Citrus Sinensis ID: 012490

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--
MDPNKQNLENPENHSNEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTLTHISLSASSTLSPSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccHHHHHHHHHccccEEEEEEEccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHHHHcccEEEEEcccEEEccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccc
cccccccccccccccHHHHcccccccccccHHHHHHHcccccccccccEcccccccccHcccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccccHHHccccEEEEEcccccccccHHHHHHHcccccEEEEEEEcHHHHcEcccccEcccHHHHHHHHHHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHccEEEEEEEccccHHHHHHHHHHHHHHHHcccEEEEEcccccccHHHccccHHHccccHHHHHHHHHcccccccccccccccccccccHccccccccHHHccccccccccccccccHHHccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHcccccHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHccccccccHHHcc
mdpnkqnlenpenhsneeqnplatipsqspfatlslsfslpqvlpantffiqpkistlfshqpnkvkvptqastlthislsasstlspskisfkstlsanplqsplslgphrpldpnngaaiRRASIVWFRndlrvhdneslntannesvsvlpvycfdprdygksssgfdktgpyrASFLIESVSDLRKNLQARGSdlvvrvgkPETVLVELAKAIGAdavyahrevshdevksEEKIEAAMKDEGIevkyfwgstlyhlddlpfklgemptnyggfrekvkGVEIRKTIEALDQlkglpsrgdvepgdipslldlglsqsaamsqggkpaansmkggETEALQRLKKFAAEYqaqppkgnkdgnhdsiyganfsckispwlamgclsprsmfDELKKTATSISaaskwndgesgssgagsnWLMFELLWRDFFRFITKKYSSAKKVVeavpatactgala
mdpnkqnlenpenhsneeqnpLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTLTHISlsasstlspSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDneslntannesvsvlpVYCFDPRDYGKsssgfdktgpyRASFLIESVSDLRKNLQArgsdlvvrvgkPETVLVELAKAIGADAVYAHrevshdevkseeKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEAldqlkglpsrgdvEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAqppkgnkdgnhDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSIsaaskwndgesgssgagsNWLMFELLWRDFFRFITKKYssakkvveavpatactgala
MDPNKQNLENPENHSNEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQAstlthislsasstlspskisFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA
*******************************ATLSLSFSLPQVLPANTFFIQPKISTLFS************************************************************AIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYG*******KTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREV***************KDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALD*************************************************************************SIYGANFSCKISPWLAMGCLSPRSMF***************************SNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATAC*****
******************************FATLSLSFSLPQVLPANTFFIQPK*************VPTQA******************************************************IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISA*************AGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATA****LA
*******************NPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTLTHISLSASSTLSPSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHR**********EKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSA******************EALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASK**********AGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA
*******************NPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTL******************KSTLSANPLQSPLSLGPH*****NN**AIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKW****SGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTG*L*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDPNKQNLENPENHSNEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTLTHISLSASSTLSPSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA
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 ?
Query462 2.2.26 [Sep-21-2011]
Q8LB72447 Blue-light photoreceptor yes no 0.954 0.986 0.700 1e-172
Q4KML2 520 Cryptochrome DASH OS=Dani yes no 0.647 0.575 0.401 6e-60
Q7NMD1 500 Cryptochrome DASH OS=Gloe yes no 0.642 0.594 0.406 1e-59
Q75WS4 523 Cryptochrome DASH OS=Xeno N/A no 0.642 0.567 0.391 1e-57
P77967 489 Cryptochrome DASH OS=Syne N/A no 0.632 0.597 0.380 1e-56
Q84KJ5 569 Cryptochrome DASH, chloro no no 0.636 0.516 0.376 4e-53
Q38JU2 577 Cryptochrome DASH, chloro N/A no 0.636 0.509 0.376 3e-52
Q651U1 582 Cryptochrome DASH, chloro no no 0.623 0.494 0.371 4e-52
Q7UJB1 488 Cryptochrome DASH OS=Rhod yes no 0.642 0.608 0.362 7e-52
Q3IPX9 474 Cryptochrome DASH OS=Natr yes no 0.642 0.626 0.353 1e-48
>sp|Q8LB72|PHR2_ARATH Blue-light photoreceptor PHR2 OS=Arabidopsis thaliana GN=PHR2 PE=2 SV=2 Back     alignment and function desciption
 Score =  606 bits (1563), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 321/458 (70%), Positives = 380/458 (82%), Gaps = 17/458 (3%)

Query: 5   KQNLENPENHSNEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPN 64
           ++NL NPE  S EEQNPLA   S  P A+LSL+     + P++T F++     LF+H PN
Sbjct: 7   EENL-NPETKSAEEQNPLAIFHSSLPIASLSLT-----LFPSSTQFLK-----LFAHHPN 55

Query: 65  KVKVPTQASTLTHISLSASSTLSPSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRR 124
           KVK+PTQAS+LTH+SLS+ S    S+ISFKST++ANPLQSPLS+ P RP+DP++ AA+RR
Sbjct: 56  KVKIPTQASSLTHLSLSSVSPFPSSRISFKSTIAANPLQSPLSIVPRRPVDPSSAAALRR 115

Query: 125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIES 184
           A++VWFRNDLRVHDNE LN+AN+E VSVLPVYCFDPRDYGKSSSGFDKTGP+RA FLIES
Sbjct: 116 AAVVWFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKSSSGFDKTGPFRAQFLIES 175

Query: 185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK 244
           VS+LRKNLQARGS+LVVRVGKPE VLVELAK IGADAVYAHREVSHDEVK+E KIE AMK
Sbjct: 176 VSELRKNLQARGSNLVVRVGKPEAVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMK 235

Query: 245 DEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRG 304
           +EG+EVKYFWGSTLYHLDDLPFK+ ++P+NYG F++KV+ +EIRKTI ALDQLK LPSRG
Sbjct: 236 EEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQKLEIRKTIAALDQLKSLPSRG 295

Query: 305 DVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKD 364
           DVE GDIPSLLDLG+S +   SQ GKP   +M GGETEAL RLK FAA+ QA+  KGN+ 
Sbjct: 296 DVELGDIPSLLDLGISPTPRTSQEGKP---TMVGGETEALTRLKSFAADCQARLSKGNQK 352

Query: 365 GNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNW 424
           G ++S++GANFSCKISPWLAMG +SPRSMFDELKKT ++ + ++   +G   +   G NW
Sbjct: 353 GGNNSVFGANFSCKISPWLAMGSISPRSMFDELKKTISASTTSTTPRNGPGDT---GLNW 409

Query: 425 LMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA 462
           LM+ELLWRDFFRFITKKYSSAK  VEA PATACTGA A
Sbjct: 410 LMYELLWRDFFRFITKKYSSAKTQVEAGPATACTGAFA 447

