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKAS 413
           +FKTAVA IGACSILHN LLMRED S L  ++ DYSL+D+ SQ+Y DA  EEN TEKKAS
Sbjct: 361 EFKTAVAFIGACSILHNVLLMREDDSALI-DVEDYSLYDQDSQFYKDAMTEENLTEKKAS 419

Query: 414 AIRSALATRA 423
             R ALATR 
Sbjct: 420 DTRRALATRV 429

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255555409|ref|XP_002518741.1| conserved hypothetical protein [Ricinus communis] gi|223542122|gb|EEF43666.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|449446093|ref|XP_004140806.1| PREDICTED: uncharacterized protein LOC101203312 [Cucumis sativus] gi|449501700|ref|XP_004161442.1| PREDICTED: uncharacterized LOC101203312 [Cucumis sativus] Back     alignment and taxonomy information
>gi|357475335|ref|XP_003607953.1| hypothetical protein MTR_4g085850 [Medicago truncatula] gi|355509008|gb|AES90150.1| hypothetical protein MTR_4g085850 [Medicago truncatula] Back     alignment and taxonomy information
>gi|294461349|gb|ADE76236.1| unknown [Picea sitchensis] Back     alignment and taxonomy information
>gi|226528653|ref|NP_001145667.1| uncharacterized protein LOC100279167 precursor [Zea mays] gi|195659415|gb|ACG49175.1| hypothetical protein [Zea mays] gi|223974183|gb|ACN31279.1| unknown [Zea mays] Back     alignment and taxonomy information
>gi|242092118|ref|XP_002436549.1| hypothetical protein SORBIDRAFT_10g004520 [Sorghum bicolor] gi|241914772|gb|EER87916.1| hypothetical protein SORBIDRAFT_10g004520 [Sorghum bicolor] Back     alignment and taxonomy information
>gi|326509193|dbj|BAJ86989.1| predicted protein [Hordeum vulgare subsp. vulgare] Back     alignment and taxonomy information
>gi|115466608|ref|NP_001056903.1| Os06g0164500 [Oryza sativa Japonica Group] gi|55296134|dbj|BAD67852.1| hypothetical protein [Oryza sativa Japonica Group] gi|113594943|dbj|BAF18817.1| Os06g0164500 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|357118623|ref|XP_003561051.1| PREDICTED: uncharacterized protein LOC100820863 [Brachypodium distachyon] 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 ?
Query440
TAIR|locus:2077259396 AT3G63270 [Arabidopsis thalian 0.713 0.792 0.298 3.3e-31
TAIR|locus:2099901406 AT3G55350 [Arabidopsis thalian 0.713 0.773 0.283 3.8e-30
ZFIN|ZDB-GENE-050327-32415 zgc:113227 "zgc:113227" [Danio 0.622 0.660 0.304 5.6e-29
TAIR|locus:2094088446 AT3G19120 [Arabidopsis thalian 0.813 0.802 0.280 1.2e-22
TAIR|locus:2123874540 AT4G29780 "AT4G29780" [Arabido 0.695 0.566 0.260 4.3e-18
TAIR|locus:2143104502 AT5G12010 [Arabidopsis thalian 0.620 0.543 0.258 3e-17
TAIR|locus:2207051 2845 AT1G72270 [Arabidopsis thalian 0.609 0.094 0.271 1.5e-13
FB|FBgn0052095429 CG32095 [Drosophila melanogast 0.695 0.713 0.259 2.1e-11
ZFIN|ZDB-GENE-040608-1349 harbi1 "harbinger transposase 0.670 0.845 0.245 6.2e-10
ZFIN|ZDB-GENE-081022-77394 zgc:194221 "zgc:194221" [Danio 0.729 0.814 0.253 1.2e-07
TAIR|locus:2077259 AT3G63270 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 100/335 (29%), Positives = 166/335 (49%)

Query:    98 SFRNSFKMSSSTFRWLSGLLEPLLDCRDPVGLPLN-----LSADIRLGIGLFRLVNGSTY 152
             +F++ F+ S +TF ++  L+   L  R P GL +N     LS + ++ I L RL +G + 
Sbjct:    64 AFKHFFRASKTTFSYICSLVREDLISRPPSGL-INIEGRLLSVEKQVAIALRRLASGDSQ 122

Query:   153 SEIATRFEVTESVTRFCVKQLCRVLCTNFRFWVAFPGPEELGLISKSFEELTGLPNCCGV 212
               +   F V +S       +    L    +  + +P  + +  I   FEE+ GLPNCCG 
Sbjct:   123 VSVGAAFGVGQSTVSQVTWRFIEALEERAKHHLRWPDSDRIEEIKSKFEEMYGLPNCCGA 182

Query:   213 IDCTRF--KIIKIDGSNSSKDED---SIAVQIVVDSSSRMLSIVAGIRGDKGDSRVLKSS 267
             ID T     +  +  S+   D++   S+ +Q V D   R L++V G  G    S++LK S
Sbjct:   183 IDTTHIIMTLPAVQASDDWCDQEKNYSMFLQGVFDHEMRFLNMVTGWPGGMTVSKLLKFS 242

Query:   268 TLYKDIEEKKLLNSSPICVN-GVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAA 326
               +K  E  ++L+ +P  ++ G  + +Y++G   YPLLPWL+ P    +P  S   FN  
Sbjct:   243 GFFKLCENAQILDGNPKTLSQGAQIREYVVGGISYPLLPWLITPHDSDHPSDSMVAFNER 302

Query:   327 HNLMRVPALKAIASLK-NWGVLSRPI-DEDFKTAVALIGACSILHNALLMREDFSGLFEE 384
             H  +R  A  A   LK +W +LS+ +   D +   ++I  C +LHN ++   D+  L E+
Sbjct:   303 HEKVRSVAATAFQQLKGSWRILSKVMWRPDRRKLPSIILVCCLLHNIIIDCGDY--LQED 360

Query:   385 LGDYSLHDESSQYYSDASLEENSTEKKASAIRSAL 419
             +   S H +S   Y+D   ++  TE   S +R  L
Sbjct:   361 V-PLSGHHDSG--YADRYCKQ--TEPLGSELRGCL 390
GO:0005634 "nucleus" evidence=ISM
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
TAIR|locus:2099901 AT3G55350 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050327-32 zgc:113227 "zgc:113227" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2094088 AT3G19120 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2123874 AT4G29780 "AT4G29780" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2143104 AT5G12010 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2207051 AT1G72270 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
FB|FBgn0052095 CG32095 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040608-1 harbi1 "harbinger transposase derived 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-081022-77 zgc:194221 "zgc:194221" [Danio rerio (taxid:7955)] 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

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
eugene3.00012355
hypothetical protein (433 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query440
pfam13359155 pfam13359, DDE_4, DDE superfamily endonuclease 3e-13
>gnl|CDD|222071 pfam13359, DDE_4, DDE superfamily endonuclease Back     alignment and domain information 
 Score = 66.9 bits (164), Expect = 3e-13
 Identities = 41/172 (23%), Positives = 63/172 (36%), Gaps = 31/172 (18%)

Query: 213 IDCTRFKIIK--------IDGSNSSKDEDSIAVQIVVDSSSRMLSIVAGIRGDKGDSRVL 264
           ID T   I +           S   K  +++ V IVVD   R++ +  G  G   D R+L
Sbjct: 1   IDGTEIPIERPKSLEEQAQTYSGYKKH-NTLKVLIVVDPDGRIIFVSVGWPGSVSDKRIL 59

Query: 265 KSSTLYKDIEEKKLLNSSPICVNGVAVDQYLIGDGGYPLLPWLMVP----FVDANPGSSE 320
           ++S L + +                    Y++ D G+PL   L+ P       A     E
Sbjct: 60  ENSGLLEKLP----------------PGDYVLADRGFPLSDSLLAPPAKKPGGAQLTEEE 103

Query: 321 ENFNAAHNLMRVPALKAIASLKN-WGVLSRPIDEDFKTAVALI-GACSILHN 370
             FN      R+   + I  LK  + +L   +     T +  I   C  LHN
Sbjct: 104 VEFNRRIASARIHVERVIGRLKGRFRILRGRLRISKLTTLDKIVLVCCALHN 155

This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. Length = 155

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 440
KOG4585326 consensus Predicted transposase [Replication, reco 100.0
PF04827205 Plant_tran: Plant transposon protein; InterPro: IP 100.0
PF13359158 DDE_Tnp_4: DDE superfamily endonuclease 100.0
PF1361353 HTH_Tnp_4: Helix-turn-helix of DDE superfamily end 98.85
PF13612155 DDE_Tnp_1_3: Transposase DDE domain 98.66
PF01609213 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR00 96.9
PF1358688 DDE_Tnp_1_2: Transposase DDE domain 96.83
PF0279645 HTH_7: Helix-turn-helix domain of resolvase; Inter 96.41
PF0454550 Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 95.83
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 95.61
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 95.24
PF1338450 HTH_23: Homeodomain-like domain; PDB: 2X48_C. 93.84
PF1351852 HTH_28: Helix-turn-helix domain 93.83
PF0828154 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 93.62
PF1334075 DUF4096: Putative transposase of IS4/5 family (DUF 93.53
smart00351125 PAX Paired Box domain. 93.09
smart0042158 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo 92.97
cd0056942 HTH_Hin_like Helix-turn-helix domain of Hin and re 92.94
cd00131128 PAX Paired Box domain 92.84
PRK04217110 hypothetical protein; Provisional 92.36
COG3415138 Transposase and inactivated derivatives [DNA repli 91.64
PF0522545 HTH_psq: helix-turn-helix, Psq domain; InterPro: I 91.63
PRK00118104 putative DNA-binding protein; Validated 91.46
PRK09413121 IS2 repressor TnpA; Reviewed 91.35
PF1211682 SpoIIID: Stage III sporulation protein D; InterPro 91.31
PRK09639166 RNA polymerase sigma factor SigX; Provisional 90.71
PF0152776 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transp 90.43
PF1301185 LZ_Tnp_IS481: leucine-zipper of insertion element 90.38
PRK09652182 RNA polymerase sigma factor RpoE; Provisional 89.88
cd0617155 Sigma70_r4 Sigma70, region (SR) 4 refers to the mo 89.74
cd0617057 LuxR_C_like C-terminal DNA-binding domain of LuxR- 89.25
TIGR0387973 near_KaiC_dom probable regulatory domain. This mod 89.16
PRK12519194 RNA polymerase sigma factor; Provisional 88.8
cd0657190 Bac_DnaA_C C-terminal domain of bacterial DnaA pro 88.5
TIGR0132194 TrpR trp operon repressor, proteobacterial. This m 88.49
PRK12529178 RNA polymerase sigma factor; Provisional 88.49
PF0220936 VHP: Villin headpiece domain; InterPro: IPR003128 88.29
PRK08301234 sporulation sigma factor SigE; Reviewed 88.18
TIGR02960324 SigX5 RNA polymerase sigma-70 factor, TIGR02960 fa 87.93
PRK09638176 RNA polymerase sigma factor SigY; Reviewed 87.93
PRK12530189 RNA polymerase sigma factor; Provisional 87.6
PRK05911257 RNA polymerase sigma factor sigma-28; Reviewed 87.34
smart0015336 VHP Villin headpiece domain. 87.15
PRK05803233 sporulation sigma factor SigK; Reviewed 87.03
TIGR02952170 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 86.75
TIGR02950154 SigM_subfam RNA polymerase sigma factor, SigM fami 86.73
PRK06704228 RNA polymerase factor sigma-70; Validated 86.58
PF1354252 HTH_Tnp_ISL3: Helix-turn-helix domain of transposa 86.57
TIGR0253188 yecD_yerC TrpR-related protein YerC/YecD. This mod 86.52
PRK07037163 extracytoplasmic-function sigma-70 factor; Validat 86.35
TIGR02985161 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba 86.35
TIGR02937158 sigma70-ECF RNA polymerase sigma factor, sigma-70 86.32
PRK11923193 algU RNA polymerase sigma factor AlgU; Provisional 86.02
TIGR02392270 rpoH_proteo alternative sigma factor RpoH. A sigma 85.89
PRK12533216 RNA polymerase sigma factor; Provisional 85.62
PRK12547164 RNA polymerase sigma factor; Provisional 85.47
PRK12511182 RNA polymerase sigma factor; Provisional 85.22
PRK12516187 RNA polymerase sigma factor; Provisional 85.16
PRK09415179 RNA polymerase factor sigma C; Reviewed 84.96
PRK12514179 RNA polymerase sigma factor; Provisional 84.93
PRK12515189 RNA polymerase sigma factor; Provisional 84.76
PRK11924179 RNA polymerase sigma factor; Provisional 84.63
PRK12524196 RNA polymerase sigma factor; Provisional 84.57
TIGR02939190 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A s 84.51
PRK09641187 RNA polymerase sigma factor SigW; Provisional 84.45
PF0496753 HTH_10: HTH DNA binding domain; InterPro: IPR00705 84.39
PRK06596284 RNA polymerase factor sigma-32; Reviewed 84.25
TIGR00721137 tfx DNA-binding protein, Tfx family. Tfx from Meth 84.2
PRK03975141 tfx putative transcriptional regulator; Provisiona 84.13
PRK09047161 RNA polymerase factor sigma-70; Validated 84.12
TIGR02989159 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop 83.94
TIGR02846227 spore_sigmaK RNA polymerase sigma-K factor. The sp 83.73
PRK12532195 RNA polymerase sigma factor; Provisional 83.64
TIGR02983162 SigE-fam_strep RNA polymerase sigma-70 factor, sig 83.51
PRK12512184 RNA polymerase sigma factor; Provisional 83.39
PRK12531194 RNA polymerase sigma factor; Provisional 83.3
PRK05602186 RNA polymerase sigma factor; Reviewed 83.28
PRK12540182 RNA polymerase sigma factor; Provisional 83.08
TIGR02999183 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 f 82.77
PRK07500289 rpoH2 RNA polymerase factor sigma-32; Reviewed 82.75
TIGR02835234 spore_sigmaE RNA polymerase sigma-E factor. Member 82.73
PRK06930170 positive control sigma-like factor; Validated 82.61
PRK12537182 RNA polymerase sigma factor; Provisional 82.55
PRK15320251 transcriptional activator SprB; Provisional 82.41
TIGR02948187 SigW_bacill RNA polymerase sigma-W factor. This si 82.2
PRK09643192 RNA polymerase sigma factor SigM; Reviewed 82.18
COG2739105 Uncharacterized protein conserved in bacteria [Fun 82.15
PRK12523172 RNA polymerase sigma factor; Reviewed 82.11
TIGR03001244 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxoco 82.04
PRK12522173 RNA polymerase sigma factor; Provisional 82.03
PRK05572252 sporulation sigma factor SigF; Validated 82.03
PRK0138199 Trp operon repressor; Provisional 81.94
PHA0067578 hypothetical protein 81.84
PF0019658 GerE: Bacterial regulatory proteins, luxR family; 81.78
PRK07408256 RNA polymerase sigma factor SigF; Reviewed 81.71
PRK12534187 RNA polymerase sigma factor; Provisional 81.68
PRK12546188 RNA polymerase sigma factor; Provisional 81.68
PF0035646 LacI: Bacterial regulatory proteins, lacI family; 81.5
PRK09642160 RNA polymerase sigma factor SigW; Reviewed 81.49
PRK12544206 RNA polymerase sigma factor; Provisional 81.49
TIGR02980227 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G 81.37
PRK12520191 RNA polymerase sigma factor; Provisional 81.29
PRK11922231 RNA polymerase sigma factor; Provisional 81.2
TIGR02393238 RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter 80.99
PRK08583257 RNA polymerase sigma factor SigB; Validated 80.72
TIGR02394285 rpoS_proteo RNA polymerase sigma factor RpoS. A si 80.7
PRK12539184 RNA polymerase sigma factor; Provisional 80.57
PF1373055 HTH_36: Helix-turn-helix domain 80.56
PRK09645173 RNA polymerase sigma factor SigL; Provisional 80.55
PRK09637181 RNA polymerase sigma factor SigZ; Provisional 80.46
TIGR02984189 Sig-70_plancto1 RNA polymerase sigma-70 factor, Pl 80.43
COG1595182 RpoE DNA-directed RNA polymerase specialized sigma 80.27
TIGR02947193 SigH_actino RNA polymerase sigma-70 factor, TIGR02 80.26
PRK12528161 RNA polymerase sigma factor; Provisional 80.23
>KOG4585 consensus Predicted transposase [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.5e-39  Score=319.62  Aligned_cols=308  Identities=26%  Similarity=0.360  Sum_probs=244.3

Q ss_pred             hcCCCHHHHHHHHHHhcccccccCCCCC-CCCCCHHHHHhhheeeccCCCchhhhhhhhccChhhHHHHHHHHHHHHHHh
Q 013572          102 SFKMSSSTFRWLSGLLEPLLDCRDPVGL-PLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQLCRVLCTN  180 (440)
Q Consensus       102 ~fRms~~tF~~L~~~L~~~l~~~~~~~r-~~~is~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTv~~~v~~v~~~i~~~  180 (440)
                      .|++++.+|..++............... ...+++..+++++++.++++.+.+.++..||...+|+     .+.......
T Consensus         7 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~i~~~fg~~~~~~-----~~~~~~~~~   81 (326)
T KOG4585|consen    7 EFRKSYTTFDKICSLVQSLNVVKNSGFMLSSLLPADTLVAVALWRLKTGESLRTVEKKFGLGQSTC-----KFLEEKEDL   81 (326)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhcccchhhhccccHHhhhhhhhccccccchHHHHHHHcCCcchhh-----hHHHhhhcc
Confidence            7889999999999876544322221111 1122389999999999999999999999999999998     445555566


Q ss_pred             hhhhhcCCChhhHHHHHHHHHhhhCCCCccccccceEEEEeecCCC-----CCCCCCCcEEEEeecCCCceEEeeecCCC
Q 013572          181 FRFWVAFPGPEELGLISKSFEELTGLPNCCGVIDCTRFKIIKIDGS-----NSSKDEDSIAVQIVVDSSSRMLSIVAGIR  255 (440)
Q Consensus       181 l~~~I~~P~~~~~~~~~~~f~~~~~fP~ciGaIDgthi~i~~p~~~-----n~k~~~~si~~q~v~D~~~rf~~v~~g~p  255 (440)
                      +..+++||....+..+...|+.   ||+|+|+||+||+++..|+..     |+   .++.|+|+|||++++|++|++|||
T Consensus        82 ~~~~~~~p~~~~~~~i~~~~~~---~~~~~g~~d~~hi~~~~~~~~~~~~~n~---~~~~Nvlav~n~d~~f~~v~vg~~  155 (326)
T KOG4585|consen   82 APHFLKWPSRRILYEIRERFES---LPNCVGAIDTTHIPIRVPPKSGSVYFNK---EQSKNLLAVCNFDMRFIYVDVGWP  155 (326)
T ss_pred             cchhhcCchhhhhhhhcccccc---ccchhccccccccceecCcccccccccc---ccchhhhheecCCceEEEEEccCC
Confidence            7899999998888888888875   999999999999999988633     33   688999999999999999999999


Q ss_pred             CCCCChhhhhcccccccccccccCCCCCccc--CCcccceEEEecCCCCCCCCcccccCCCCCCCcchhhhhhhhhhHHH
Q 013572          256 GDKGDSRVLKSSTLYKDIEEKKLLNSSPICV--NGVAVDQYLIGDGGYPLLPWLMVPFVDANPGSSEENFNAAHNLMRVP  333 (440)
Q Consensus       256 Gs~~D~~v~~~S~l~~~l~~~~l~~~~~~~l--~g~~~~~~llgD~~Ypl~~~lm~P~~~~~l~~~~~~FN~~ls~~R~~  333 (440)
                      |++||+.|++.+.+.+....+...   +..+  .|.+...+++|+.+||+.+|+|+||.++.++..++.||.+|+.+|.+
T Consensus       156 Gs~~D~kvl~~~~~~~~~~~~~~~---k~yl~d~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~elFN~rh~~~r~v  232 (326)
T KOG4585|consen  156 GSAHDTKVLQDSLLYKRNFPHPPL---KYYLVDSGYPLRPGLLGPIGFPLYSLLMFPYGGPQPTNSQELFNKRHSSLRSV  232 (326)
T ss_pred             CCccHHHHHHhhcccccccccCCc---cccccccCcccccccccccccccchhhhcccCCCCCCchHHHHhhhhhhHHHH
Confidence            999999999999998877554322   2223  46688999999999999999999999988889999999999999999


Q ss_pred             HHHHHHhhc-ccccccCCccCChhhHHHHHHHHHHHHhhhccCCCCCCcccccCCCcCCCccccccCccccccccchhhH
Q 013572          334 ALKAIASLK-NWGVLSRPIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDASLEENSTEKKA  412 (440)
Q Consensus       334 vE~afg~LK-rfriL~~~~~~~~~~~~~ii~accvLHN~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~a  412 (440)
                      +|++||+|| ||+||.+....+..+..+||.|||+|||+|++.++.+...+.+   +..+...... .......+.++.+
T Consensus       233 ~e~~fg~lk~rw~il~~~~~~~~~~~~~iV~a~caLHN~~~~~~~~~~~~~~~---e~~~d~~~~~-~~~~~~~~~~~~~  308 (326)
T KOG4585|consen  233 AERAFGVLKAKWRILQRREKYDLKKLPKIVTACCALHNIIRDSDEEDPDDPKW---EKFDDYGENV-AHLRYAPQQRDYM  308 (326)
T ss_pred             HHHHHHHhhhhhHHHhhcccccccchHHHHHHHHHHHHHHHhhcccccccccc---cccccccccc-hhcccchhHHHHH
Confidence            999999999 7999999866778899999999999999999877653322212   2222111000 0111124446778


Q ss_pred             HHHHHHHHHHHHhhc
Q 013572          413 SAIRSALATRARVQH  427 (440)
Q Consensus       413 ~~~Rd~la~~~~~~~  427 (440)
                      +.+|+.|+..+++..
T Consensus       309 ~~~r~~l~~~l~~~~  323 (326)
T KOG4585|consen  309 EKIRDNLLSELWNGT  323 (326)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999988753

>PF04827 Plant_tran: Plant transposon protein; InterPro: IPR006912 This entry represents a putative Harbinger transposase-derived nuclease, which is thought to have nuclease activity Back     alignment and domain information
>PF13359 DDE_Tnp_4: DDE superfamily endonuclease Back     alignment and domain information
>PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease Back     alignment and domain information
>PF13612 DDE_Tnp_1_3: Transposase DDE domain Back     alignment and domain information
>PF01609 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR002559 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element Back     alignment and domain information
>PF13586 DDE_Tnp_1_2: Transposase DDE domain Back     alignment and domain information
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms Back     alignment and domain information
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A Back     alignment and domain information
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere Back     alignment and domain information
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C Back     alignment and domain information
>PF13518 HTH_28: Helix-turn-helix domain Back     alignment and domain information
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription Back     alignment and domain information
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096) Back     alignment and domain information
>smart00351 PAX Paired Box domain Back     alignment and domain information
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon Back     alignment and domain information
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella Back     alignment and domain information
>cd00131 PAX Paired Box domain Back     alignment and domain information
>PRK04217 hypothetical protein; Provisional Back     alignment and domain information
>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair] Back     alignment and domain information
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster [] Back     alignment and domain information
>PRK00118 putative DNA-binding protein; Validated Back     alignment and domain information
>PRK09413 IS2 repressor TnpA; Reviewed Back     alignment and domain information
>PF12116 SpoIIID: Stage III sporulation protein D; InterPro: IPR014208 Members of this entry represent the transcriptional regulator SpoIIID, or stage III sporulation protein D Back     alignment and domain information
>PRK09639 RNA polymerase sigma factor SigX; Provisional Back     alignment and domain information
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition Back     alignment and domain information
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481 Back     alignment and domain information
>PRK09652 RNA polymerase sigma factor RpoE; Provisional Back     alignment and domain information
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) Back     alignment and domain information
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins Back     alignment and domain information
>TIGR03879 near_KaiC_dom probable regulatory domain Back     alignment and domain information
>PRK12519 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins Back     alignment and domain information
>TIGR01321 TrpR trp operon repressor, proteobacterial Back     alignment and domain information
>PRK12529 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF02209 VHP: Villin headpiece domain; InterPro: IPR003128 Villin is an F-actin bundling protein involved in the maintenance of the microvilli of the absorptive epithelia Back     alignment and domain information
>PRK08301 sporulation sigma factor SigE; Reviewed Back     alignment and domain information
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family Back     alignment and domain information
>PRK09638 RNA polymerase sigma factor SigY; Reviewed Back     alignment and domain information
>PRK12530 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed Back     alignment and domain information
>smart00153 VHP Villin headpiece domain Back     alignment and domain information
>PRK05803 sporulation sigma factor SigK; Reviewed Back     alignment and domain information
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family Back     alignment and domain information
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family Back     alignment and domain information
>PRK06704 RNA polymerase factor sigma-70; Validated Back     alignment and domain information
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3 Back     alignment and domain information
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD Back     alignment and domain information
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated Back     alignment and domain information
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1 Back     alignment and domain information
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family Back     alignment and domain information
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional Back     alignment and domain information
>TIGR02392 rpoH_proteo alternative sigma factor RpoH Back     alignment and domain information
>PRK12533 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12547 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12511 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12516 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK09415 RNA polymerase factor sigma C; Reviewed Back     alignment and domain information
>PRK12514 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12515 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11924 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12524 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE Back     alignment and domain information
>PRK09641 RNA polymerase sigma factor SigW; Provisional Back     alignment and domain information
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information
>PRK06596 RNA polymerase factor sigma-32; Reviewed Back     alignment and domain information
>TIGR00721 tfx DNA-binding protein, Tfx family Back     alignment and domain information
>PRK03975 tfx putative transcriptional regulator; Provisional Back     alignment and domain information
>PRK09047 RNA polymerase factor sigma-70; Validated Back     alignment and domain information
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family Back     alignment and domain information
>TIGR02846 spore_sigmaK RNA polymerase sigma-K factor Back     alignment and domain information
>PRK12532 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family Back     alignment and domain information
>PRK12512 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12531 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK05602 RNA polymerase sigma factor; Reviewed Back     alignment and domain information
>PRK12540 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family Back     alignment and domain information
>PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed Back     alignment and domain information
>TIGR02835 spore_sigmaE RNA polymerase sigma-E factor Back     alignment and domain information
>PRK06930 positive control sigma-like factor; Validated Back     alignment and domain information
>PRK12537 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK15320 transcriptional activator SprB; Provisional Back     alignment and domain information
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor Back     alignment and domain information
>PRK09643 RNA polymerase sigma factor SigM; Reviewed Back     alignment and domain information
>COG2739 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PRK12523 RNA polymerase sigma factor; Reviewed Back     alignment and domain information
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1 Back     alignment and domain information
>PRK12522 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK05572 sporulation sigma factor SigF; Validated Back     alignment and domain information
>PRK01381 Trp operon repressor; Provisional Back     alignment and domain information
>PHA00675 hypothetical protein Back     alignment and domain information
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators Back     alignment and domain information
>PRK07408 RNA polymerase sigma factor SigF; Reviewed Back     alignment and domain information
>PRK12534 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12546 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif Back     alignment and domain information
>PRK09642 RNA polymerase sigma factor SigW; Reviewed Back     alignment and domain information
>PRK12544 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily Back     alignment and domain information
>PRK12520 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11922 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain Back     alignment and domain information
>PRK08583 RNA polymerase sigma factor SigB; Validated Back     alignment and domain information
>TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS Back     alignment and domain information
>PRK12539 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PF13730 HTH_36: Helix-turn-helix domain Back     alignment and domain information
>PRK09645 RNA polymerase sigma factor SigL; Provisional Back     alignment and domain information
>PRK09637 RNA polymerase sigma factor SigZ; Provisional Back     alignment and domain information
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1 Back     alignment and domain information
>COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription] Back     alignment and domain information
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family Back     alignment and domain information
>PRK12528 RNA polymerase sigma factor; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query440
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>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
 Score = 46.4 bits (109), Expect = 1e-05
 Identities = 89/535 (16%), Positives = 155/535 (28%), Gaps = 159/535 (29%)

Query: 14  VSQLFLLL--LLLFPDS------DATQRTNLFPLISHFISSQQVAASLTFLSISRKRKRT 65
           VS    L   LL   +       +   R N +  +   I ++Q   S+       +R R 
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-YKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 66  HSSEEELEPTH---DDKTSRLGHGLSQL------------GF--TQLPDSFRNSFK---- 104
           ++  +     +        +L   L +L            G   T +      S+K    
Sbjct: 120 YNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 105 MSSSTFRWLS--------GLLEPLLD-CR--DPVGLPL-NLSADIRLGI-----GLFRLV 147
           M    F WL+         +LE L       DP      + S++I+L I      L RL+
Sbjct: 180 MDFKIF-WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 148 NGSTY------------SEIATRFE------VT---ESVTRFCVKQLCRVLCTNFRFWVA 186
               Y            ++    F       +T   + VT F        +  +      
Sbjct: 239 KSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM-T 297

Query: 187 FPGPEELGLISK----SFEEL-----TGLPNCCGVI-----------------DCTRF-K 219
               E   L+ K      ++L     T  P    +I                 +C +   
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 220 IIKIDGSNSSKDE-----DSIAV-QIVVDSSSRMLSIV--AGIRGDKGD--SRVLKSSTL 269
           II+   +     E     D ++V        + +LS++    I+ D     +++ K S +
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 270 YKDIEEKKL------LNSSPICVNGVA-----VDQYLIGDGGYPLLPW-LMVPFVD---- 313
            K  +E  +      L       N  A     VD Y I    +      L+ P++D    
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT-FD--SDDLIPPYLDQYFY 474

Query: 314 -------ANPGSSEE---------NFNAAHNLMR--VPALKAIASLKNWGVLSR------ 349
                   N    E          +F      +R    A  A  S+ N   L +      
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILN--TLQQLKFYKP 532

Query: 350 ---PIDEDFKTAVALIGACSILHNALLMREDFSGLFEELGDYSLHDESSQYYSDA 401
                D  ++  V  I          L+   ++ L       +L  E    + +A
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR----IALMAEDEAIFEEA 583

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query440
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 96.3
1jhg_A101 Trp operon repressor; complex (regulatory protein- 95.61
2glo_A59 Brinker CG9653-PA; protein-DNA complex, helix-turn 95.45
2w7n_A101 TRFB transcriptional repressor protein; INCP, plas 94.84
1jko_C52 HIN recombinase, DNA-invertase HIN; water-mediated 94.57
2o8x_A70 Probable RNA polymerase sigma-C factor; promoter r 94.51
2jn6_A97 Protein CGL2762, transposase; GFT PSI-2, protein s 94.35
2p7v_B68 Sigma-70, RNA polymerase sigma factor RPOD; RSD, r 93.69
1tty_A87 Sigma-A, RNA polymerase sigma factor RPOD; helix-t 93.58
3hug_A92 RNA polymerase sigma factor; ECF sigma factor, zin 93.28
1ku3_A73 Sigma factor SIGA; helix-turn-helix, transcription 93.21
3t72_q99 RNA polymerase sigma factor RPOD, DNA-directed RN 92.59
2elh_A87 CG11849-PA, LD40883P; structural genomics, NPPSFA, 92.49
1fse_A74 GERE; helix-turn-helix DNA-binding protein transcr 91.77
1u78_A141 TC3 transposase, transposable element TC3 transpos 91.1
2x48_A55 CAG38821; archeal virus, viral protein; 2.60A {Sul 90.55
1je8_A82 Nitrate/nitrite response regulator protein NARL; p 90.24
1s7o_A113 Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP 90.15
3c57_A95 Two component transcriptional regulatory protein; 90.14
2jrt_A95 Uncharacterized protein; solution, structure, NESG 89.36
1pdn_C128 Protein (PRD paired); protein-DNA complex, double 89.17
1wy3_A35 Villin; structural protein; HET: NLE; 0.95A {Synth 88.78
1p4w_A99 RCSB; solution structure, DNA binding domain, DNA 88.61
2rn7_A108 IS629 ORFA; helix, all alpha, unknown function, st 88.58
1hlv_A131 CENP-B, major centromere autoantigen B; helix-turn 88.56
1xsv_A113 Hypothetical UPF0122 protein SAV1236; helix-turn-h 88.5
1k78_A149 Paired box protein PAX5; paired domain, ETS domain 88.45
1or7_A194 Sigma-24, RNA polymerase sigma-E factor; regulatio 88.31
1x3u_A79 Transcriptional regulatory protein FIXJ; helix-tur 88.25
1rp3_A239 RNA polymerase sigma factor sigma-28 (FLIA); trans 88.24
3mzy_A164 RNA polymerase sigma-H factor; PSI, MCSG, structur 87.77
2rnj_A91 Response regulator protein VRAR; HTH LUXR-type dom 87.71
1und_A37 Advillin, P92; actin binding, F-actin binding, cyt 87.64
1u78_A141 TC3 transposase, transposable element TC3 transpos 87.45
2jpc_A61 SSRB; DNA binding protein, structural genomics, PS 87.44
3frw_A107 Putative Trp repressor protein; structural genomic 86.89
3ulq_B90 Transcriptional regulatory protein COMA; tetratric 86.23
3hot_A345 Transposable element mariner, complete CDS; protei 84.0
1j1v_A94 Chromosomal replication initiator protein DNAA, 5' 83.65
2k27_A159 Paired box protein PAX-8; paired domain, solution 82.11
2lfw_A157 PHYR sigma-like domain; signal transduction, respo 82.1
2q1z_A184 RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc 81.82
1iuf_A144 Centromere ABP1 protein; riken structural genomics 81.26
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 Back     alignment and structure
Probab=96.30  E-value=0.0033  Score=42.46  Aligned_cols=43  Identities=14%  Similarity=0.183  Sum_probs=34.6

Q ss_pred             CCCCCCHHHHHhhheeeccCCCchhhhhhhhccChhhHHHHHHH
Q 013572          129 LPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCVKQ  172 (440)
Q Consensus       129 r~~~is~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTv~~~v~~  172 (440)
                      |+..++++++..+... +..|.++.+||..+|||.+||++++++
T Consensus         2 R~~~l~~~~~~~i~~~-~~~g~s~~~IA~~lgis~~Tv~~~~~~   44 (51)
T 1tc3_C            2 RGSALSDTERAQLDVM-KLLNVSLHEMSRKISRSRHCIRVYLKD   44 (51)
T ss_dssp             CSCCCCHHHHHHHHHH-HHTTCCHHHHHHHHTCCHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHH-HHcCCCHHHHHHHHCcCHHHHHHHHhh
Confidence            4456888887666544 468999999999999999999988754
>1jhg_A Trp operon repressor; complex (regulatory protein-peptide), DNA-binding regulatory complex (regulatory protein-peptide) complex; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3ssw_R 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 3ssx_R* 1trr_A* 1tro_A* Back     alignment and structure
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster} Back     alignment and structure
>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Back     alignment and structure
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C Back     alignment and structure
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} Back     alignment and structure
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19 Back     alignment and structure
>2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 Back     alignment and structure
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 Back     alignment and structure
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} Back     alignment and structure
>1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* Back     alignment and structure
>3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B Back     alignment and structure
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} Back     alignment and structure
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2 Back     alignment and structure
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 Back     alignment and structure
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} Back     alignment and structure
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A Back     alignment and structure
>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 Back     alignment and structure
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A Back     alignment and structure
>2jrt_A Uncharacterized protein; solution, structure, NESG, PSI, target RHR5, structural genomics, protein structure initiative; NMR {Rhodobacter sphaeroides} Back     alignment and structure
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX, paired domain, DNA-binding protein, gene regulation/DNA complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP: a.4.1.5 Back     alignment and structure
>1wy3_A Villin; structural protein; HET: NLE; 0.95A {Synthetic} PDB: 1wy4_A 1yri_A* 1yrf_A* 2f4k_A* 1vii_A 3trv_A* 3trw_A 3tjw_B* 3trv_B* 3try_A* 2ppz_A 2jm0_A* 3tjw_A* 3iur_B* Back     alignment and structure
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 Back     alignment and structure
>2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri} Back     alignment and structure
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A Back     alignment and structure
>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 Back     alignment and structure
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription factor, transcription/DNA complex; 2.25A {Homo sapiens} SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A Back     alignment and structure
>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A Back     alignment and structure
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} Back     alignment and structure
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A Back     alignment and structure
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} Back     alignment and structure
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus} Back     alignment and structure
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton, headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1 Back     alignment and structure
>1u78_A TC3 transposase, transposable element TC3 transposase; transposon DNA, bipartite DNA-binding, HTH- motif, DNA binding protein/DNA complex; 2.69A {Caenorhabditis elegans} SCOP: a.4.1.2 a.4.1.2 Back     alignment and structure
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} Back     alignment and structure
>3frw_A Putative Trp repressor protein; structural genomics, APC21159, PSI-2, P structure initiative; 2.05A {Ruminococcus obeum atcc 29174} PDB: 3g1c_A Back     alignment and structure
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A Back     alignment and structure
>3hot_A Transposable element mariner, complete CDS; protein-DNA complex, synaptic complex, transposase, inverted DNA, DNA binding protein-DNA complex; HET: 5IU; 3.25A {Drosophila mauritiana} PDB: 3hos_A* Back     alignment and structure
>1j1v_A Chromosomal replication initiator protein DNAA, 5'-D(*CP*CP*TP*GP*TP*GP*GP*AP*TP*AP*AP*CP*A)-3'; protein-DNA complex; 2.10A {Escherichia coli} SCOP: a.4.12.2 Back     alignment and structure
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple frequency, 3D NMR, induced FIT, alternative splicing, developmental protein; NMR {Homo sapiens} Back     alignment and structure
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP} Back     alignment and structure
>1iuf_A Centromere ABP1 protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Schizosaccharomyces pombe} SCOP: a.4.1.7 a.4.1.7 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query440
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 97.09
d1rp3a271 Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta 94.98
d1hlva166 DNA-binding domain of centromere binding protein B 94.87
d2jn6a189 Uncharacterized protein Cgl2762 {Corynebacterium g 93.07
d1k78a163 Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 92.77
d1or7a168 SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 92.42
d1s7oa_106 Hypothetical protein SPy1201 {Streptococcus pyogen 91.52
d1pdnc_123 Paired protein (prd) {Fruit fly (Drosophila melano 90.94
d1fsea_67 Germination protein GerE {Bacillus subtilis [TaxId 90.02
d1xsva_106 Hypothetical protein SAV1236 {Staphylococcus aureu 89.6
d3e5ua180 Chlorophenol reduction protein CprK {Desulfitobact 88.5
d1l3la165 Quorum-sensing transcription factor TraR, C-termin 88.27
d1a04a167 Nitrate/nitrite response regulator (NarL) {Escheri 87.49
d1unda_36 Advillin {Human (Homo sapiens) [TaxId: 9606]} 87.4
d1yu8x135 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 87.2
d1i5za169 Catabolite gene activator protein (CAP), C-termina 86.9
d1ku3a_61 Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 86.12
d1ft9a180 CO-sensing protein CooA, C-terminal domain {Rhodos 86.01
d2gaua181 Transcriptional regulator PG0396, C-terminal domai 84.99
d1yioa170 Response regulatory protein StyR, C-terminal domai 84.73
d1gdta143 gamma,delta resolvase (C-terminal domain) {Escheri 82.86
d2p7vb168 Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562 82.72
d1zyba173 Probable transcription regulator BT4300, C-termina 82.7
d1ttya_87 Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 82.34
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} Back     information, alignment and structure
class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: Recombinase DNA-binding domain
domain: HIN recombinase (DNA-binding domain)
species: Synthetic

Probab=97.09  E-value=0.00011  Score=48.68  Aligned_cols=42  Identities=17%  Similarity=0.067  Sum_probs=35.6

Q ss_pred             CCCCCCCHHHHHhhheeeccCCCchhhhhhhhccChhhHHHHH
Q 013572          128 GLPLNLSADIRLGIGLFRLVNGSTYSEIATRFEVTESVTRFCV  170 (440)
Q Consensus       128 ~r~~~is~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTv~~~v  170 (440)
                      ||++.++. +|+.-+...++.|.+..+||..||||++|+++++
T Consensus         1 GR~~~lt~-~q~~~a~~l~~~G~s~~~iA~~~gVSr~TiYry~   42 (47)
T d1ijwc_           1 GRPRAINK-HEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYF   42 (47)
T ss_dssp             CCCCSSCH-HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHS
T ss_pred             CCCCcCCH-HHHHHHHHHHHCCCCHHHHHHHHCcCHHHHHhhC
Confidence            34556665 6778888889999999999999999999999874
>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1hlva1 a.4.1.7 (A:1-66) DNA-binding domain of centromere binding protein B (CENP-B) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2jn6a1 a.4.1.19 (A:1-89) Uncharacterized protein Cgl2762 {Corynebacterium glutamicum [TaxId: 1718]} Back     information, alignment and structure
>d1k78a1 a.4.1.5 (A:19-81) Pax-5 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} Back     information, alignment and structure
>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} Back     information, alignment and structure
>d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} Back     information, alignment and structure
>d3e5ua1 a.4.5.4 (A:148-227) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]} Back     information, alignment and structure
>d1l3la1 a.4.6.2 (A:170-234) Quorum-sensing transcription factor TraR, C-terminal domain {Agrobacterium tumefaciens [TaxId: 358]} Back     information, alignment and structure
>d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1unda_ a.14.1.1 (A:) Advillin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1yu8x1 a.14.1.1 (X:42-76) Villin {Chicken (Gallus gallus) [TaxId: 9031]} Back     information, alignment and structure
>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1ft9a1 a.4.5.4 (A:134-213) CO-sensing protein CooA, C-terminal domain {Rhodospirillum rubrum [TaxId: 1085]} Back     information, alignment and structure
>d2gaua1 a.4.5.4 (A:152-232) Transcriptional regulator PG0396, C-terminal domain {Porphyromonas gingivalis [TaxId: 837]} Back     information, alignment and structure
>d1yioa1 a.4.6.2 (A:131-200) Response regulatory protein StyR, C-terminal domain {Pseudomonas fluorescens [TaxId: 294]} Back     information, alignment and structure
>d1gdta1 a.4.1.2 (A:141-183) gamma,delta resolvase (C-terminal domain) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1zyba1 a.4.5.4 (A:148-220) Probable transcription regulator BT4300, C-terminal domain {Bacteroides thetaiotaomicron [TaxId: 818]} Back     information, alignment and structure
>d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure