Citrus Sinensis ID: 012200

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-------47
MDETFMLMLSNLLHLHNSLDPATSLLSSTTAAAAAASSTSSATSSTSLLTSSSAAPLIFFTLSSLLSFLSASKQKSSPSSSAAAKNDAASASATAAASSSKNDAASPSSDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR
ccHHHHHHHHHHHHHHccccccccccccHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHccHHHHHHHHHHccccccccccccccHHHHHHHHHHcccccccccccHHHHHHHccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHcccccHHHHHHHccccHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccEEEEEcccEEEEccccccccccccccccccccccccEEEEEEcccccEEEEEEccccccccHHHHHccHHHHHHHcccccccccccccccccccEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHccccHHHHHHHHHHHHHHHHHccc
ccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccEEEEcHHHHHHHHHHcccccccccccccccccccccHHccccHHHHHcccccccccHHHHHHHcccccccccccccHHHHHHHHcccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHcHHcccccccHHHHHHHHHcHcHcccccccEEEEEccEEEEEccccccccccccccccccccEEEEEEEEEccccEEEEEEEcccccccHHHHHHHHHHHHHHHcccccccccEccccccccEEEEEcccccccccEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHccccccHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHccc
MDETFMLMLSNLLHLhnsldpatsllSSTTAAAAAAsstssatsstslltsssaapLIFFTLSSLLSFLsaskqksspsssaaakndAASASATAaassskndaaspssdySVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYiaasnlslpSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATklypefikipisrRRLIETTQGfeeltslpnicgaidgshikigngklkHVSLNQnqyrckygyNSVLLQVVADHRKIFWDVCVkasggaddsahfrDSLLYNRLIsgdivwdkainvrghhvrpyivgdwcypllsflmtpfspngagtpaqnlfdgmlmKGRNVVVEAIGLLKARWKILKDLnvginhapQTIVACCVLHnlcqiarepepeiwkepdengtparvleSEKQFYYFGEGLRQALADDLHQRLSTR
MDETFMLMLSNLLHLHNSLDPATSLLSSTTAAAAAASSTSSATSSTSLLTSSSAAPLIFFTLSSLLSFLSASKQKSSPSSSAAAKNDAASASATAAassskndaaspsSDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLypefikipisrRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASggaddsahfRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREpepeiwkepdenGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR
MDETFmlmlsnllhlhnslDPatsllssttaaaaaasstssatsstslltsssaaPLIFftlssllsflsaskqksspsssaaakndaasasataaassskndaaspssDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR
*******************************************************PLIFFTLSSLLSFL******************************************SVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIARE**********************KQFYYFGEGLRQAL***********
**ETFMLMLSNLLHLHNSLDPATS********************************LIFFTLSSL*************************************************AFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIA*****LPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPDE******************EGLRQALADDLHQR****
MDETFMLMLSNLLHLHNSLDPATSLL************************SSSAAPLIFFTLSSLLSFL****************************************DYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR
*DETFMLMLSNLLHLHNS**********************************SAAPLIFFTLSSLLSFLSAS*********************************S*SSDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPD******RVL****QFYYFGEGLRQALADDLHQRLST*
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ooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDETFMLMLSNLLHLHNSLDPATSLLSSTTAAAAAASSTSSATSSTSLLTSSSAAPLIFFTLSSLLSFLSASKQKSSPSSSAAAKNDAASASATAAASSSKNDAASPSSDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIAREPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR
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 ?
Query468 2.2.26 [Sep-21-2011]
Q6AZB8349 Putative nuclease HARBI1 no no 0.416 0.558 0.261 5e-10
Q96MB7349 Putative nuclease HARBI1 yes no 0.566 0.759 0.232 4e-08
Q17QR8349 Putative nuclease HARBI1 yes no 0.448 0.601 0.232 5e-07
B0BN95349 Putative nuclease HARBI1 yes no 0.448 0.601 0.240 1e-06
Q8BR93349 Putative nuclease HARBI1 yes no 0.446 0.598 0.235 9e-05
>sp|Q6AZB8|HARB1_DANRE Putative nuclease HARBI1 OS=Danio rerio GN=harbi1 PE=2 SV=1 Back     alignment and function desciption
 Score = 66.2 bits (160), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 59/226 (26%), Positives = 96/226 (42%), Gaps = 31/226 (13%)

Query: 198 ISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNG 257
           +S+  + VT+ L  K  PEFI          +    F  +  +PN+ G +D +HI I   
Sbjct: 100 MSRCVSNVTKALIEKA-PEFIGFTRDEATKQQFKDEFYRIAGIPNVTGVVDCAHIAI--- 155

Query: 258 KLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAHFRDS---LLYN 314
             K  + + + Y  K G++S+  Q+V D R +         G   D A F+ S    L+ 
Sbjct: 156 --KAPNADDSSYVNKKGFHSINCQLVCDARGLLLSAETHWPGSLTDRAVFKQSNVAKLFE 213

Query: 315 RLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPF-SPNGAGTPAQNLFDGMLMK 373
              + D  W              ++GD  YPL  +LMTP  SP    +PA   ++     
Sbjct: 214 EQENDDEGW--------------LLGDNRYPLKKWLMTPVQSPE---SPADYRYNLAHTT 256

Query: 374 GRNVVVEAIGLLKARWKILKDLNVGINHAPQT----IVACCVLHNL 415
              +V      ++ R++ L      + ++P+     I ACCVLHN+
Sbjct: 257 THEIVDRTFRAIQTRFRCLDGAKGYLQYSPEKCSHIIQACCVLHNI 302
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|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 ?
Query468
18402129446 PIF / Ping-Pong family of plant transpos 0.950 0.997 0.729 0.0
224123456440 predicted protein [Populus trichocarpa] 0.938 0.997 0.727 0.0
255561699459 conserved hypothetical protein [Ricinus 0.955 0.973 0.725 0.0
21553718441 unknown [Arabidopsis thaliana] 0.940 0.997 0.728 0.0
224105513442 predicted protein [Populus trichocarpa] 0.938 0.993 0.717 0.0
225428725449 PREDICTED: putative nuclease HARBI1-like 0.957 0.997 0.720 0.0
357475473517 hypothetical protein MTR_4g086650 [Medic 0.933 0.845 0.693 0.0
449472543451 PREDICTED: putative nuclease HARBI1-like 0.957 0.993 0.681 1e-172
356502730349 PREDICTED: putative nuclease HARBI1-like 0.737 0.988 0.812 1e-171
449455228445 PREDICTED: putative nuclease HARBI1-like 0.944 0.993 0.683 1e-171
>gi|18402129|ref|NP_566626.1| PIF / Ping-Pong family of plant transposase [Arabidopsis thaliana] gi|9294613|dbj|BAB02952.1| unnamed protein product [Arabidopsis thaliana] gi|17979471|gb|AAL50072.1| AT3g19120/MVI11_3 [Arabidopsis thaliana] gi|23506151|gb|AAN31087.1| At3g19120/MVI11_3 [Arabidopsis thaliana] gi|332642674|gb|AEE76195.1| PIF / Ping-Pong family of plant transposase [Arabidopsis thaliana] Back     alignment and taxonomy information
 Score =  690 bits (1780), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/469 (72%), Positives = 395/469 (84%), Gaps = 24/469 (5%)

Query: 1   MDETFMLMLSNLLHLHNSLDPATSLLSSTTAAAAAASSTSSATSSTSLLTSSSAAPLIFF 60
           M+E FM MLS+LLHL NSLDP ++L SS + ++ ++++ SS  S++S      AAPL+FF
Sbjct: 1   MEEAFMAMLSHLLHLQNSLDPTSTLFSSASTSSQSSTTPSSLLSTSS------AAPLLFF 54

Query: 61  TLSSLLSFLSASKQKSSPSSSAAAKNDAASASATAAASSSKNDAASPSSDYSVAAFRALT 120
           TL+SLLSFL+ ++  +  SSS+ + + +                     DYSVAAFRALT
Sbjct: 55  TLASLLSFLAVNRSSTESSSSSESPSPSPPPPLA-------------DGDYSVAAFRALT 101

Query: 121 TEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAH 180
           T+HIWSL+APLR+A WRSLYGLSYPVF TVV+KLKP+I ASNLSLP+DYAVAMVLSRLAH
Sbjct: 102 TDHIWSLDAPLRDARWRSLYGLSYPVFITVVDKLKPFITASNLSLPADYAVAMVLSRLAH 161

Query: 181 GLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIETTQGFEELTSL 240
           G SAK LASRYSL+PYLISKITNMVTRLLATKLYPEFIKIP+ +RRLIETTQGFEELTSL
Sbjct: 162 GCSAKTLASRYSLDPYLISKITNMVTRLLATKLYPEFIKIPVGKRRLIETTQGFEELTSL 221

Query: 241 PNICGAIDGSHIKIGNGKLKHVSLN-QNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASG 299
           PNICGAID + +K+     +   LN +N Y CKYGY++VLLQVVADH+KIFWDVCVKA G
Sbjct: 222 PNICGAIDSTPVKLR----RRTKLNPRNIYGCKYGYDAVLLQVVADHKKIFWDVCVKAPG 277

Query: 300 GADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGA 359
           G DDS+HFRDSLLY RL SGDIVW+K IN+RGHHVRPYIVGDWCYPLLSFLMTPFSPNG+
Sbjct: 278 GEDDSSHFRDSLLYKRLTSGDIVWEKVINIRGHHVRPYIVGDWCYPLLSFLMTPFSPNGS 337

Query: 360 GTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVACCVLHNLCQIA 419
           GTP +NLFDGMLMKGR+VVVEAIGLLKARWKIL+ LNVG+NHAPQTIVACCVLHNLCQIA
Sbjct: 338 GTPPENLFDGMLMKGRSVVVEAIGLLKARWKILQSLNVGVNHAPQTIVACCVLHNLCQIA 397

Query: 420 REPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR 468
           REPEPEIWK+PDE GTPARVLESE+QFYY+GE LRQALA+DLHQRLS+R
Sbjct: 398 REPEPEIWKDPDEAGTPARVLESERQFYYYGESLRQALAEDLHQRLSSR 446

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224123456|ref|XP_002330319.1| predicted protein [Populus trichocarpa] gi|222871354|gb|EEF08485.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255561699|ref|XP_002521859.1| conserved hypothetical protein [Ricinus communis] gi|223538897|gb|EEF40495.1| conserved hypothetical protein [Ricinus communis] Back     alignment and taxonomy information
>gi|21553718|gb|AAM62811.1| unknown [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|224105513|ref|XP_002313838.1| predicted protein [Populus trichocarpa] gi|222850246|gb|EEE87793.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225428725|ref|XP_002285007.1| PREDICTED: putative nuclease HARBI1-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|357475473|ref|XP_003608022.1| hypothetical protein MTR_4g086650 [Medicago truncatula] gi|355509077|gb|AES90219.1| hypothetical protein MTR_4g086650 [Medicago truncatula] Back     alignment and taxonomy information
>gi|449472543|ref|XP_004153626.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] gi|449522815|ref|XP_004168421.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356502730|ref|XP_003520169.1| PREDICTED: putative nuclease HARBI1-like [Glycine max] Back     alignment and taxonomy information
>gi|449455228|ref|XP_004145355.1| PREDICTED: putative nuclease HARBI1-like [Cucumis sativus] 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 ?
Query468
TAIR|locus:2094088446 AT3G19120 [Arabidopsis thalian 0.758 0.795 0.838 3.3e-166
ZFIN|ZDB-GENE-050327-32415 zgc:113227 "zgc:113227" [Danio 0.525 0.592 0.324 3.1e-28
TAIR|locus:2143104502 AT5G12010 [Arabidopsis thalian 0.632 0.589 0.268 2.7e-24
TAIR|locus:2123874540 AT4G29780 "AT4G29780" [Arabido 0.630 0.546 0.277 1.8e-18
TAIR|locus:2077259396 AT3G63270 [Arabidopsis thalian 0.5 0.590 0.297 2.3e-15
TAIR|locus:2099901406 AT3G55350 [Arabidopsis thalian 0.506 0.583 0.278 3.2e-15
ZFIN|ZDB-GENE-081022-77394 zgc:194221 "zgc:194221" [Danio 0.589 0.700 0.28 1.7e-13
ZFIN|ZDB-GENE-060810-147395 si:dkey-197c15.6 "si:dkey-197c 0.581 0.688 0.249 8.3e-10
ZFIN|ZDB-GENE-040608-1349 harbi1 "harbinger transposase 0.495 0.664 0.233 1.4e-08
UNIPROTKB|Q96MB7349 HARBI1 "Putative nuclease HARB 0.564 0.756 0.235 7.1e-07
TAIR|locus:2094088 AT3G19120 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1617 (574.3 bits), Expect = 3.3e-166, P = 3.3e-166
 Identities = 302/360 (83%), Positives = 332/360 (92%)

Query:   110 DYSVAAFRALTTEHIWSLEAPLREAHWRSLYGLSYPVFTTVVEKLKPYIAASNLSLPSDY 169
             DYSVAAFRALTT+HIWSL+APLR+A WRSLYGLSYPVF TVV+KLKP+I ASNLSLP+DY
Sbjct:    91 DYSVAAFRALTTDHIWSLDAPLRDARWRSLYGLSYPVFITVVDKLKPFITASNLSLPADY 150

Query:   170 AVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATKLYPEFIKIPISRRRLIE 229
             AVAMVLSRLAHG SAK LASRYSL+PYLISKITNMVTRLLATKLYPEFIKIP+ +RRLIE
Sbjct:   151 AVAMVLSRLAHGCSAKTLASRYSLDPYLISKITNMVTRLLATKLYPEFIKIPVGKRRLIE 210

Query:   230 TTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLN-QNQYRCKYGYNSVLLQVVADHRK 288
             TTQGFEELTSLPNICGAID + +K+     +   LN +N Y CKYGY++VLLQVVADH+K
Sbjct:   211 TTQGFEELTSLPNICGAIDSTPVKLR----RRTKLNPRNIYGCKYGYDAVLLQVVADHKK 266

Query:   289 IFWDVCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLS 348
             IFWDVCVKA GG DDS+HFRDSLLY RL SGDIVW+K IN+RGHHVRPYIVGDWCYPLLS
Sbjct:   267 IFWDVCVKAPGGEDDSSHFRDSLLYKRLTSGDIVWEKVINIRGHHVRPYIVGDWCYPLLS 326

Query:   349 FLMTPFSPNGAGTPAQNLFDGMLMKGRNVVVEAIGLLKARWKILKDLNVGINHAPQTIVA 408
             FLMTPFSPNG+GTP +NLFDGMLMKGR+VVVEAIGLLKARWKIL+ LNVG+NHAPQTIVA
Sbjct:   327 FLMTPFSPNGSGTPPENLFDGMLMKGRSVVVEAIGLLKARWKILQSLNVGVNHAPQTIVA 386

Query:   409 CCVLHNLCQIAREPEPEIWKEPDENGTPARVLESEKQFYYFGEGLRQALADDLHQRLSTR 468
             CCVLHNLCQIAREPEPEIWK+PDE GTPARVLESE+QFYY+GE LRQALA+DLHQRLS+R
Sbjct:   387 CCVLHNLCQIAREPEPEIWKDPDEAGTPARVLESERQFYYYGESLRQALAEDLHQRLSSR 446
GO:0005634 "nucleus" evidence=ISM
GO:0016788 "hydrolase activity, acting on ester bonds" evidence=IEA
GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA
ZFIN|ZDB-GENE-050327-32 zgc:113227 "zgc:113227" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2143104 AT5G12010 [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:2077259 AT3G63270 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2099901 AT3G55350 [Arabidopsis thaliana (taxid:3702)] 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
ZFIN|ZDB-GENE-060810-147 si:dkey-197c15.6 "si:dkey-197c15.6" [Danio rerio (taxid:7955)] 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
UNIPROTKB|Q96MB7 HARBI1 "Putative nuclease HARBI1" [Homo sapiens (taxid:9606)] 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:
AT3G19120
unknown protein; unknown protein; LOCATED IN- chloroplast; EXPRESSED IN- 16 plant structures; EXPRESSED DURING- 6 growth stages; BEST Arabidopsis thaliana protein match is- unknown protein (TAIR-AT5G12010.1); Has 450 Blast hits to 448 proteins in 50 species- Archae - 0; Bacteria - 0; Metazoa - 288; Fungi - 49; Plants - 98; Viruses - 3; Other Eukaryotes - 12 (source- NCBI BLink). (446 aa)
(Arabidopsis thaliana)
Predicted Functional Partners:
AT5G43530
SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-contai [...] (1277 aa)
      • 0.927
ATRAD54
ATRAD54 (ARABIDOPSIS HOMOLOG OF RAD54); ATP binding / DNA binding / helicase/ nucleic acid bind [...] (910 aa)
      • 0.827
AtMYB41
AtMYB41 (myb domain protein 41); DNA binding / transcription factor; Member of the R2R3 factor [...] (282 aa)
    •   0.813
AT3G07090
unknown protein; unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- biolog [...] (265 aa)
    •   0.813
CHR8
CHR8 (chromatin remodeling 8); ATP binding / DNA binding / helicase/ nucleic acid binding; chro [...] (1187 aa)
      • 0.750
AT2G40770
ATP binding / DNA binding / helicase/ nucleic acid binding / protein binding / zinc ion binding [...] (1664 aa)
      • 0.742
AT5G05130
SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-contai [...] (862 aa)
      • 0.740
ATRX
ATRX; ATP binding / DNA binding / helicase/ nucleic acid binding; ATRX; FUNCTIONS IN- helicase [...] (1479 aa)
      • 0.679
CHR4
CHR4 (CHROMATIN REMODELING 4); ATP binding / DNA binding / chromatin binding / helicase/ nuclei [...] (2242 aa)
      • 0.623
RAD5
RAD5; ATP binding / ATP-dependent helicase/ DNA binding / helicase/ hydrolase, acting on acid a [...] (1029 aa)
      • 0.599

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 ?
Query468
pfam13359155 pfam13359, DDE_4, DDE superfamily endonuclease 2e-19
COG5099 777 COG5099, COG5099, RNA-binding protein of the Puf f 0.002
pfam14257262 pfam14257, DUF4349, Domain of unknown function (DU 0.002
>gnl|CDD|222071 pfam13359, DDE_4, DDE superfamily endonuclease Back     alignment and domain information 
 Score = 84.2 bits (209), Expect = 2e-19
 Identities = 42/174 (24%), Positives = 66/174 (37%), Gaps = 25/174 (14%)

Query: 247 IDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWDVCVKASGGADDSAH 306
           IDG+ I I   + K +      Y     +N++ + +V D       V V   G   D   
Sbjct: 1   IDGTEIPIE--RPKSLEEQAQTYSGYKKHNTLKVLIVVDPDGRIIFVSVGWPGSVSDKRI 58

Query: 307 FRDSLLYNRLISGDIVW-DKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAG---TP 362
             +S L  +L  GD V  D+                  +PL   L+ P +    G   T 
Sbjct: 59  LENSGLLEKLPPGDYVLADRG-----------------FPLSDSLLAPPAKKPGGAQLTE 101

Query: 363 AQNLFDGMLMKGRNVVVEAIGLLKARWKILKD--LNVGINHAPQTIVACCVLHN 414
            +  F+  +   R  V   IG LK R++IL+       +    + ++ CC LHN
Sbjct: 102 EEVEFNRRIASARIHVERVIGRLKGRFRILRGRLRISKLTTLDKIVLVCCALHN 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
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|222629 pfam14257, DUF4349, Domain of unknown function (DUF4349) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 468
KOG4585326 consensus Predicted transposase [Replication, reco 100.0
PF13359158 DDE_Tnp_4: DDE superfamily endonuclease 100.0
PF04827205 Plant_tran: Plant transposon protein; InterPro: IP 99.97
PF1361353 HTH_Tnp_4: Helix-turn-helix of DDE superfamily end 98.91
PF13612155 DDE_Tnp_1_3: Transposase DDE domain 98.83
PF01609213 DDE_Tnp_1: Transposase DDE domain; InterPro: IPR00 97.37
PF1358688 DDE_Tnp_1_2: Transposase DDE domain 96.97
PF0454550 Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 95.27
PF0421853 CENP-B_N: CENP-B N-terminal DNA-binding domain; In 95.2
PF1393644 HTH_38: Helix-turn-helix domain; PDB: 2W48_A. 94.78
PF0279645 HTH_7: Helix-turn-helix domain of resolvase; Inter 94.29
PF1338450 HTH_23: Homeodomain-like domain; PDB: 2X48_C. 93.11
PF1351852 HTH_28: Helix-turn-helix domain 92.67
PF1211682 SpoIIID: Stage III sporulation protein D; InterPro 92.6
PF0828154 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 92.34
PF0522545 HTH_psq: helix-turn-helix, Psq domain; InterPro: I 92.16
smart00351125 PAX Paired Box domain. 91.16
cd00131128 PAX Paired Box domain 90.26
PF1301185 LZ_Tnp_IS481: leucine-zipper of insertion element 90.18
PRK09413121 IS2 repressor TnpA; Reviewed 89.58
smart0042158 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo 89.49
cd0617155 Sigma70_r4 Sigma70, region (SR) 4 refers to the mo 89.22
COG3415138 Transposase and inactivated derivatives [DNA repli 89.18
PF0220936 VHP: Villin headpiece domain; InterPro: IPR003128 89.15
PF0152776 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transp 89.0
PRK04217110 hypothetical protein; Provisional 88.19
cd0657190 Bac_DnaA_C C-terminal domain of bacterial DnaA pro 87.67
smart0015336 VHP Villin headpiece domain. 87.51
PRK15320251 transcriptional activator SprB; Provisional 87.45
cd0056942 HTH_Hin_like Helix-turn-helix domain of Hin and re 87.45
TIGR0253188 yecD_yerC TrpR-related protein YerC/YecD. This mod 87.15
PF1354252 HTH_Tnp_ISL3: Helix-turn-helix domain of transposa 87.08
TIGR0387973 near_KaiC_dom probable regulatory domain. This mod 86.99
PRK09639166 RNA polymerase sigma factor SigX; Provisional 86.84
PRK00118104 putative DNA-binding protein; Validated 86.47
PF1334075 DUF4096: Putative transposase of IS4/5 family (DUF 86.22
PRK12529178 RNA polymerase sigma factor; Provisional 85.82
cd0617057 LuxR_C_like C-terminal DNA-binding domain of LuxR- 85.45
PRK09047161 RNA polymerase factor sigma-70; Validated 85.32
TIGR02985161 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba 84.85
TIGR02937158 sigma70-ECF RNA polymerase sigma factor, sigma-70 84.27
TIGR02392270 rpoH_proteo alternative sigma factor RpoH. A sigma 83.58
TIGR02846227 spore_sigmaK RNA polymerase sigma-K factor. The sp 83.4
PRK07037163 extracytoplasmic-function sigma-70 factor; Validat 83.23
TIGR02952170 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 83.23
PRK09652182 RNA polymerase sigma factor RpoE; Provisional 82.97
PRK12547164 RNA polymerase sigma factor; Provisional 82.95
PHA0067578 hypothetical protein 82.87
PRK08301234 sporulation sigma factor SigE; Reviewed 82.61
PRK12514179 RNA polymerase sigma factor; Provisional 82.48
PRK12515189 RNA polymerase sigma factor; Provisional 82.23
smart0034284 HTH_ARAC helix_turn_helix, arabinose operon contro 82.15
PRK12532195 RNA polymerase sigma factor; Provisional 81.96
PRK09638176 RNA polymerase sigma factor SigY; Reviewed 81.29
PRK07408256 RNA polymerase sigma factor SigF; Reviewed 81.25
PRK12512184 RNA polymerase sigma factor; Provisional 80.81
PRK12516187 RNA polymerase sigma factor; Provisional 80.79
PRK11924179 RNA polymerase sigma factor; Provisional 80.79
PRK05803233 sporulation sigma factor SigK; Reviewed 80.77
PRK06596284 RNA polymerase factor sigma-32; Reviewed 80.68
PRK12533216 RNA polymerase sigma factor; Provisional 80.66
PRK12530189 RNA polymerase sigma factor; Provisional 80.48
PRK12537182 RNA polymerase sigma factor; Provisional 80.46
PF0035646 LacI: Bacterial regulatory proteins, lacI family; 80.37
TIGR02989159 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop 80.29
PRK12531194 RNA polymerase sigma factor; Provisional 80.19
PRK05911257 RNA polymerase sigma factor sigma-28; Reviewed 80.1
TIGR0132194 TrpR trp operon repressor, proteobacterial. This m 80.05
>KOG4585 consensus Predicted transposase [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=4.7e-39  Score=322.11  Aligned_cols=309  Identities=31%  Similarity=0.437  Sum_probs=250.7

Q ss_pred             hcCCCHHHHHHHHHHhccccccCC-----C-CCCHHHHHHHHHhhhccCccHHHHhhhccCCcchhHHHHHHHHHHHHhh
Q 012200          139 LYGLSYPVFTTVVEKLKPYIAASN-----L-SLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLATK  212 (468)
Q Consensus       139 ~fRms~~~F~~L~~~L~p~l~~~~-----~-~l~~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTvsri~~~v~~~l~~~  212 (468)
                      .|++++.+|..++...........     . .++...++++.+++++++.+.+.++..||...+|+      ++......
T Consensus         7 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~i~~~fg~~~~~~------~~~~~~~~   80 (326)
T KOG4585|consen    7 EFRKSYTTFDKICSLVQSLNVVKNSGFMLSSLLPADTLVAVALWRLKTGESLRTVEKKFGLGQSTC------KFLEEKED   80 (326)
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhcccchhhhccccHHhhhhhhhccccccchHHHHHHHcCCcchhh------hHHHhhhc
Confidence            578899999999988665322111     1 12288999999999999999999999999999998      22333345


Q ss_pred             cCCccccCCCchhhhcccccccccccCCCCCccccceeeEEeccCCcccccccccceeeecCceeeEeeeeccccceeee
Q 012200          213 LYPEFIKIPISRRRLIETTQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYGYNSVLLQVVADHRKIFWD  292 (468)
Q Consensus       213 L~~~~I~~P~~~~~~~~i~~~F~~~~~fP~~vGaIDgT~I~i~~P~~~~~~~~~~~Y~~~k~~~Si~~q~v~D~~g~f~~  292 (468)
                      +++.++.|| ....+..+...|+.   +|+|+|+||+|||++..|+     .....|.|+  .++.|+|+|||.+++|++
T Consensus        81 ~~~~~~~~p-~~~~~~~i~~~~~~---~~~~~g~~d~~hi~~~~~~-----~~~~~~~n~--~~~~Nvlav~n~d~~f~~  149 (326)
T KOG4585|consen   81 LAPHFLKWP-SRRILYEIRERFES---LPNCVGAIDTTHIPIRVPP-----KSGSVYFNK--EQSKNLLAVCNFDMRFIY  149 (326)
T ss_pred             ccchhhcCc-hhhhhhhhcccccc---ccchhccccccccceecCc-----ccccccccc--ccchhhhheecCCceEEE
Confidence            789999999 56677777777775   9999999999999999998     788888888  788999999999999999


Q ss_pred             eccCCCCCCCCccccchhhhhhhhccCCCCCccccccCCccccceeecccCCCCcCCcccCCCCCCCCCCccccchhhhh
Q 012200          293 VCVKASGGADDSAHFRDSLLYNRLISGDIVWDKAINVRGHHVRPYIVGDWCYPLLSFLMTPFSPNGAGTPAQNLFDGMLM  372 (468)
Q Consensus       293 v~~g~pGs~hD~~i~~~S~l~~~l~~~~l~~~~~~~~~G~~~~~~llgD~gYpl~~~lltP~~~~~~lt~~e~~FN~~ls  372 (468)
                      |++|+||+.||+.|++.+.+......+.-. ...+...|.+.+.|++|+.+||+.+++|+|+.++. .+..++.||++|+
T Consensus       150 v~vg~~Gs~~D~kvl~~~~~~~~~~~~~~~-k~yl~d~~~~~~~~~~g~~~~~~~~~~~~~~~~~~-~~~~~elFN~rh~  227 (326)
T KOG4585|consen  150 VDVGWPGSAHDTKVLQDSLLYKRNFPHPPL-KYYLVDSGYPLRPGLLGPIGFPLYSLLMFPYGGPQ-PTNSQELFNKRHS  227 (326)
T ss_pred             EEccCCCCccHHHHHHhhcccccccccCCc-cccccccCcccccccccccccccchhhhcccCCCC-CCchHHHHhhhhh
Confidence            999999999999999999988776665432 12223356567889999999999999999998875 4788899999999


Q ss_pred             cccchHHHHHHHHhhhhhhccc-ccCCCCcHHHHHHHHHHHhhhccccCCC--CCCCCCCCCCCCCCcccccccccccch
Q 012200          373 KGRNVVVEAIGLLKARWKILKD-LNVGINHAPQTIVACCVLHNLCQIAREP--EPEIWKEPDENGTPARVLESEKQFYYF  449 (468)
Q Consensus       373 ~~R~~VE~afG~LK~RfriL~~-l~~~~~~~~~iI~AccvLHN~~~~~~~~--~~~~~~~~~~~~~~~~~~~~e~~~~~~  449 (468)
                      .+|.++|++||+||.||+||++ ...+..+.+++|.|||+|||+|++..+.  .++.|...++.+++......+.+....
T Consensus       228 ~~r~v~e~~fg~lk~rw~il~~~~~~~~~~~~~iV~a~caLHN~~~~~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~  307 (326)
T KOG4585|consen  228 SLRSVAERAFGVLKAKWRILQRREKYDLKKLPKIVTACCALHNIIRDSDEEDPDDPKWEKFDDYGENVAHLRYAPQQRDY  307 (326)
T ss_pred             hHHHHHHHHHHHhhhhhHHHhhcccccccchHHHHHHHHHHHHHHHhhcccccccccccccccccccchhcccchhHHHH
Confidence            9999999999999999999986 6678899999999999999999988874  445576665544222222333334567


Q ss_pred             HHHHHHHHHHHHHHhcc
Q 012200          450 GEGLRQALADDLHQRLS  466 (468)
Q Consensus       450 g~~~R~~l~~~l~~~~~  466 (468)
                      ++..|+.|+..+.+..+
T Consensus       308 ~~~~r~~l~~~l~~~~~  324 (326)
T KOG4585|consen  308 MEKIRDNLLSELWNGTR  324 (326)
T ss_pred             HHHHHHHHHHHHHhccc
Confidence            89999999999988665

>PF13359 DDE_Tnp_4: DDE superfamily endonuclease Back     alignment and domain information
>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
>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
>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
>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
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A 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
>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
>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
>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
>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
>smart00351 PAX Paired Box domain Back     alignment and domain information
>cd00131 PAX Paired Box domain Back     alignment and domain information
>PF13011 LZ_Tnp_IS481: leucine-zipper of insertion element IS481 Back     alignment and domain information
>PRK09413 IS2 repressor TnpA; Reviewed Back     alignment and domain information
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon 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
>COG3415 Transposase and inactivated derivatives [DNA replication, recombination, and repair] 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
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition Back     alignment and domain information
>PRK04217 hypothetical protein; Provisional Back     alignment and domain information
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins Back     alignment and domain information
>smart00153 VHP Villin headpiece domain Back     alignment and domain information
>PRK15320 transcriptional activator SprB; Provisional 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
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD Back     alignment and domain information
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3 Back     alignment and domain information
>TIGR03879 near_KaiC_dom probable regulatory domain Back     alignment and domain information
>PRK09639 RNA polymerase sigma factor SigX; Provisional Back     alignment and domain information
>PRK00118 putative DNA-binding protein; Validated Back     alignment and domain information
>PF13340 DUF4096: Putative transposase of IS4/5 family (DUF4096) Back     alignment and domain information
>PRK12529 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins Back     alignment and domain information
>PRK09047 RNA polymerase factor sigma-70; 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
>TIGR02392 rpoH_proteo alternative sigma factor RpoH Back     alignment and domain information
>TIGR02846 spore_sigmaK RNA polymerase sigma-K factor Back     alignment and domain information
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated Back     alignment and domain information
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family Back     alignment and domain information
>PRK09652 RNA polymerase sigma factor RpoE; Provisional Back     alignment and domain information
>PRK12547 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PHA00675 hypothetical protein Back     alignment and domain information
>PRK08301 sporulation sigma factor SigE; 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
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein Back     alignment and domain information
>PRK12532 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK09638 RNA polymerase sigma factor SigY; Reviewed Back     alignment and domain information
>PRK07408 RNA polymerase sigma factor SigF; Reviewed Back     alignment and domain information
>PRK12512 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12516 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK11924 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK05803 sporulation sigma factor SigK; Reviewed Back     alignment and domain information
>PRK06596 RNA polymerase factor sigma-32; Reviewed Back     alignment and domain information
>PRK12533 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12530 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK12537 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
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family Back     alignment and domain information
>PRK12531 RNA polymerase sigma factor; Provisional Back     alignment and domain information
>PRK05911 RNA polymerase sigma factor sigma-28; Reviewed Back     alignment and domain information
>TIGR01321 TrpR trp operon repressor, proteobacterial 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 ?
Query468
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-11
>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 = 66.0 bits (160), Expect = 2e-11
 Identities = 55/391 (14%), Positives = 97/391 (24%), Gaps = 155/391 (39%)

Query: 109 SDYSVAAFRALTTEHIWSLEAPLREAHWRSLYGL-------SYPVFTTVVEKLKPYIAAS 161
            D   +       +HI  + +    +    L+             F  V E L+      
Sbjct: 39  QDMPKSILSKEEIDHI--IMSKDAVSGTLRLFWTLLSKQEEMVQKF--VEEVLRI----- 89

Query: 162 NLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLAT---KLY---P 215
                 +Y               K L S    E     +  +M+TR+      +LY    
Sbjct: 90  ------NY---------------KFLMSPIKTEQ----RQPSMMTRMYIEQRDRLYNDNQ 124

Query: 216 EFIKIPISRRRLIET-TQGFEELTSLPNICGAIDGSHIKIGNGKLKHVSLNQNQYRCKYG 274
            F K  +SR +      Q   EL    N+   IDG    +G+GK                
Sbjct: 125 VFAKYNVSRLQPYLKLRQALLELRPAKNV--LIDG---VLGSGK---------------- 163

Query: 275 YNSVL-LQVVADHR-------KIFW-----------------DVCVKASGGADDSAHFRD 309
             + + L V   ++       KIFW                  +  +        +    
Sbjct: 164 --TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS 221

Query: 310 SLLYN---------RLISG----------DIVWDKAINVRGHHVRPYIVGDWCYPLLSFL 350
           ++            RL+              V +            + +   C      L
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA------WNAFNLS--C----KIL 269

Query: 351 MTPFSPNGAGTPAQNLFDGMLMKGRNVVV-----------EAIGLLKARWKILKDLNVGI 399
           +T        T  + + D +       +            E   LL  ++     L+   
Sbjct: 270 LT--------TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-LKY-----LDCRP 315

Query: 400 NHAPQTIVACCVLHNLCQIARE--PEPEIWK 428
              P+ ++       L  IA         W 
Sbjct: 316 QDLPREVLTTNPRR-LSIIAESIRDGLATWD 345

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query468
2w7n_A101 TRFB transcriptional repressor protein; INCP, plas 94.54
1tc3_C51 Protein (TC3 transposase); DNA binding, helix-turn 94.38
2p7v_B68 Sigma-70, RNA polymerase sigma factor RPOD; RSD, r 93.31
2o8x_A70 Probable RNA polymerase sigma-C factor; promoter r 93.14
2glo_A59 Brinker CG9653-PA; protein-DNA complex, helix-turn 93.11
1tty_A87 Sigma-A, RNA polymerase sigma factor RPOD; helix-t 92.33
1ku3_A73 Sigma factor SIGA; helix-turn-helix, transcription 92.31
2jn6_A97 Protein CGL2762, transposase; GFT PSI-2, protein s 91.85
3hug_A92 RNA polymerase sigma factor; ECF sigma factor, zin 91.49
3t72_q99 RNA polymerase sigma factor RPOD, DNA-directed RN 90.07
1jhg_A101 Trp operon repressor; complex (regulatory protein- 89.98
1wy3_A35 Villin; structural protein; HET: NLE; 0.95A {Synth 89.65
2elh_A87 CG11849-PA, LD40883P; structural genomics, NPPSFA, 89.43
1jko_C52 HIN recombinase, DNA-invertase HIN; water-mediated 88.94
1fse_A74 GERE; helix-turn-helix DNA-binding protein transcr 88.65
1und_A37 Advillin, P92; actin binding, F-actin binding, cyt 88.54
1hlv_A131 CENP-B, major centromere autoantigen B; helix-turn 87.86
3c57_A95 Two component transcriptional regulatory protein; 87.78
1p4w_A99 RCSB; solution structure, DNA binding domain, DNA 86.99
2x48_A55 CAG38821; archeal virus, viral protein; 2.60A {Sul 86.99
1je8_A82 Nitrate/nitrite response regulator protein NARL; p 86.56
2jrt_A95 Uncharacterized protein; solution, structure, NESG 85.99
1s7o_A113 Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP 85.91
1rp3_A239 RNA polymerase sigma factor sigma-28 (FLIA); trans 85.34
1pdn_C128 Protein (PRD paired); protein-DNA complex, double 85.28
2jpc_A61 SSRB; DNA binding protein, structural genomics, PS 84.94
1k78_A149 Paired box protein PAX5; paired domain, ETS domain 84.4
3ech_A142 MEXR, multidrug resistance operon repressor; winge 84.38
1x3u_A79 Transcriptional regulatory protein FIXJ; helix-tur 84.28
1qzp_A68 Dematin; villin headpiece, actin binding domain, p 84.1
1j1v_A94 Chromosomal replication initiator protein DNAA, 5' 83.84
2rn7_A108 IS629 ORFA; helix, all alpha, unknown function, st 83.81
1or7_A194 Sigma-24, RNA polymerase sigma-E factor; regulatio 83.74
1u78_A141 TC3 transposase, transposable element TC3 transpos 83.69
1iuf_A144 Centromere ABP1 protein; riken structural genomics 82.25
3ulq_B90 Transcriptional regulatory protein COMA; tetratric 81.93
1yu8_X67 Villin; alpha helix, 3-10 helix, structural protei 81.78
1u78_A141 TC3 transposase, transposable element TC3 transpos 81.61
2rnj_A91 Response regulator protein VRAR; HTH LUXR-type dom 81.44
3mzy_A164 RNA polymerase sigma-H factor; PSI, MCSG, structur 80.81
2k6m_S67 Supervillin; SVHP, HP, headpiece, archvillin, acti 80.26
>2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} Back     alignment and structure
Probab=94.54  E-value=0.069  Score=43.62  Aligned_cols=60  Identities=15%  Similarity=0.200  Sum_probs=48.3

Q ss_pred             CCCHHHHHHHHHHhccccccCCCCCCHHHHHHHHHhhhccCccHHHHhhhccCCcchhHHHHHHHHHHHH
Q 012200          141 GLSYPVFTTVVEKLKPYIAASNLSLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKITNMVTRLLA  210 (468)
Q Consensus       141 Rms~~~F~~L~~~L~p~l~~~~~~l~~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTvsri~~~v~~~l~  210 (468)
                      |||.++|+.+...+         .++. ..+-++=.||-.|.++.+||..+|+|+++|++.+.+.-....
T Consensus         4 rmT~~eFe~~~~~l---------~~~~-~~~~~A~lyYv~g~tQ~eIA~~lGiSR~~VsrlL~~Ar~~~~   63 (101)
T 2w7n_A            4 RLTESQFQEAIQGL---------EVGQ-QTIEIARGVLVDGKPQATFATSLGLTRGAVSQAVHRVWAAFE   63 (101)
T ss_dssp             CCCHHHHHHHHTTC---------CCCH-HHHHHHHHHHTTCCCHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHccC---------ChHH-HHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence            69999999988665         1322 335567778889999999999999999999999988776643
>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
>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
>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
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster} 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
>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
>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
>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
>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
>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
>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
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster} 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
>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
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton, headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1 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
>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
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 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
>2jrt_A Uncharacterized protein; solution, structure, NESG, PSI, target RHR5, structural genomics, protein structure initiative; NMR {Rhodobacter sphaeroides} 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
>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
>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
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} 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
>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A Back     alignment and structure
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} Back     alignment and structure
>1qzp_A Dematin; villin headpiece, actin binding domain, protein binding; NMR {Homo sapiens} SCOP: a.14.1.1 PDB: 1zv6_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
>2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri} 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
>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
>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
>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
>1yu8_X Villin; alpha helix, 3-10 helix, structural protein; 1.45A {Gallus gallus} SCOP: a.14.1.1 PDB: 1qqv_A 1yu5_X 2rjx_A 2rjy_A 1yu7_X 2rjv_A 2rjw_A 3nkj_A 3myc_A 3mya_A 3mye_X 1unc_A 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
>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
>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
>2k6m_S Supervillin; SVHP, HP, headpiece, archvillin, actin capping, actin-binding, alternative splicing, calcium, cytoplasm, cytoskeleton, membrane; NMR {Homo sapiens} PDB: 2k6n_A 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 ?
Query468
d1ijwc_47 HIN recombinase (DNA-binding domain) {Synthetic} 95.91
d1hlva166 DNA-binding domain of centromere binding protein B 94.83
d1rp3a271 Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta 93.91
d1or7a168 SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 92.28
d1unda_36 Advillin {Human (Homo sapiens) [TaxId: 9606]} 89.05
d1yu8x135 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 88.89
d2jn6a189 Uncharacterized protein Cgl2762 {Corynebacterium g 88.88
d1k78a163 Pax-5 {Human (Homo sapiens) [TaxId: 9606]} 88.54
d1pdnc_123 Paired protein (prd) {Fruit fly (Drosophila melano 88.12
d1s7oa_106 Hypothetical protein SPy1201 {Streptococcus pyogen 88.0
d1i5za169 Catabolite gene activator protein (CAP), C-termina 85.12
d1lnwa_141 MexR repressor {Pseudomonas aeruginosa [TaxId: 287 84.47
d1a04a167 Nitrate/nitrite response regulator (NarL) {Escheri 83.56
d1xsva_106 Hypothetical protein SAV1236 {Staphylococcus aureu 83.56
d1l3la165 Quorum-sensing transcription factor TraR, C-termin 83.38
d1qzpa_68 Dematin {Human (Homo sapiens) [TaxId: 9606]} 82.5
d1ku3a_61 Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 82.28
d1fsea_67 Germination protein GerE {Bacillus subtilis [TaxId 82.03
d3e5ua180 Chlorophenol reduction protein CprK {Desulfitobact 81.79
d1ft9a180 CO-sensing protein CooA, C-terminal domain {Rhodos 81.74
d1yu5x167 Villin {Chicken (Gallus gallus) [TaxId: 9031]} 80.8
d1yioa170 Response regulatory protein StyR, C-terminal domai 80.54
>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=95.91  E-value=0.002  Score=43.49  Aligned_cols=38  Identities=11%  Similarity=0.114  Sum_probs=33.2

Q ss_pred             CCCHHHHHHHHHhhhccCccHHHHhhhccCCcchhHHHH
Q 012200          164 SLPSDYAVAMVLSRLAHGLSAKALASRYSLEPYLISKIT  202 (468)
Q Consensus       164 ~l~~e~~L~i~L~~La~g~s~~~la~~Fgvs~sTvsri~  202 (468)
                      .++. +|+.-+...++.|.+..+||..||||++|++|++
T Consensus         5 ~lt~-~q~~~a~~l~~~G~s~~~iA~~~gVSr~TiYry~   42 (47)
T d1ijwc_           5 AINK-HEQEQISRLLEKGHPRQQLAIIFGIGVSTLYRYF   42 (47)
T ss_dssp             SSCH-HHHHHHHHHHHTTCCHHHHHHHHTCCHHHHHHHS
T ss_pred             cCCH-HHHHHHHHHHHCCCCHHHHHHHHCcCHHHHHhhC
Confidence            4444 6788888999999999999999999999999885
>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
>d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} 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
>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
>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
>d1pdnc_ a.4.1.5 (C:) Paired protein (prd) {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Back     information, alignment and structure
>d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} 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
>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]} 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
>d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} 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
>d1qzpa_ a.14.1.1 (A:) Dematin {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Back     information, alignment and structure
>d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} 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
>d1ft9a1 a.4.5.4 (A:134-213) CO-sensing protein CooA, C-terminal domain {Rhodospirillum rubrum [TaxId: 1085]} Back     information, alignment and structure
>d1yu5x1 a.14.1.1 (X:10-76) Villin {Chicken (Gallus gallus) [TaxId: 9031]} 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