Arabidopsis thaliana (taxid: 3702)
>sp|Q4KML2|CRYD_DANRE Cryptochrome DASH OS=Danio rerio GN=cry-dash PE=2 SV=2 Back     alignment and function description
>sp|Q7NMD1|CRYD_GLOVI Cryptochrome DASH OS=Gloeobacter violaceus (strain PCC 7421) GN=cry PE=3 SV=1 Back     alignment and function description
>sp|Q75WS4|CRYD_XENLA Cryptochrome DASH OS=Xenopus laevis GN=cry-dash PE=2 SV=1 Back     alignment and function description
>sp|P77967|CRYD_SYNY3 Cryptochrome DASH OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=cry PE=1 SV=2 Back     alignment and function description
>sp|Q84KJ5|CRYD_ARATH Cryptochrome DASH, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=CRYD PE=1 SV=2 Back     alignment and function description
>sp|Q38JU2|CRYD_SOLLC Cryptochrome DASH, chloroplastic/mitochondrial OS=Solanum lycopersicum GN=CRYD PE=3 SV=2 Back     alignment and function description
>sp|Q651U1|CRYD_ORYSJ Cryptochrome DASH, chloroplastic/mitochondrial OS=Oryza sativa subsp. japonica GN=CRYD PE=2 SV=1 Back     alignment and function description
>sp|Q7UJB1|CRYD_RHOBA Cryptochrome DASH OS=Rhodopirellula baltica (strain SH1) GN=cry PE=3 SV=2 Back     alignment and function description
>sp|Q3IPX9|CRYD_NATPD Cryptochrome DASH OS=Natronomonas pharaonis (strain DSM 2160 / ATCC 35678) GN=cry PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query462
255564190458 DNA photolyase, putative [Ricinus commun 0.932 0.941 0.791 0.0
224068346471 predicted protein [Populus trichocarpa] 0.984 0.966 0.751 0.0
118484811457 unknown [Populus trichocarpa] 0.976 0.986 0.760 0.0
225437398454 PREDICTED: blue-light photoreceptor PHR2 0.978 0.995 0.730 0.0
224128470424 predicted protein [Populus trichocarpa] 0.904 0.985 0.756 0.0
449436489451 PREDICTED: blue-light photoreceptor PHR2 0.971 0.995 0.689 0.0
449436487459 PREDICTED: blue-light photoreceptor PHR2 0.987 0.993 0.686 0.0
356535153440 PREDICTED: blue-light photoreceptor PHR2 0.928 0.975 0.736 0.0
357442473456 DNA photolyase protein [Medicago truncat 0.857 0.868 0.788 1e-180
388494660456 unknown [Medicago truncatula] 0.857 0.868 0.785 1e-179
>gi|255564190|ref|XP_002523092.1| DNA photolyase, putative [Ricinus communis] gi|223537654|gb|EEF39277.1| DNA photolyase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  686 bits (1771), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 352/445 (79%), Positives = 386/445 (86%), Gaps = 14/445 (3%)

Query: 22  LATIPSQS--PFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPNKVKVPTQASTLTHIS 79
           LA +P QS  PFAT SLS SL  +LP + FF QPKI++LFS  P K ++P+QAS LTH+S
Sbjct: 24  LAIVPPQSSPPFATASLSLSLSTILPTH-FFNQPKITSLFSSAPTKARIPSQASALTHLS 82

Query: 80  LSASSTLSPSKISFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRRASIVWFRNDLRVHDN 139
           LS S TL   ++SFKST+SANPL + LSLGP RP DP+N A IRRASIVWFRNDLRVHDN
Sbjct: 83  LS-SQTLHHPRLSFKSTISANPLHNTLSLGPRRPSDPSNAAGIRRASIVWFRNDLRVHDN 141

Query: 140 ESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDL 199
           E LN+ANNES+SVLPVYCFDPR+YGKSSSGFDKTGPYRASFLIESV+DLRKNLQ RGSDL
Sbjct: 142 ECLNSANNESMSVLPVYCFDPREYGKSSSGFDKTGPYRASFLIESVTDLRKNLQDRGSDL 201

Query: 200 VVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLY 259
           VVRVGKPETVLVELAKAIGADAVYAH+EVSHDEVK+E+KIEAAMKDEG+EVKYFWGSTLY
Sbjct: 202 VVRVGKPETVLVELAKAIGADAVYAHKEVSHDEVKAEDKIEAAMKDEGVEVKYFWGSTLY 261

Query: 260 HLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGL 319
           H+DDLPFKL +MP+NYGGFREKV G+E+RKTI ALDQLKG PSRGDVEPG+IPSLLDLGL
Sbjct: 262 HVDDLPFKLEDMPSNYGGFREKVHGLEVRKTIAALDQLKGKPSRGDVEPGEIPSLLDLGL 321

Query: 320 SQSAAMSQGGKPAAN-SMKGGETEALQRLKKFAAEYQAQPPKGNKDGNHDSIYGANFSCK 378
           +     +QGGKPAA  SM GGETEALQRLKKFAAE QAQPPKG   G+ DSIYGANFSCK
Sbjct: 322 NP----TQGGKPAATASMVGGETEALQRLKKFAAECQAQPPKG---GSQDSIYGANFSCK 374

Query: 379 ISPWLAMGCLSPRSMFDELKKTAT-SISAASKWNDGESGSSGAGSNWLMFELLWRDFFRF 437
           ISPWL MGC+SPRSMFDELKKTAT +ISAASK NDG S     G NWLMFELLWRDFFRF
Sbjct: 375 ISPWLTMGCISPRSMFDELKKTATRTISAASKGNDGGS-PPDTGMNWLMFELLWRDFFRF 433

Query: 438 ITKKYSSAKKVVEAVPATACTGALA 462
           ITKKYSS KK +EA PATACTGALA
Sbjct: 434 ITKKYSSPKKQLEATPATACTGALA 458

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224068346|ref|XP_002302716.1| predicted protein [Populus trichocarpa] gi|222844442|gb|EEE81989.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|118484811|gb|ABK94273.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|225437398|ref|XP_002270248.1| PREDICTED: blue-light photoreceptor PHR2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224128470|ref|XP_002320340.1| predicted protein [Populus trichocarpa] gi|222861113|gb|EEE98655.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449436489|ref|XP_004136025.1| PREDICTED: blue-light photoreceptor PHR2-like isoform 2 [Cucumis sativus] gi|449498514|ref|XP_004160558.1| PREDICTED: blue-light photoreceptor PHR2-like isoform 2 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449436487|ref|XP_004136024.1| PREDICTED: blue-light photoreceptor PHR2-like isoform 1 [Cucumis sativus] gi|449498510|ref|XP_004160557.1| PREDICTED: blue-light photoreceptor PHR2-like isoform 1 [Cucumis sativus] Back     alignment and taxonomy information
>gi|356535153|ref|XP_003536113.1| PREDICTED: blue-light photoreceptor PHR2-like [Glycine max] Back     alignment and taxonomy information
>gi|357442473|ref|XP_003591514.1| DNA photolyase protein [Medicago truncatula] gi|355480562|gb|AES61765.1| DNA photolyase protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|388494660|gb|AFK35396.1| unknown [Medicago truncatula] 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 ?
Query462
TAIR|locus:2061961447 PHR2 "photolyase/blue-light re 0.954 0.986 0.683 1.9e-161
ZFIN|ZDB-GENE-040617-2 521 cry-dash "cryptochrome DASH" [ 0.575 0.510 0.419 1.7e-50
TAIR|locus:2093217 556 UVR3 "UV REPAIR DEFECTIVE 3" [ 0.694 0.577 0.283 5.1e-20
FB|FBgn0016054 540 phr6-4 "(6-4)-photolyase" [Dro 0.575 0.492 0.276 2.2e-15
ZFIN|ZDB-GENE-010426-7 582 cry4 "cryptochrome 4" [Danio r 0.625 0.496 0.306 4.4e-15
UNIPROTKB|F1PNC9 593 CRY2 "Uncharacterized protein" 0.558 0.435 0.298 1.6e-14
UNIPROTKB|Q8QG60 582 CRY2 "Cryptochrome-2" [Gallus 0.556 0.441 0.289 3.4e-14
MGI|MGI:1270859 592 Cry2 "cryptochrome 2 (photolya 0.558 0.435 0.298 4.6e-14
RGD|620935 594 Cry2 "cryptochrome 2 (photolya 0.558 0.434 0.298 4.6e-14
UNIPROTKB|Q923I8 594 Cry2 "Cryptochrome-2" [Rattus 0.558 0.434 0.298 4.6e-14
TAIR|locus:2061961 PHR2 "photolyase/blue-light receptor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1572 (558.4 bits), Expect = 1.9e-161, P = 1.9e-161
 Identities = 313/458 (68%), Positives = 364/458 (79%)

Query:     5 KQNLENPENHSNEEQNPLATIPSQSPFATLSLSFSLPQVLPANTFFIQPKISTLFSHQPN 64
             ++NL NPE  S EEQNPLA   S  P A+LSL+     + P++T F++     LF+H PN
Sbjct:     7 EENL-NPETKSAEEQNPLAIFHSSLPIASLSLT-----LFPSSTQFLK-----LFAHHPN 55

Query:    65 KVKVPTQAXXXXXXXXXXXXXXXXXXXXFKSTLSANPLQSPLSLGPHRPLDPNNGAAIRR 124
             KVK+PTQA                    FKST++ANPLQSPLS+ P RP+DP++ AA+RR
Sbjct:    56 KVKIPTQASSLTHLSLSSVSPFPSSRISFKSTIAANPLQSPLSIVPRRPVDPSSAAALRR 115

Query:   125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIES 184
             A++VWFRNDLRVHDNE LN+AN+E VSVLPVYCFDPRDYGKSSSGFDKTGP+RA FLIES
Sbjct:   116 AAVVWFRNDLRVHDNECLNSANDECVSVLPVYCFDPRDYGKSSSGFDKTGPFRAQFLIES 175

Query:   185 VSDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMK 244
             VS+LRKNLQARGS+LVVRVGKPE VLVELAK IGADAVYAHREVSHDEVK+E KIE AMK
Sbjct:   176 VSELRKNLQARGSNLVVRVGKPEAVLVELAKEIGADAVYAHREVSHDEVKAEGKIETAMK 235

Query:   245 DEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVEIRKTIEALDQLKGLPSRG 304
             +EG+EVKYFWGSTLYHLDDLPFK+ ++P+NYG F++KV+ +EIRKTI ALDQLK LPSRG
Sbjct:   236 EEGVEVKYFWGSTLYHLDDLPFKIEDLPSNYGAFKDKVQKLEIRKTIAALDQLKSLPSRG 295

Query:   305 DVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKD 364
             DVE GDIPSLLDLG+S +   SQ GKP   +M GGETEAL RLK FAA+ QA+  KGN+ 
Sbjct:   296 DVELGDIPSLLDLGISPTPRTSQEGKP---TMVGGETEALTRLKSFAADCQARLSKGNQK 352

Query:   365 GNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNW 424
             G ++S++GANFSCKISPWLAMG +SPRSMFDELKKT   ISA++      +G    G NW
Sbjct:   353 GGNNSVFGANFSCKISPWLAMGSISPRSMFDELKKT---ISASTTSTTPRNGPGDTGLNW 409

Query:   425 LMFELLWRDFFRFITKKYSSAKKVVEAVPATACTGALA 462
             LM+ELLWRDFFRFITKKYSSAK  VEA PATACTGA A
Sbjct:   410 LMYELLWRDFFRFITKKYSSAKTQVEAGPATACTGAFA 447
GO:0003913 "DNA photolyase activity" evidence=IEA;NAS
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA;ISS
GO:0000023 "maltose metabolic process" evidence=RCA
GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA
GO:0016117 "carotenoid biosynthetic process" evidence=RCA
GO:0019252 "starch biosynthetic process" evidence=RCA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
ZFIN|ZDB-GENE-040617-2 cry-dash "cryptochrome DASH" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2093217 UVR3 "UV REPAIR DEFECTIVE 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
FB|FBgn0016054 phr6-4 "(6-4)-photolyase" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-010426-7 cry4 "cryptochrome 4" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|F1PNC9 CRY2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q8QG60 CRY2 "Cryptochrome-2" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
MGI|MGI:1270859 Cry2 "cryptochrome 2 (photolyase-like)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|620935 Cry2 "cryptochrome 2 (photolyase-like)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q923I8 Cry2 "Cryptochrome-2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q8LB72PHR2_ARATHNo assigned EC number0.70080.95450.9865yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query462
TIGR02765 429 TIGR02765, crypto_DASH, cryptochrome, DASH family 3e-87
pfam00875164 pfam00875, DNA_photolyase, DNA photolyase 1e-53
COG0415 461 COG0415, PhrB, Deoxyribodipyrimidine photolyase [D 3e-49
TIGR03556 471 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine 1e-25
pfam03441 276 pfam03441, FAD_binding_7, FAD binding domain of DN 4e-10
TIGR02766 475 TIGR02766, crypt_chrom_pln, cryptochrome, plant fa 1e-09
PRK10674 472 PRK10674, PRK10674, deoxyribodipyrimidine photolya 7e-08
PRK10674 472 PRK10674, PRK10674, deoxyribodipyrimidine photolya 1e-06
>gnl|CDD|234002 TIGR02765, crypto_DASH, cryptochrome, DASH family Back     alignment and domain information 
 Score =  273 bits (699), Expect = 3e-87
 Identities = 137/318 (43%), Positives = 190/318 (59%), Gaps = 26/318 (8%)

Query: 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSS-SGFDKTGPYRASFLIESV 185
           + WFRNDLRVHDN +L  A++ S +++P+YCFDPR +  +   GF KTGP R  FL+ES+
Sbjct: 4   LYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESL 63

Query: 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKD 245
            DLR +L+  GSDL+VR GKPE VL EL K +G   V+ H+EV  +E   E  ++ A+  
Sbjct: 64  KDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALAR 123

Query: 246 EGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKGVE-IRKTIEALDQLKGLPSRG 304
            GI V+  WGSTLYH DDLPF L ++P  +  FR++V+    IR  + A ++L  LPS  
Sbjct: 124 LGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEAKCSIRPPLPAPEKLPPLPS-- 181

Query: 305 DVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNKD 364
             +PG IP+L DLG   S               GGET  L RLK++      +  K  ++
Sbjct: 182 VDDPGWIPTLEDLGEESSEVDR------GLPFVGGETAGLARLKEYFWSKDLKSYKETRN 235

Query: 365 GNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNW 424
           G    + G ++S K SPWLA+GC+SPR +++EL++  T   A    ND         + W
Sbjct: 236 G----MLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGA----ND--------STYW 279

Query: 425 LMFELLWRDFFRFITKKY 442
           ++FELLWRD+FRF   KY
Sbjct: 280 VIFELLWRDYFRFYALKY 297

Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes [Cellular processes, Adaptations to atypical conditions, Regulatory functions, DNA interactions]. Length = 429
>gnl|CDD|216167 pfam00875, DNA_photolyase, DNA photolyase Back     alignment and domain information
>gnl|CDD|223492 COG0415, PhrB, Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|132595 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine photo-lyase, 8-HDF type Back     alignment and domain information
>gnl|CDD|217559 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase Back     alignment and domain information
>gnl|CDD|131813 TIGR02766, crypt_chrom_pln, cryptochrome, plant family Back     alignment and domain information
>gnl|CDD|236734 PRK10674, PRK10674, deoxyribodipyrimidine photolyase; Provisional Back     alignment and domain information
>gnl|CDD|236734 PRK10674, PRK10674, deoxyribodipyrimidine photolyase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 462
TIGR02765 429 crypto_DASH cryptochrome, DASH family. Photolyases 100.0
TIGR03556 471 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 100.0
COG0415 461 PhrB Deoxyribodipyrimidine photolyase [DNA replica 100.0
TIGR02766 475 crypt_chrom_pln cryptochrome, plant family. At lea 100.0
PRK10674 472 deoxyribodipyrimidine photolyase; Provisional 100.0
TIGR00591 454 phr2 photolyase PhrII. All proteins in this family 100.0
PF00875165 DNA_photolyase: DNA photolyase from Prosite.; Inte 100.0
KOG0133 531 consensus Deoxyribodipyrimidine photolyase/cryptoc 100.0
COG3046 505 Uncharacterized protein related to deoxyribodipyri 99.83
PF03441 277 FAD_binding_7: FAD binding domain of DNA photolyas 99.73
KOG0133531 consensus Deoxyribodipyrimidine photolyase/cryptoc 99.12
PF04244224 DPRP: Deoxyribodipyrimidine photo-lyase-related pr 98.48
cd01994194 Alpha_ANH_like_IV This is a subfamily of Adenine n 91.14
PRK12652357 putative monovalent cation/H+ antiporter subunit E 90.98
TIGR00289222 conserved hypothetical protein TIGR00289. Homologo 90.93
TIGR00290223 MJ0570_dom MJ0570-related uncharacterized domain. 87.88
COG2102223 Predicted ATPases of PP-loop superfamily [General 87.82
cd00293130 USP_Like Usp: Universal stress protein family. The 85.2
PRK09982142 universal stress protein UspD; Provisional 83.89
cd01988132 Na_H_Antiporter_C The C-terminal domain of a subfa 82.43
cd01989146 STK_N The N-terminal domain of Eukaryotic Serine T 81.8
PRK15005144 universal stress protein F; Provisional 80.24
>TIGR02765 crypto_DASH cryptochrome, DASH family Back     alignment and domain information 
Probab=100.00  E-value=5.5e-54  Score=451.10  Aligned_cols=296  Identities=45%  Similarity=0.819  Sum_probs=235.4

Q ss_pred             CeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCC-CCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEE
Q 012490          124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGK-SSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVR  202 (462)
Q Consensus       124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~-~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~  202 (462)
                      +.+|||||||||++||+||.+|++.+.+|+||||+||+++.. +..+....|.+|..||++||++|+++|+++|++|+|+
T Consensus         1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~   80 (429)
T TIGR02765         1 KVVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVR   80 (429)
T ss_pred             CeEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence            468999999999999999999998888899999999988752 2122234789999999999999999999999999999


Q ss_pred             ECChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHH
Q 012490          203 VGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV  282 (462)
Q Consensus       203 ~G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~  282 (462)
                      .|++.++|.+|+++++|++||+|++|++++++||++|++.|++.||+++.+++++|++++++++..|++|++|++|+++|
T Consensus        81 ~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~~~~  160 (429)
T TIGR02765        81 SGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLEDLPDVFTQFRKQV  160 (429)
T ss_pred             eCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCCCCCCchHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999998899999999999998


Q ss_pred             hh-ccccccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHHHH-HhcCCCC
Q 012490          283 KG-VEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAE-YQAQPPK  360 (462)
Q Consensus       283 ~~-l~~~~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl~~-~l~~Y~~  360 (462)
                      ++ ...+++.+.|..+...+..  .....+|+++++++...      .......|+|||++|+++|++|+.+ ++.+|..
T Consensus       161 ~~~~~~~~~~~~p~~~~~~~~~--~~~~~~~~l~~~~~~~~------~~~~~~~~~gGe~~A~~~L~~Fl~~~~l~~Y~~  232 (429)
T TIGR02765       161 EAKCSIRPPLPAPEKLPPLPSV--DDPGWIPTLEDLGEESS------EVDRGLPFVGGETAGLARLKEYFWSKDLKSYKE  232 (429)
T ss_pred             HhhCCCCCCCCCcccCCCCccc--ccccCCCChhhcCCCcc------cccccCCcCchHHHHHHHHHHHHhhccHhhhhh
Confidence            75 3333333333332221110  00111344444433221      0111224899999999999999984 5777766


Q ss_pred             CCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHH
Q 012490          361 GNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITK  440 (462)
Q Consensus       361 ~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il~  440 (462)
                      .     ||..++.++||+|||||+|||||||+|++++.+.....            ...++..|+++||+|||||+++++
T Consensus       233 ~-----R~~~~~~~~tS~LSpyL~~G~iS~r~v~~~~~~~~~~~------------~~~~~~~~~~~eL~WRef~~~~~~  295 (429)
T TIGR02765       233 T-----RNGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETER------------GANDSTYWVIFELLWRDYFRFYAL  295 (429)
T ss_pred             c-----cCcccCCCCcCccCHHHhCCcccHHHHHHHHHHHHhhc------------ccCCCcHHHHHHHHHHHHHHHHHH
Confidence            3     77556678899999999999999999999997743211            012234578789999999999999


Q ss_pred             hCCc
Q 012490          441 KYSS  444 (462)
Q Consensus       441 ~~P~  444 (462)
                      +||.
T Consensus       296 ~~~~  299 (429)
T TIGR02765       296 KYGN  299 (429)
T ss_pred             HcCC
Confidence            9985

Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type Back     alignment and domain information
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR02766 crypt_chrom_pln cryptochrome, plant family Back     alignment and domain information
>PRK10674 deoxyribodipyrimidine photolyase; Provisional Back     alignment and domain information
>TIGR00591 phr2 photolyase PhrII Back     alignment and domain information
>PF00875 DNA_photolyase: DNA photolyase from Prosite Back     alignment and domain information
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms] Back     alignment and domain information
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only] Back     alignment and domain information
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite Back     alignment and domain information
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms] Back     alignment and domain information
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases Back     alignment and domain information
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily Back     alignment and domain information
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed Back     alignment and domain information
>TIGR00289 conserved hypothetical protein TIGR00289 Back     alignment and domain information
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain Back     alignment and domain information
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only] Back     alignment and domain information
>cd00293 USP_Like Usp: Universal stress protein family Back     alignment and domain information
>PRK09982 universal stress protein UspD; Provisional Back     alignment and domain information
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea Back     alignment and domain information
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases Back     alignment and domain information
>PRK15005 universal stress protein F; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query462
1np7_A 489 Crystal Structure Analysis Of Synechocystis Sp. Pcc 9e-58
2vtb_B 525 Structure Of Cryptochrome 3 - Dna Complex Length = 3e-54
2ijg_X 526 Crystal Structure Of Cryptochrome 3 From Arabidopsi 3e-54
2j4d_A 525 Cryptochrome 3 From Arabidopsis Thaliana Length = 5 4e-54
3fy4_A 537 (6-4) Photolyase Crystal Structure Length = 537 1e-19
3cvw_A 543 Drosophila Melanogaster (6-4) Photolyase H365n Muta 6e-17
3cvx_A 543 Drosophila Melanogaster (6-4) Photolyase H369m Muta 6e-17
3cvu_A 543 Drosophila Melanogaster (6-4) Photolyase Bound To D 7e-17
1owl_A 484 Structure Of Apophotolyase From Anacystis Nidulans 1e-15
1tez_A 474 Complex Between Dna And The Dna Photolyase From Ana 1e-15
2e0i_A 440 Crystal Structure Of Archaeal Photolyase From Sulfo 9e-12
4gu5_A 539 Structure Of Full-Length Drosophila Cryptochrome Le 5e-11
1dnp_A 471 Structure Of Deoxyribodipyrimidine Photolyase Lengt 2e-09
1iqr_A420 Crystal Structure Of Dna Photolyase From Thermus Th 2e-07
1u3c_A 509 Crystal Structure Of The Phr Domain Of Cryptochrome 8e-06
>pdb|1NP7|A Chain A, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803 Cryptochrome Length = 489 Back     alignment and structure 
Iteration: 1

 Score =  221 bits (562), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 118/321 (36%), Positives = 182/321 (56%), Gaps = 27/321 (8%)
Query: 127 IVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVS 186
           +VWFRNDLR+HD+E L+ A    +++  VYC+DPR + ++  GF KTGP+R++FL +SV 
Sbjct: 9   LVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQ 68
Query: 187 DLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDE 246
           +L ++LQ  G+ L+V  G PE V+ ++AK I A  +Y HREV+ +E+  E  +   +   
Sbjct: 69  NLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTIL 128
Query: 247 GIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV--KGVEIRKTIEALDQLKGLPSRG 304
           GIE K +WGSTL H +DLPF + ++P  +  FR+ +  K + IR    A  QL   P+  
Sbjct: 129 GIEAKGYWGSTLCHPEDLPFSIQDLPDLFTKFRKDIEKKKISIRPCFFAPSQLLPSPNIK 188
Query: 305 DVEPGDIPSLL-DLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFAAEYQAQPPKGNK 363
                  P     +     + +         + +GGET  L RL+ +   +     K  K
Sbjct: 189 LELTAPPPEFFPQINFDHRSVL---------AFQGGETAGLARLQDYF--WHGDRLKDYK 237
Query: 364 DGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSN 423
           +   + + GA++S K SPWLA+GCLSPR ++ E+K+              +   S   ++
Sbjct: 238 E-TRNGMVGADYSSKFSPWLALGCLSPRFIYQEVKRYE------------QERVSNDSTH 284
Query: 424 WLMFELLWRDFFRFITKKYSS 444
           WL+FELLWRDFFRF+ +KY +
Sbjct: 285 WLIFELLWRDFFRFVAQKYGN 305
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex Length = 525 Back     alignment and structure
>pdb|2IJG|X Chain X, Crystal Structure Of Cryptochrome 3 From Arabidopsis Thaliana Length = 526 Back     alignment and structure
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana Length = 525 Back     alignment and structure
>pdb|3FY4|A Chain A, (6-4) Photolyase Crystal Structure Length = 537 Back     alignment and structure
>pdb|3CVW|A Chain A, Drosophila Melanogaster (6-4) Photolyase H365n Mutant Bound To Ds Dna With A T-T (6-4) Photolesion And Cofactor F0 Length = 543 Back     alignment and structure
>pdb|3CVX|A Chain A, Drosophila Melanogaster (6-4) Photolyase H369m Mutant Bound To Ds Dna With A T-T (6-4) Photolesion Length = 543 Back     alignment and structure
>pdb|3CVU|A Chain A, Drosophila Melanogaster (6-4) Photolyase Bound To Ds Dna With A T-T (6-4) Photolesion Length = 543 Back     alignment and structure
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans Length = 484 Back     alignment and structure
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis Nidulans Length = 474 Back     alignment and structure
>pdb|2E0I|A Chain A, Crystal Structure Of Archaeal Photolyase From Sulfolobus Tokodaii With Two Fad Molecules: Implication Of A Novel Light-Harvesting Cofactor Length = 440 Back     alignment and structure
>pdb|4GU5|A Chain A, Structure Of Full-Length Drosophila Cryptochrome Length = 539 Back     alignment and structure
>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase Length = 471 Back     alignment and structure
>pdb|1IQR|A Chain A, Crystal Structure Of Dna Photolyase From Thermus Thermophilus Length = 420 Back     alignment and structure
>pdb|1U3C|A Chain A, Crystal Structure Of The Phr Domain Of Cryptochrome 1 From Arabidopsis Thaliana Length = 509 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query462
2j4d_A 525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 2e-87
1np7_A 489 DNA photolyase; protein with FAD cofactor; HET: DN 1e-84
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 4e-70
2wq7_A 543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 2e-68
3tvs_A 538 Cryptochrome-1; circadian clock light entrainment, 2e-62
1owl_A 484 Photolyase, deoxyribodipyrimidine photolyase; DNA 6e-51
2e0i_A 440 432AA long hypothetical deoxyribodipyrimidine PHO; 5e-47
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 5e-47
1dnp_A 471 DNA photolyase; DNA repair, electron transfer, exc 2e-42
2xry_A 482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 5e-40
2j07_A 420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 4e-39
3umv_A 506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 2e-30
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* Length = 525 Back     alignment and structure
 Score =  276 bits (707), Expect = 2e-87
 Identities = 122/359 (33%), Positives = 186/359 (51%), Gaps = 42/359 (11%)

Query: 97  LSANPLQSPLSLGPHRPLDPNNGAAIRRA---SIVWFRNDLRVHDNESLNTANNESVSVL 153
           L+   + S       R   P++ +  R+    +I+WFRNDLRV DN++L  A + S ++L
Sbjct: 10  LTEEEIDSVAIKTFERYALPSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAWSSSDTIL 69

Query: 154 PVYCFDPRDYGKSS-SGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVGKPETVLVE 212
           PVYC DPR +  +    F KTG  R  FL+E + DLRKNL  RG +L++R GKPE +L  
Sbjct: 70  PVYCLDPRLFHTTHFFNFPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPS 129

Query: 213 LAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEG--IEVKYFWGSTLYHLDDLPFKLGE 270
           LAK  GA  V+AH+E   +EV  E  +   +K  G   +++  WGST+YH DDLPF + +
Sbjct: 130 LAKDFGARTVFAHKETCSEEVDVERLVNQGLKRVGNSTKLELIWGSTMYHKDDLPFDVFD 189

Query: 271 MPTNYGGFREKV-KGVEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGG 329
           +P  Y  FR+ V     IR +      L   PS  D   GD+P+L  LG+          
Sbjct: 190 LPDVYTQFRKSVEAKCSIRSSTRIPLSLGPTPSVDD--WGDVPTLEKLGVEPQEVTR--- 244

Query: 330 KPAANSMKGGETEALQRLKKF------AAEYQAQPPKGNKDGNHDSIYGANFSCKISPWL 383
                   GGE+  + R+ ++         Y+            + + G ++S K SPWL
Sbjct: 245 ---GMRFVGGESAGVGRVFEYFWKKDLLKVYKET---------RNGMLGPDYSTKFSPWL 292

Query: 384 AMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFITKKY 442
           A GC+SPR +++E+++              +   +   + W++FEL+WRD+FRF++ K 
Sbjct: 293 AFGCISPRFIYEEVQRYE------------KERVANNSTYWVLFELIWRDYFRFLSIKC 339
>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} SCOP: a.99.1.1 c.28.1.1 Length = 489 Back     alignment and structure
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} Length = 537 Back     alignment and structure
>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* Length = 543 Back     alignment and structure
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB: 1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A* Length = 484 Back     alignment and structure
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD, DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii} Length = 440 Back     alignment and structure
>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein; HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} SCOP: a.99.1.1 c.28.1.1 PDB: 1u3c_A* Length = 509 Back     alignment and structure
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1 c.28.1.1 Length = 471 Back     alignment and structure
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Length = 482 Back     alignment and structure
>2j07_A Deoxyribodipyrimidine photo-lyase; flavoprotein, nucleotide-binding, DNA repair; HET: FAD HDF; 1.95A {Thermus thermophilus} SCOP: a.99.1.1 c.28.1.1 PDB: 1iqu_A* 1iqr_A* 2j08_A* 2j09_A* Length = 420 Back     alignment and structure
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine dimers, UV damaged DNA, DNA repai flavoprotein; HET: FAD; 1.71A {Oryza sativa japonica group} Length = 506 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query462
1np7_A 489 DNA photolyase; protein with FAD cofactor; HET: DN 100.0
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 100.0
2j4d_A 525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 100.0
1owl_A 484 Photolyase, deoxyribodipyrimidine photolyase; DNA 100.0
3tvs_A 538 Cryptochrome-1; circadian clock light entrainment, 100.0
2wq7_A 543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 100.0
1dnp_A 471 DNA photolyase; DNA repair, electron transfer, exc 100.0
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 100.0
2e0i_A 440 432AA long hypothetical deoxyribodipyrimidine PHO; 100.0
2j07_A 420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 100.0
3umv_A 506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 100.0
2xry_A 482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 100.0
3zxs_A 522 Cryptochrome B, rscryb; lyase, cryPro, lumazine, i 99.97
3dlo_A155 Universal stress protein; unknown function, struct 89.93
3fdx_A143 Putative filament protein / universal stress PROT; 88.54
3fg9_A156 Protein of universal stress protein USPA family; A 88.53
3tnj_A150 Universal stress protein (USP); structural genomic 88.01
3s3t_A146 Nucleotide-binding protein, universal stress PROT 87.64
2dum_A170 Hypothetical protein PH0823; conserved hypothetica 85.23
3hgm_A147 Universal stress protein TEAD; rossman fold, signa 83.97
1tq8_A163 Hypothetical protein RV1636; MTCY01B2.28, structur 80.83
3rjz_A237 N-type ATP pyrophosphatase superfamily; structural 80.14
>1np7_A DNA photolyase; protein with FAD cofactor; HET: DNA FAD; 1.90A {Synechocystis SP} SCOP: a.99.1.1 c.28.1.1 Back     alignment and structure
Probab=100.00  E-value=2.9e-55  Score=466.39  Aligned_cols=302  Identities=38%  Similarity=0.716  Sum_probs=249.3

Q ss_pred             CeEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEE
Q 012490          124 RASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRV  203 (462)
Q Consensus       124 ~~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~  203 (462)
                      +.+|||||||||++||+||.+|++.+.+|+||||+||.++..+..|+...+.+|+.||++||++|+++|+++|++|+|+.
T Consensus         6 ~~~l~WfrrDLRl~DN~aL~~A~~~~~~v~~vfi~dp~~~~~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~G~~L~v~~   85 (489)
T 1np7_A            6 PTVLVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQNLAESLQKVGNKLLVTT   85 (489)
T ss_dssp             CEEEEEESSCCCSTTCHHHHHHHHTTSEEEEEEEECGGGGSBCTTSCBSSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEECchhhcccccccCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEE
Confidence            46899999999999999999999988899999999998886544455578999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHh
Q 012490          204 GKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVK  283 (462)
Q Consensus       204 G~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~  283 (462)
                      |++.++|.+|++++++++|++|++|++++++||++|++.|++.||+++.+++++|++++++....|++|.+||+|+++|+
T Consensus        86 g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~~~~~~~~~g~~~~vft~F~~~~~  165 (489)
T 1np7_A           86 GLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTILGIEAKGYWGSTLCHPEDLPFSIQDLPDLFTKFRKDIE  165 (489)
T ss_dssp             SCHHHHHHHHHHHTTEEEEEEECCCSHHHHHHHHHHHHHHHHHTCEEEEECCSSSSCGGGSSSCGGGCCSSHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHhcCCeEEEecCCeeeCccccccCCCCCCchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998888899999999999998


Q ss_pred             -h-ccccccchhhccCCCCCCCCCCCCCCCCcccccCCCchhhhccCCCCCCCCCCccHHHHHHHHHHHH--HHHhcCCC
Q 012490          284 -G-VEIRKTIEALDQLKGLPSRGDVEPGDIPSLLDLGLSQSAAMSQGGKPAANSMKGGETEALQRLKKFA--AEYQAQPP  359 (462)
Q Consensus       284 -~-l~~~~~~~~p~~l~~~p~~~~~~~~~ip~l~~l~~~~~~~~~~~~~~~~~~~~gGE~aA~~~L~~Fl--~~~l~~Y~  359 (462)
                       + ..++.+++.|..+...+.  ......+|+++++++...      +......|+|||++|+++|++|+  .+++..|.
T Consensus       166 ~~~~~~~~p~~~p~~~~~~~~--~~~~~~~~~~~~l~~~~~------~~~~~~~~~~Ge~~A~~~L~~Fl~~~~~l~~Y~  237 (489)
T 1np7_A          166 KKKISIRPCFFAPSQLLPSPN--IKLELTAPPPEFFPQINF------DHRSVLAFQGGETAGLARLQDYFWHGDRLKDYK  237 (489)
T ss_dssp             TTTCCCCCCCCCCSCCCCCCC--CCCCCCCCCGGGSCCCCC------CTTSSCCCCCSHHHHHHHHHHHHTTSCCGGGHH
T ss_pred             HhccCCCCCCCCcccccCccc--cccccCCCCHhhcCCCCc------CccccCCCCCcHHHHHHHHHHHHhcchhHhhhh
Confidence             5 333334444433322211  112234666666665321      11112359999999999999999  56888888


Q ss_pred             CCCCCCCCCCCCCCCCcccCchhhhcCccCHHHHHHHHHHHhhhhcccccCCCCCCCCCCcchHHHHHHHHHHHHHHHHH
Q 012490          360 KGNKDGNHDSIYGANFSCKISPWLAMGCLSPRSMFDELKKTATSISAASKWNDGESGSSGAGSNWLMFELLWRDFFRFIT  439 (462)
Q Consensus       360 ~~~~~~~Rns~~~~~~TS~LSPYL~fG~ISpR~v~~~v~~~~~~~~~~~~k~~~g~~~~~~~~~~~~~EL~WREF~~~il  439 (462)
                      ..     ||++++.++||+|||||+|||||||+|++++.++....            ...++..||++||+|||||++++
T Consensus       238 ~~-----Rd~~~~~~~tS~LSpyL~~G~lSpr~v~~~~~~~~~~~------------~~~~~~~~f~~eL~WRef~~~~~  300 (489)
T 1np7_A          238 ET-----RNGMVGADYSSKFSPWLALGCLSPRFIYQEVKRYEQER------------VSNDSTHWLIFELLWRDFFRFVA  300 (489)
T ss_dssp             HH-----TTCCSSSTTSCCCHHHHHTTSSCHHHHHHHHHHHHHHT------------CCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             hc-----ccCCccccCCcCcChhhcCCCCCHHHHHHHHHHHhhcc------------cccchHHHHHHHHHHHHHHHHHH
Confidence            64     77666788999999999999999999999998843321            11345668889999999999999


Q ss_pred             HhCCccccccc
Q 012490          440 KKYSSAKKVVE  450 (462)
Q Consensus       440 ~~~P~~~~~~~  450 (462)
                      ++||++.....
T Consensus       301 ~~~p~~~~~~~  311 (489)
T 1np7_A          301 QKYGNKLFNRG  311 (489)
T ss_dssp             HHHGGGGGSTT
T ss_pred             HHCcchhhhhc
Confidence            99999864443
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} Back     alignment and structure
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* Back     alignment and structure
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB: 1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A* Back     alignment and structure
>2wq7_A RE11660P; lyase-DNA complex, DNA repair, DNA lesion, lyase; HET: TDY Z FAD; 2.00A {Drosophila melanogaster} PDB: 2wb2_A* 2wq6_A* 3cvu_A* 3cvv_A* 3cvy_A* 3cvw_A* 3cvx_A* Back     alignment and structure
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1 c.28.1.1 Back     alignment and structure
>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein; HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} SCOP: a.99.1.1 c.28.1.1 PDB: 1u3c_A* Back     alignment and structure
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD, DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii} Back     alignment and structure
>2j07_A Deoxyribodipyrimidine photo-lyase; flavoprotein, nucleotide-binding, DNA repair; HET: FAD HDF; 1.95A {Thermus thermophilus} SCOP: a.99.1.1 c.28.1.1 PDB: 1iqu_A* 1iqr_A* 2j08_A* 2j09_A* Back     alignment and structure
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine dimers, UV damaged DNA, DNA repai flavoprotein; HET: FAD; 1.71A {Oryza sativa japonica group} Back     alignment and structure
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Back     alignment and structure
>3zxs_A Cryptochrome B, rscryb; lyase, cryPro, lumazine, iron-sulfur-cluster; HET: FAD DLZ; 2.70A {Rhodobacter sphaeroides} Back     alignment and structure
>3dlo_A Universal stress protein; unknown function, structural genomics, PSI-2, protein struct initiative, midwest center for structural genomics; HET: MSE; 1.97A {Archaeoglobus fulgidus} PDB: 3qtb_A* Back     alignment and structure
>3fdx_A Putative filament protein / universal stress PROT; structural genomics, APC60640.1, universal protein F, PSI-2; HET: MSE ATP; 1.58A {Klebsiella pneumoniae subsp} PDB: 3fh0_A* Back     alignment and structure
>3fg9_A Protein of universal stress protein USPA family; APC60691, nucleotide- binding, lactobacillus plantarum WCFS1, structural genomics PSI-2; 1.47A {Lactobacillus plantarum} Back     alignment and structure
>3tnj_A Universal stress protein (USP); structural genomics, PSI-biology, midwest center for structu genomics, MCSG, chaperone; HET: AMP; 2.00A {Nitrosomonas europaea} PDB: 2pfs_A* Back     alignment and structure
>3s3t_A Nucleotide-binding protein, universal stress PROT family; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: ATP; 1.90A {Lactobacillus plantarum} SCOP: c.26.2.0 Back     alignment and structure
>2dum_A Hypothetical protein PH0823; conserved hypothetical protein, putative universal protein A structural genomics, NPPSFA; 2.75A {Pyrococcus horikoshii} Back     alignment and structure
>3hgm_A Universal stress protein TEAD; rossman fold, signaling protein; HET: ATP; 1.90A {Halomonas elongata} SCOP: c.26.2.0 Back     alignment and structure
>1tq8_A Hypothetical protein RV1636; MTCY01B2.28, structural target, NYSGXRC, PSI, protein structure initiative; 2.40A {Mycobacterium tuberculosis} SCOP: c.26.2.4 Back     alignment and structure
>3rjz_A N-type ATP pyrophosphatase superfamily; structural genomics, PSI-biology, northeast structural genom consortium, NESG, alpha-beta protein; 2.30A {Pyrococcus furiosus} SCOP: c.26.2.1 PDB: 3h7e_A 3rk0_A* 3rk1_A* 1ru8_A 2d13_A Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 462
d1np7a2204 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp. 1e-31
d1owla2202 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus e 9e-27
d2j07a2170 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermop 9e-21
d1u3da2185 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Ara 3e-20
d1dnpa2200 c.28.1.1 (A:1-200) DNA photolyase {Escherichia col 8e-20
d1np7a1 279 a.99.1.1 (A:205-483) Cryptochrome C-terminal domai 2e-10
d1u3da1 300 a.99.1.1 (A:198-497) Cryptochrome C-terminal domai 5e-08
d1owla1 271 a.99.1.1 (A:205-475) C-terminal domain of DNA phot 2e-07
d1dnpa1 269 a.99.1.1 (A:201-469) C-terminal domain of DNA phot 4e-05
d1yx1a1250 c.1.15.7 (A:3-252) Hypothetical protein PA2260 {Ps 0.004
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]} Length = 204 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: Cryptochrome
species: Synechocystis sp., pcc 6803 [TaxId: 1143]

 Score =  118 bits (295), Expect = 1e-31
 Identities = 76/192 (39%), Positives = 115/192 (59%), Gaps = 2/192 (1%)

Query: 126 SIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESV 185
            +VWFRNDLR+HD+E L+ A    +++  VYC+DPR + ++  GF KTGP+R++FL +SV
Sbjct: 8   VLVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSV 67

Query: 186 SDLRKNLQARGSDLVVRVGKPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKD 245
            +L ++LQ  G+ L+V  G PE V+ ++AK I A  +Y HREV+ +E+  E  +   +  
Sbjct: 68  QNLAESLQKVGNKLLVTTGLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTI 127

Query: 246 EGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKV--KGVEIRKTIEALDQLKGLPSR 303
            GIE K +WGSTL H +DLPF + ++P  +  FR+ +  K + IR    A  QL   P+ 
Sbjct: 128 LGIEAKGYWGSTLCHPEDLPFSIQDLPDLFTKFRKDIEKKKISIRPCFFAPSQLLPSPNI 187

Query: 304 GDVEPGDIPSLL 315
                   P   
Sbjct: 188 KLELTAPPPEFF 199
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Length = 202 Back     information, alignment and structure
>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]} Length = 170 Back     information, alignment and structure
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 185 Back     information, alignment and structure
>d1dnpa2 c.28.1.1 (A:1-200) DNA photolyase {Escherichia coli [TaxId: 562]} Length = 200 Back     information, alignment and structure
>d1np7a1 a.99.1.1 (A:205-483) Cryptochrome C-terminal domain {Synechocystis sp., pcc 6803 [TaxId: 1143]} Length = 279 Back     information, alignment and structure
>d1u3da1 a.99.1.1 (A:198-497) Cryptochrome C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 300 Back     information, alignment and structure
>d1owla1 a.99.1.1 (A:205-475) C-terminal domain of DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Length = 271 Back     information, alignment and structure
>d1dnpa1 a.99.1.1 (A:201-469) C-terminal domain of DNA photolyase {Escherichia coli [TaxId: 562]} Length = 269 Back     information, alignment and structure
>d1yx1a1 c.1.15.7 (A:3-252) Hypothetical protein PA2260 {Pseudomonas aeruginosa [TaxId: 287]} Length = 250 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query462
d1owla2202 DNA photolyase {Synechococcus elongatus [TaxId: 32 100.0
d1np7a2204 Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 100.0
d1u3da2185 Cryptochrome {Thale cress (Arabidopsis thaliana) [ 100.0
d2j07a2170 DNA photolyase {Thermus thermophilus [TaxId: 274]} 100.0
d1dnpa2200 DNA photolyase {Escherichia coli [TaxId: 562]} 100.0
d1np7a1 279 Cryptochrome C-terminal domain {Synechocystis sp., 99.75
d1dnpa1 269 C-terminal domain of DNA photolyase {Escherichia c 99.74
d1u3da1 300 Cryptochrome C-terminal domain {Thale cress (Arabi 99.72
d1owla1 271 C-terminal domain of DNA photolyase {Synechococcus 99.7
d2j07a1 234 C-terminal domain of DNA photolyase {Thermus therm 99.67
d2z3va1135 Hypothetical protein TTHA0895 {Thermus thermophilu 88.7
d2d13a1226 Hypothetical protein PH1257 {Archaeon Pyrococcus h 88.36
d1mjha_160 "Hypothetical" protein MJ0577 {Archaeon Methanococ 83.76
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: DNA photolyase
species: Synechococcus elongatus [TaxId: 32046]

Probab=100.00  E-value=7.6e-40  Score=307.18  Aligned_cols=167  Identities=25%  Similarity=0.474  Sum_probs=155.9

Q ss_pred             eEEEEEeCCCCccChHHHHHhhhcCCceeeEEEeCCCccCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCcEEEEEC
Q 012490          125 ASIVWFRNDLRVHDNESLNTANNESVSVLPVYCFDPRDYGKSSSGFDKTGPYRASFLIESVSDLRKNLQARGSDLVVRVG  204 (462)
Q Consensus       125 ~~LvWFRrDLRl~DN~AL~~A~~~~~~vlpVyi~dp~~~~~~~~g~~~~~~~r~~Fl~esL~~L~~~L~~~Gi~L~v~~G  204 (462)
                      ++|||||||||++||+||.+|++.+.+|+||||+||.+++..     ..|.+|++|+++||.+|+++|+++|+.|.|+.|
T Consensus         2 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vyi~dp~~~~~~-----~~~~~r~~fl~~sL~~L~~~L~~~g~~L~i~~G   76 (202)
T d1owla2           2 PILFWHRRDLRLSDNIGLAAARAQSAQLIGLFCLDPQILQSA-----DMAPARVAYLQGCLQELQQRYQQAGSRLLLLQG   76 (202)
T ss_dssp             CEEEEESSCCCSSSCHHHHHHHHHCSCEEEEEEECHHHHTCT-----TCCHHHHHHHHHHHHHHHHHHHHHTSCEEEEES
T ss_pred             CEEEEECCCCccchHHHHHHHHhcCCcEEEEEEEcchHhcch-----hhhHHHHHHHHHHHHHHHHhhhccccceEEEEe
Confidence            579999999999999999999998899999999999887643     678999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhCCCEEEEeccCCchHHHHHHHHHHHhhhcCCeEEEEeCCeeeeCCCCCCCCCCCCCChhhHHHHHhh
Q 012490          205 KPETVLVELAKAIGADAVYAHREVSHDEVKSEEKIEAAMKDEGIEVKYFWGSTLYHLDDLPFKLGEMPTNYGGFREKVKG  284 (462)
Q Consensus       205 ~~~~~L~~L~~~~~a~~V~~~~ey~p~e~~rd~~v~~~l~~~gI~v~~~~~~~L~~p~~i~~~~~~~~~~ft~F~k~~~~  284 (462)
                      ++.++|.++++++++++||+|++|++++++||+.|++.|++.||.++.|++++|++++++.++.|++|++||+|||+|++
T Consensus        77 ~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~i~~~~~~~~i~~~~~~~~~L~~p~~v~~~~g~~~~vFTpF~k~~~~  156 (202)
T d1owla2          77 DPQHLIPQLAQQLQAEAVYWNQDIEPYGRDRDGQVAAALKTAGIRAVQLWDQLLHSPDQILSGSGNPYSVYGPFWKNWQA  156 (202)
T ss_dssp             CHHHHHHHHHHHTTCSEEEEECCCSHHHHHHHHHHHHHHHHTTCEEEEECCSSSSCTTTCCCTTSCCCSSHHHHHHHHHH
T ss_pred             eeeccchhhccccccceeEEeeeccchhhhHHHHHhhhhhhccccccccccccccCcccccCCCCCchhhhHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             ccccccchhhcc
Q 012490          285 VEIRKTIEALDQ  296 (462)
Q Consensus       285 l~~~~~~~~p~~  296 (462)
                      ...+.++..|..
T Consensus       157 ~~~~~p~~~p~~  168 (202)
T d1owla2         157 QPKPTPVATPTE  168 (202)
T ss_dssp             SCCCCCCCCCCS
T ss_pred             cCCCCCCCCccc
Confidence            765555554433
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]} Back     information, alignment and structure
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1dnpa2 c.28.1.1 (A:1-200) DNA photolyase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1np7a1 a.99.1.1 (A:205-483) Cryptochrome C-terminal domain {Synechocystis sp., pcc 6803 [TaxId: 1143]} Back     information, alignment and structure
>d1dnpa1 a.99.1.1 (A:201-469) C-terminal domain of DNA photolyase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1u3da1 a.99.1.1 (A:198-497) Cryptochrome C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1owla1 a.99.1.1 (A:205-475) C-terminal domain of DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Back     information, alignment and structure
>d2j07a1 a.99.1.1 (A:172-405) C-terminal domain of DNA photolyase {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2z3va1 c.26.2.4 (A:2-136) Hypothetical protein TTHA0895 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d2d13a1 c.26.2.1 (A:2-227) Hypothetical protein PH1257 {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1mjha_ c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure