Citrus Sinensis ID: 017242

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-----
MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
ccccccccccccccccccccccccccccccEEEEEcccccccccHHHHHHHHHHccccccEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHcccccEEEEEcccEEEEEEEEccccccccccccHHHHHHcccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHccHHHHHHHHccccHHccccccccccccccHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccccccHHHHHHccccHHHHHHHHHHHHc
ccccccccccccHHHHHEHccccccccccEEEEEEccccHHccHHHHHHHHHHHHHccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEccccHHHHHHHHHHcccEEEEEcccccccHHHHHHHHHHHccccccEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccEEEccccccccccHHHHHHHHHHHHcccccccccHHHHHHcccccHHHHHHHHHHHc
masltppstavqpgrirvlkqgsldkkrgpvvYWMFRDQRVRDNWALIHAVDqanknnvpVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFqgeaednipnFVRECGasllvtdfsplreirRCKDKIcnrvsdsvtihevdahnvvpVWVASEKLEYSAKTLRGKINKLLpeylidypmleqpiekwtgtrqsidWDSIIAAVLRkgaevpeigwcesgeDAAMEVLKgskdgfltkrlknyptdrnnplkpralsglspylhfgqISAQRCALEARKARKLCPEAIDTFLEELIVRRELAdnfcfyqpnydslKGAWEWARKSLKDHASDKREHIYTKEqfekaqtadpvSIYLWMFILD
masltppstavqpgrirvlkqgsldkkrgpvvYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASllvtdfsplreirrCKDKICNRVSdsvtihevdahnvvpVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLknyptdrnnplkpRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIytkeqfekaqtadpvsIYLWMFILD
MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
**************************KRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK****GFLT******************LSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSL**********IYTKEQFEKAQTADPVSIYLWMFIL*
*****************************PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPI*****TRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
***********QPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
*********AVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
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MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFILD
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 ?
Query375 2.2.26 [Sep-21-2011]
Q9SB00 496 Deoxyribodipyrimidine pho yes no 0.952 0.719 0.738 1e-161
Q6F6A2 506 Deoxyribodipyrimidine pho yes no 0.96 0.711 0.569 1e-109
P34205 556 Deoxyribodipyrimidine pho N/A no 0.885 0.597 0.428 2e-75
Q28811532 Deoxyribodipyrimidine pho N/A no 0.909 0.640 0.428 1e-72
P58818444 Deoxyribodipyrimidine pho yes no 0.834 0.704 0.320 4e-38
P12769445 Deoxyribodipyrimidine pho yes no 0.866 0.730 0.336 9e-37
>sp|Q9SB00|PHR_ARATH Deoxyribodipyrimidine photo-lyase OS=Arabidopsis thaliana GN=PHR1 PE=2 SV=1 Back     alignment and function desciption
 Score =  568 bits (1463), Expect = e-161,   Method: Compositional matrix adjust.
 Identities = 268/363 (73%), Positives = 311/363 (85%), Gaps = 6/363 (1%)

Query: 8   STAVQPGRIRVLKQGS---LDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVA 64
           + +VQPGRIR+LK+GS   LD+  GPVVYWMFRDQR++DNWALIHAVD AN+ N PVAV 
Sbjct: 4   TVSVQPGRIRILKKGSWQPLDQTVGPVVYWMFRDQRLKDNWALIHAVDLANRTNAPVAVV 63

Query: 65  FNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLL 124
           FNLFDQFL AKARQLGFML+GLR L   I+ + QI FFL QG+A++ IPNF+ ECGAS L
Sbjct: 64  FNLFDQFLDAKARQLGFMLKGLRQLHHQID-SLQIPFFLLQGDAKETIPNFLTECGASHL 122

Query: 125 VTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLL 184
           VTDFSPLREIRRCKD++  R SDS+ IHEVDAHNVVP+W AS KLEYSA+T+RGKINKLL
Sbjct: 123 VTDFSPLREIRRCKDEVVKRTSDSLAIHEVDAHNVVPMWAASSKLEYSARTIRGKINKLL 182

Query: 185 PEYLIDYPMLEQPIEKWTGT--RQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK 242
           P+YLI++P LE P +KWTG   ++ +DWDS+I  V+R+GAEVPEI WC  GEDA +EVL 
Sbjct: 183 PDYLIEFPKLEPPKKKWTGMMDKKLVDWDSLIDKVVREGAEVPEIEWCVPGEDAGIEVLM 242

Query: 243 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAID 302
           G+KDGFLTKRLKNY TDRNNP+KP+ALSGLSPYLHFGQ+SAQRCALEARK R   P+A+D
Sbjct: 243 GNKDGFLTKRLKNYSTDRNNPIKPKALSGLSPYLHFGQVSAQRCALEARKVRSTSPQAVD 302

Query: 303 TFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTA 362
           TFLEELIVRREL+DNFC+YQP+YDSLKGAWEWARKSL DHASDKREHIY+ EQ EK  TA
Sbjct: 303 TFLEELIVRRELSDNFCYYQPHYDSLKGAWEWARKSLMDHASDKREHIYSLEQLEKGLTA 362

Query: 363 DPV 365
           DP+
Sbjct: 363 DPL 365
Involved in repair of UV radiation-induced DNA damage. Catalyzes the light-dependent monomerization (300-600 nm) of cyclobutylpyrimidine dimers (CPDs), which are formed between adjacent bases on the same DNA strand upon exposure to ultraviolet radiation. Required for plant survival in the presence of UV-B light. Not involved in the repair of (6-4) photoproducts.
Arabidopsis thaliana (taxid: 3702)
EC: 4EC: .EC: 1EC: .EC: 9EC: 9EC: .EC: 3
>sp|Q6F6A2|PHR_ORYSJ Deoxyribodipyrimidine photo-lyase OS=Oryza sativa subsp. japonica GN=PHR PE=1 SV=1 Back     alignment and function description
>sp|P34205|PHR_CARAU Deoxyribodipyrimidine photo-lyase OS=Carassius auratus GN=phr PE=2 SV=1 Back     alignment and function description
>sp|Q28811|PHR_POTTR Deoxyribodipyrimidine photo-lyase OS=Potorous tridactylus GN=PHR PE=2 SV=1 Back     alignment and function description
>sp|P58818|PHR_METTM Deoxyribodipyrimidine photo-lyase OS=Methanothermobacter marburgensis (strain DSM 2133 / 14651 / NBRC 100331 / OCM 82 / Marburg) GN=phr PE=1 SV=2 Back     alignment and function description
>sp|P12769|PHR_METTH Deoxyribodipyrimidine photo-lyase OS=Methanothermobacter thermautotrophicus (strain ATCC 29096 / DSM 1053 / JCM 10044 / NBRC 100330 / Delta H) GN=phr PE=3 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query375
224124936 503 predicted protein [Populus trichocarpa] 0.973 0.725 0.797 1e-172
225470301 485 PREDICTED: deoxyribodipyrimidine photo-l 0.946 0.731 0.798 1e-169
255537109 489 DNA photolyase, putative [Ricinus commun 0.957 0.734 0.788 1e-169
296082842 543 unnamed protein product [Vitis vinifera] 0.946 0.653 0.784 1e-164
147862663 514 hypothetical protein VITISV_026088 [Viti 0.970 0.708 0.752 1e-162
449459676 489 PREDICTED: deoxyribodipyrimidine photo-l 0.949 0.728 0.765 1e-161
18391386 490 photolyase 1 [Arabidopsis thaliana] gi|1 0.957 0.732 0.734 1e-159
30682738 496 photolyase 1 [Arabidopsis thaliana] gi|7 0.952 0.719 0.738 1e-159
8778649 505 F5O11.9 [Arabidopsis thaliana] 0.952 0.706 0.738 1e-159
1617219 496 CPD photolyase [Arabidopsis thaliana] gi 0.952 0.719 0.732 1e-158
>gi|224124936|ref|XP_002329850.1| predicted protein [Populus trichocarpa] gi|222871087|gb|EEF08218.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  610 bits (1573), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 295/370 (79%), Positives = 327/370 (88%), Gaps = 5/370 (1%)

Query: 1   MASLTPP---STAVQPGRIRVLKQGSLDK-KRGPVVYWMFRDQRVRDNWALIHAVDQANK 56
           MASL+ P   +T VQPGRIRV+K+GS  +   GPVVYWMFRDQR++DNWALIHAVDQAN+
Sbjct: 1   MASLSSPPTQNTIVQPGRIRVIKEGSRGQVGGGPVVYWMFRDQRLQDNWALIHAVDQANR 60

Query: 57  NNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFV 116
           +NVPVAVAFNLFDQFLGAKARQLGFMLRGL  LQ +IEET QI FFLF GEAE+ IP F+
Sbjct: 61  SNVPVAVAFNLFDQFLGAKARQLGFMLRGLCQLQSHIEETLQIPFFLFLGEAEETIPAFL 120

Query: 117 RECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTL 176
           ++CGASLLVTDFSPLR+ R C+D+IC RVSDSVTIHEVDAHNVVP+WVASEKLEYSA+TL
Sbjct: 121 KDCGASLLVTDFSPLRQFRTCQDEICKRVSDSVTIHEVDAHNVVPIWVASEKLEYSARTL 180

Query: 177 RGKINKLLPEYLIDYPMLEQPIEKWT-GTRQSIDWDSIIAAVLRKGAEVPEIGWCESGED 235
           RGKINKLLPEYLID+PML+ P  KW   T+QSIDW+ +I  VLRKGAEVPEI WCE GED
Sbjct: 181 RGKINKLLPEYLIDFPMLQLPKNKWVAATKQSIDWNDLIDNVLRKGAEVPEIKWCEPGED 240

Query: 236 AAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARK 295
           AAMEVL GSKDGFLT+RLKNY TDRNNPLKP+ LSGLSPYLHFGQISAQRCALEARK R 
Sbjct: 241 AAMEVLMGSKDGFLTQRLKNYSTDRNNPLKPKGLSGLSPYLHFGQISAQRCALEARKVRN 300

Query: 296 LCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQ 355
           L P++ D FLEELIVRRELADNFCFYQPNYDS+ GAWEWARK+L DHASDKREHIY+KEQ
Sbjct: 301 LSPQSADAFLEELIVRRELADNFCFYQPNYDSIHGAWEWARKTLADHASDKREHIYSKEQ 360

Query: 356 FEKAQTADPV 365
            EKAQTADP+
Sbjct: 361 LEKAQTADPL 370

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225470301|ref|XP_002266483.1| PREDICTED: deoxyribodipyrimidine photo-lyase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|255537109|ref|XP_002509621.1| DNA photolyase, putative [Ricinus communis] gi|223549520|gb|EEF51008.1| DNA photolyase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|296082842|emb|CBI22143.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147862663|emb|CAN79335.1| hypothetical protein VITISV_026088 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449459676|ref|XP_004147572.1| PREDICTED: deoxyribodipyrimidine photo-lyase-like [Cucumis sativus] gi|449517475|ref|XP_004165771.1| PREDICTED: deoxyribodipyrimidine photo-lyase-like [Cucumis sativus] gi|13383259|dbj|BAB39480.1| CPD photolyase [Cucumis sativus] gi|20387244|dbj|BAB91322.1| CPD photolyase [Cucumis sativus] Back     alignment and taxonomy information
>gi|18391386|ref|NP_563906.1| photolyase 1 [Arabidopsis thaliana] gi|14334576|gb|AAK59467.1| unknown protein [Arabidopsis thaliana] gi|21280945|gb|AAM44957.1| unknown protein [Arabidopsis thaliana] gi|332190751|gb|AEE28872.1| photolyase 1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|30682738|ref|NP_849651.1| photolyase 1 [Arabidopsis thaliana] gi|75201504|sp|Q9SB00.1|PHR_ARATH RecName: Full=Deoxyribodipyrimidine photo-lyase; AltName: Full=AtCPDII; AltName: Full=DNA photolyase; AltName: Full=Photoreactivating enzyme 1; AltName: Full=Protein UV RESISTANCE 2 gi|4239819|dbj|BAA74701.1| PHR1 [Arabidopsis thaliana] gi|332190750|gb|AEE28871.1| photolyase 1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|8778649|gb|AAF79657.1|AC025416_31 F5O11.9 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|1617219|emb|CAA67683.1| CPD photolyase [Arabidopsis thaliana] gi|2984707|gb|AAC08008.1| type II CPD photolyase PHR1 [Arabidopsis thaliana] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query375
TAIR|locus:2034675 496 PHR1 "photolyase 1" [Arabidops 0.952 0.719 0.738 2.4e-147
UNIPROTKB|Q6F6A2 506 PHR "Deoxyribodipyrimidine pho 0.944 0.699 0.594 2.9e-112
UNIPROTKB|F1NSZ2487 LOC424919 "Uncharacterized pro 0.914 0.704 0.441 5.1e-74
ZFIN|ZDB-GENE-040426-1644 516 zgc:66475 "zgc:66475" [Danio r 0.909 0.660 0.408 8.9e-70
TIGR_CMR|GSU_2829 461 GSU_2829 "deoxyribodipyrimidin 0.904 0.735 0.447 1.3e-68
FB|FBgn0003082640 phr "photorepair" [Drosophila 0.906 0.531 0.440 5.6e-68
FB|FBgn0042173330 CG18853 [Drosophila melanogast 0.130 0.148 0.530 6.4e-07
TIGR_CMR|CBU_1176 472 CBU_1176 "deoxyribodipyrimidin 0.234 0.186 0.397 3.9e-05
TIGR_CMR|SPO_1917 481 SPO_1917 "deoxyribodipyrimidin 0.36 0.280 0.288 0.00015
TAIR|locus:2034675 PHR1 "photolyase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1439 (511.6 bits), Expect = 2.4e-147, P = 2.4e-147
 Identities = 268/363 (73%), Positives = 311/363 (85%)

Query:     8 STAVQPGRIRVLKQGS---LDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVA 64
             + +VQPGRIR+LK+GS   LD+  GPVVYWMFRDQR++DNWALIHAVD AN+ N PVAV 
Sbjct:     4 TVSVQPGRIRILKKGSWQPLDQTVGPVVYWMFRDQRLKDNWALIHAVDLANRTNAPVAVV 63

Query:    65 FNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLL 124
             FNLFDQFL AKARQLGFML+GLR L   I+ + QI FFL QG+A++ IPNF+ ECGAS L
Sbjct:    64 FNLFDQFLDAKARQLGFMLKGLRQLHHQID-SLQIPFFLLQGDAKETIPNFLTECGASHL 122

Query:   125 VTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLL 184
             VTDFSPLREIRRCKD++  R SDS+ IHEVDAHNVVP+W AS KLEYSA+T+RGKINKLL
Sbjct:   123 VTDFSPLREIRRCKDEVVKRTSDSLAIHEVDAHNVVPMWAASSKLEYSARTIRGKINKLL 182

Query:   185 PEYLIDYPMLEQPIEKWTGT--RQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK 242
             P+YLI++P LE P +KWTG   ++ +DWDS+I  V+R+GAEVPEI WC  GEDA +EVL 
Sbjct:   183 PDYLIEFPKLEPPKKKWTGMMDKKLVDWDSLIDKVVREGAEVPEIEWCVPGEDAGIEVLM 242

Query:   243 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAID 302
             G+KDGFLTKRLKNY TDRNNP+KP+ALSGLSPYLHFGQ+SAQRCALEARK R   P+A+D
Sbjct:   243 GNKDGFLTKRLKNYSTDRNNPIKPKALSGLSPYLHFGQVSAQRCALEARKVRSTSPQAVD 302

Query:   303 TFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTA 362
             TFLEELIVRREL+DNFC+YQP+YDSLKGAWEWARKSL DHASDKREHIY+ EQ EK  TA
Sbjct:   303 TFLEELIVRRELSDNFCYYQPHYDSLKGAWEWARKSLMDHASDKREHIYSLEQLEKGLTA 362

Query:   363 DPV 365
             DP+
Sbjct:   363 DPL 365
GO:0003904 "deoxyribodipyrimidine photo-lyase activity" evidence=IEA
GO:0003913 "DNA photolyase activity" evidence=IEA;IDA
GO:0006281 "DNA repair" evidence=IEA
GO:0009650 "UV protection" evidence=IMP
GO:0000719 "photoreactive repair" evidence=IMP
UNIPROTKB|Q6F6A2 PHR "Deoxyribodipyrimidine photo-lyase" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
UNIPROTKB|F1NSZ2 LOC424919 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-1644 zgc:66475 "zgc:66475" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_2829 GSU_2829 "deoxyribodipyrimidine photolyase, putative" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
FB|FBgn0003082 phr "photorepair" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
FB|FBgn0042173 CG18853 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
TIGR_CMR|CBU_1176 CBU_1176 "deoxyribodipyrimidine photolyase - class I" [Coxiella burnetii RSA 493 (taxid:227377)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_1917 SPO_1917 "deoxyribodipyrimidine photolyase" [Ruegeria pomeroyi DSS-3 (taxid:246200)] 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) ?
Q6F6A2PHR_ORYSJ4, ., 1, ., 9, 9, ., 30.56910.960.7114yesno
Q9SB00PHR_ARATH4, ., 1, ., 9, 9, ., 30.73820.9520.7197yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.1.99LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
eugene3.01270014
hypothetical protein (503 aa)
(Populus trichocarpa)
Predicted Functional Partners:
eugene3.27440001
Peptide exporter, ABC transporter family protein (648 aa)
      • 0.546
estExt_fgenesh4_pg.C_LG_IX0405
hypothetical protein (350 aa)
•       0.450
gw1.X.3221.1
hypothetical protein (345 aa)
      • 0.420

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 ?
Query375
TIGR00591454 TIGR00591, phr2, photolyase PhrII 1e-135
COG0415 461 COG0415, PhrB, Deoxyribodipyrimidine photolyase [D 2e-35
pfam00875164 pfam00875, DNA_photolyase, DNA photolyase 6e-30
pfam03441 276 pfam03441, FAD_binding_7, FAD binding domain of DN 3e-28
>gnl|CDD|129679 TIGR00591, phr2, photolyase PhrII Back     alignment and domain information 
 Score =  393 bits (1012), Expect = e-135
 Identities = 167/362 (46%), Positives = 218/362 (60%), Gaps = 13/362 (3%)

Query: 11  VQPGRIRVLKQGSLDKKR--GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLF 68
               R R+L +      R  G VVYWM RDQRV+DNWALI A   A K  +P+ V F L 
Sbjct: 3   FAKKRRRLLSETEKPDLRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLV 62

Query: 69  DQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDF 128
           D FL A  R   FML GL  +  N  E   I F L  G  ++ +P FV    A+ +VTDF
Sbjct: 63  DFFLAATRRHYFFMLGGLDEVA-NECERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDF 121

Query: 129 SPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYL 188
           SPLR+  +  + +   +   V   +VDAHNVVP W AS+KLEY+A+T+RGKI KLLPEYL
Sbjct: 122 SPLRQPEQWDEAVGKLLPKDVPFQQVDAHNVVPCWAASKKLEYAARTIRGKIRKLLPEYL 181

Query: 189 IDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGF 248
            ++P + +           +DWD++  ++  +   V E+ W + G  A + +L+     F
Sbjct: 182 TEFPRVLKHPSPLDLEAGPVDWDAVRDSLAVE-RSVEEVVWAKPGTTAGLIMLES----F 236

Query: 249 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEEL 308
           + KRL  + T RN+P    ALS LSP+LHFGQ+SAQR A    +AR    E+++ F EEL
Sbjct: 237 IEKRLCFFRTRRNDP-NNDALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEEL 295

Query: 309 IVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIY 368
           +VRRELADNFCFY P YDSL GA+ WAR +L DHA DKREH+Y+ EQ EK+ T D    Y
Sbjct: 296 VVRRELADNFCFYNPYYDSLCGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHD----Y 351

Query: 369 LW 370
           LW
Sbjct: 352 LW 353

All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 454
>gnl|CDD|223492 COG0415, PhrB, Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|216167 pfam00875, DNA_photolyase, DNA photolyase Back     alignment and domain information
>gnl|CDD|217559 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 375
TIGR00591454 phr2 photolyase PhrII. All proteins in this family 100.0
COG0415 461 PhrB Deoxyribodipyrimidine photolyase [DNA replica 100.0
TIGR03556 471 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 100.0
TIGR02765429 crypto_DASH cryptochrome, DASH family. Photolyases 100.0
TIGR02766 475 crypt_chrom_pln cryptochrome, plant family. At lea 100.0
PRK10674 472 deoxyribodipyrimidine photolyase; Provisional 100.0
KOG0133 531 consensus Deoxyribodipyrimidine photolyase/cryptoc 100.0
PF00875165 DNA_photolyase: DNA photolyase from Prosite.; Inte 100.0
PF03441 277 FAD_binding_7: FAD binding domain of DNA photolyas 99.95
COG3046 505 Uncharacterized protein related to deoxyribodipyri 99.76
KOG0133531 consensus Deoxyribodipyrimidine photolyase/cryptoc 98.12
PF04244224 DPRP: Deoxyribodipyrimidine photo-lyase-related pr 97.66
PRK09982142 universal stress protein UspD; Provisional 94.03
PRK10116142 universal stress protein UspC; Provisional 93.63
PRK12652357 putative monovalent cation/H+ antiporter subunit E 93.38
PRK15005144 universal stress protein F; Provisional 93.27
cd01989146 STK_N The N-terminal domain of Eukaryotic Serine T 92.95
cd01988132 Na_H_Antiporter_C The C-terminal domain of a subfa 92.41
cd01987124 USP_OKCHK USP domain is located between the N-term 92.12
cd00293130 USP_Like Usp: Universal stress protein family. The 91.9
PRK15456142 universal stress protein UspG; Provisional 89.98
PRK10490 895 sensor protein KdpD; Provisional 88.89
TIGR00289222 conserved hypothetical protein TIGR00289. Homologo 85.74
PRK15118144 universal stress global response regulator UspA; P 85.65
COG2205 890 KdpD Osmosensitive K+ channel histidine kinase [Si 85.1
PF00582140 Usp: Universal stress protein family; InterPro: IP 85.09
cd01994194 Alpha_ANH_like_IV This is a subfamily of Adenine n 83.9
PRK11175305 universal stress protein UspE; Provisional 80.52
>TIGR00591 phr2 photolyase PhrII Back     alignment and domain information 
Probab=100.00  E-value=7.6e-71  Score=553.66  Aligned_cols=357  Identities=46%  Similarity=0.736  Sum_probs=291.1

Q ss_pred             cccccccccccCc-CCCC-CCcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCcCcchhHHHHHHHhHHH
Q 017242           11 VQPGRIRVLKQGS-LDKK-RGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL   88 (375)
Q Consensus        11 ~~~~r~~~~~~~~-~~~~-~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~   88 (375)
                      +++.||+.+++.| +.+. +.++|||||+|||++||+||.+|++.|.+.+.+|+||||+||.++..+.+|++||++||.+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~~~~~r~~Fl~esL~~   82 (454)
T TIGR00591         3 FAKKRRRLLSETEKPDLRSSGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLAATRRHYFFMLGGLDE   82 (454)
T ss_pred             CCchheeeccCCCCccCCCCCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCcccccHHHHHHHHHHHHH
Confidence            6789999999976 5554 4459999999999999999999998766667899999999999888899999999999999


Q ss_pred             HHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHcCCCceEEEecCCeeeeccccccc
Q 017242           89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEK  168 (375)
Q Consensus        89 L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~~~~~~~~~  168 (375)
                      |+++| +++|++|+|+.|++.++|.+|+++++|++||++.++...+++||+.|++.|+.+|.++++++++|+|++.+.++
T Consensus        83 L~~~L-~~~g~~L~v~~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~~i~~~~~~~~~l~p~~~~~~~  161 (454)
T TIGR00591        83 VANEC-ERLIIPFHLLDGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPKDVPFQQVDAHNVVPCWAASKK  161 (454)
T ss_pred             HHHHH-HHcCCceEEeecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcCCCcEEEECCceEeeCcccCCc
Confidence            99999 99999999999999999999999999999999877776788999999999944899999999999999988777


Q ss_pred             CCcchhhhHHHHHhhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHHhcCCCCCCcccCCCcHHHHHHHHccchhHH
Q 017242          169 LEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGF  248 (375)
Q Consensus       169 ~~~~~~t~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~F  248 (375)
                      .+|++|||++++.+.++..+.+.+...+...+....+...++..+...+ .....+....+++|||++|+++|    ++|
T Consensus       162 ~~y~~ft~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~gGe~aA~~~L----~~F  236 (454)
T TIGR00591       162 LEYAARTIRGKIRKLLPEYLTEFPRVLKHPSPLDLEAGPVDWDAVRDSL-AVERSVEEVVWAKPGTTAGLIML----ESF  236 (454)
T ss_pred             eeeeeecHHHHHHHhChhhccccCCCccCCcccccccCcCCHHHHHHhc-cCcCCcCCcCCCCCcHHHHHHHH----HHH
Confidence            8999999999975543322222121100000000001112222221111 11112221222389999999999    999


Q ss_pred             HhhhcCCCCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhcCcchHHHHHHHhHHHHHHhhhhhhcCCCCCCC
Q 017242          249 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSL  328 (375)
Q Consensus       249 l~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fl~eL~wRrEf~~~~~~~~P~~~~~  328 (375)
                      +++++.+|+++||.|+. ++||+|||||+||+||||+|++++.+.....+++.+.|++||+||||||+|+++++|++.++
T Consensus       237 ~~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~~~~~~~fl~EL~WR~ef~~~~~~~~p~~~~~  315 (454)
T TIGR00591       237 IEKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARGNAGESVEFFEEELVVRRELADNFCFYNPYYDSL  315 (454)
T ss_pred             HHHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhHhhhcCCCcccc
Confidence            99999999999999998 99999999999999999999999865433234456789999999988999999999999888


Q ss_pred             cCchHHHHHhHhhhhcCCcccCCCHHHHhhCCCCchhhhHhhhhhc
Q 017242          329 KGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFIL  374 (375)
Q Consensus       329 ~~~~~W~~~~l~~~~~d~~~w~~~~e~~~~G~TG~PiVDA~~~~~~  374 (375)
                      ...+.|+.++|++|..|.++..++.++|++|+||||||||+|--|.
T Consensus       316 ~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~  361 (454)
T TIGR00591       316 CGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLV  361 (454)
T ss_pred             ccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHH
Confidence            8888999999999998877888899999999999999999997653

All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair] Back     alignment and domain information
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type Back     alignment and domain information
>TIGR02765 crypto_DASH cryptochrome, DASH family 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
>KOG0133 consensus Deoxyribodipyrimidine photolyase/cryptochrome [Replication, recombination and repair; Signal transduction mechanisms] Back     alignment and domain information
>PF00875 DNA_photolyase: DNA photolyase from Prosite Back     alignment and domain information
>PF03441 FAD_binding_7: FAD binding domain of DNA photolyase from Prosite Back     alignment and domain information
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only] 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
>PRK09982 universal stress protein UspD; Provisional Back     alignment and domain information
>PRK10116 universal stress protein UspC; Provisional Back     alignment and domain information
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed Back     alignment and domain information
>PRK15005 universal stress protein F; Provisional Back     alignment and domain information
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases 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
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family Back     alignment and domain information
>cd00293 USP_Like Usp: Universal stress protein family Back     alignment and domain information
>PRK15456 universal stress protein UspG; Provisional Back     alignment and domain information
>PRK10490 sensor protein KdpD; Provisional Back     alignment and domain information
>TIGR00289 conserved hypothetical protein TIGR00289 Back     alignment and domain information
>PRK15118 universal stress global response regulator UspA; Provisional Back     alignment and domain information
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents 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
>PRK11175 universal stress protein UspE; 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 ?
Query375
3umv_A 506 Eukaryotic Class Ii Cpd Photolyase Structure Reveal 1e-109
2xry_A482 X-Ray Structure Of Archaeal Class Ii Cpd Photolyase 4e-67
3cvx_A 543 Drosophila Melanogaster (6-4) Photolyase H369m Muta 4e-04
3cvw_A 543 Drosophila Melanogaster (6-4) Photolyase H365n Muta 4e-04
3cvu_A 543 Drosophila Melanogaster (6-4) Photolyase Bound To D 4e-04
>pdb|3UMV|A Chain A, Eukaryotic Class Ii Cpd Photolyase Structure Reveals A Basis For Improved Uv-Tolerance In Plants Length = 506 Back     alignment and structure 
Iteration: 1

 Score =  392 bits (1007), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 213/376 (56%), Positives = 261/376 (69%), Gaps = 16/376 (4%)
Query: 3   SLTPPSTA--------VQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQA 54
           S++PP TA          P R+RV+  G        VVYWM RDQR+ DNWAL+HA   A
Sbjct: 5   SVSPPRTAPGPANPSPAHPSRVRVIHPGGGKPGGP-VVYWMLRDQRLADNWALLHAAGLA 63
Query: 55  NKNNVPVAVAFNLFDQ--FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNI 112
             +  P+AVAF LF +   L A+ RQLGF+LRGLR L  +        F    G AE  I
Sbjct: 64  AASASPLAVAFALFPRPFLLSARRRQLGFLLRGLRRLAADAAARHLPFFLFTGGPAE--I 121
Query: 113 PNFVRECGASLLVTDFSPLREIRRCKDKICN---RVSDSVTIHEVDAHNVVPVWVASEKL 169
           P  V+  GAS LV DFSPLR +R   D +     R +  V +H+VDAHNVVPVW AS K+
Sbjct: 122 PALVQRLGASTLVADFSPLRPVREALDAVVGDLRREAPGVAVHQVDAHNVVPVWTASAKM 181
Query: 170 EYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGW 229
           EYSAKT RGK++K++ EYL+++P L   +       + +DWD++IA V  +   VPEI W
Sbjct: 182 EYSAKTFRGKVSKVMDEYLVEFPELPAVVPWDREQPEGVDWDALIARVCSEAENVPEIDW 241
Query: 230 CESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALE 289
           CE GE+AA+E L GSKDGFLTKR+K+Y TDRN+P KPRALSGLSPYLHFG ISAQRCALE
Sbjct: 242 CEPGEEAAIEALLGSKDGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALE 301
Query: 290 ARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREH 349
           A+K R L P+++D FLEEL+VRRELADNFC+YQP YDSL GAWEWARK+L DHA+DKREH
Sbjct: 302 AKKCRHLSPKSVDAFLEELVVRRELADNFCYYQPQYDSLSGAWEWARKTLMDHAADKREH 361
Query: 350 IYTKEQFEKAQTADPV 365
           IYT+EQ E A+T DP+
Sbjct: 362 IYTREQLENAKTHDPL 377
>pdb|2XRY|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From Methanosarcina Mazei Length = 482 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|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|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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query375
3umv_A 506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 1e-127
2xry_A482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 1e-119
1owl_A 484 Photolyase, deoxyribodipyrimidine photolyase; DNA 2e-27
1dnp_A 471 DNA photolyase; DNA repair, electron transfer, exc 1e-25
2wq7_A 543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 2e-23
2j07_A 420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 1e-22
1np7_A 489 DNA photolyase; protein with FAD cofactor; HET: DN 1e-21
2j4d_A 525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 4e-21
3tvs_A 538 Cryptochrome-1; circadian clock light entrainment, 4e-21
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 9e-21
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 2e-17
2e0i_A 440 432AA long hypothetical deoxyribodipyrimidine PHO; 2e-16
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
>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
 Score =  374 bits (963), Expect = e-127
 Identities = 212/359 (59%), Positives = 259/359 (72%), Gaps = 8/359 (2%)

Query: 11  VQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ 70
             P R+RV+  G   K  GPVVYWM RDQR+ DNWAL+HA   A  +  P+AVAF LF +
Sbjct: 21  AHPSRVRVIHPGG-GKPGGPVVYWMLRDQRLADNWALLHAAGLAAASASPLAVAFALFPR 79

Query: 71  --FLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDF 128
              L A+ RQLGF+LRGLR L  +      + FFLF G   + IP  V+  GAS LV DF
Sbjct: 80  PFLLSARRRQLGFLLRGLRRLAADAAA-RHLPFFLFTGGPAE-IPALVQRLGASTLVADF 137

Query: 129 SPLREIRRCKDKI---CNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLP 185
           SPLR +R   D +     R +  V +H+VDAHNVVPVW AS K+EYSAKT RGK++K++ 
Sbjct: 138 SPLRPVREALDAVVGDLRREAPGVAVHQVDAHNVVPVWTASAKMEYSAKTFRGKVSKVMD 197

Query: 186 EYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSK 245
           EYL+++P L   +       + +DWD++IA V  +   VPEI WCE GE+AA+E L GSK
Sbjct: 198 EYLVEFPELPAVVPWDREQPEGVDWDALIARVCSEAENVPEIDWCEPGEEAAIEALLGSK 257

Query: 246 DGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFL 305
           DGFLTKR+K+Y TDRN+P KPRALSGLSPYLHFG ISAQRCALEA+K R L P+++D FL
Sbjct: 258 DGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALEAKKCRHLSPKSVDAFL 317

Query: 306 EELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADP 364
           EEL+VRRELADNFC+YQP YDSL GAWEWARK+L DHA+DKREHIYT+EQ E A+T DP
Sbjct: 318 EELVVRRELADNFCYYQPQYDSLSGAWEWARKTLMDHAADKREHIYTREQLENAKTHDP 376
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Length = 482 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
>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
>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
>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
>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
>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
>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
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} Length = 537 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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query375
3umv_A 506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 100.0
2xry_A482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 100.0
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 100.0
1owl_A 484 Photolyase, deoxyribodipyrimidine photolyase; DNA 100.0
1dnp_A 471 DNA photolyase; DNA repair, electron transfer, exc 100.0
3tvs_A 538 Cryptochrome-1; circadian clock light entrainment, 100.0
2j07_A 420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 100.0
2wq7_A 543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 100.0
2e0i_A 440 432AA long hypothetical deoxyribodipyrimidine PHO; 100.0
1np7_A 489 DNA photolyase; protein with FAD cofactor; HET: DN 100.0
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 100.0
2j4d_A 525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 100.0
3zxs_A 522 Cryptochrome B, rscryb; lyase, cryPro, lumazine, i 100.0
3dlo_A155 Universal stress protein; unknown function, struct 94.63
3s3t_A146 Nucleotide-binding protein, universal stress PROT 94.5
3fg9_A156 Protein of universal stress protein USPA family; A 94.02
3fdx_A143 Putative filament protein / universal stress PROT; 93.99
3tnj_A150 Universal stress protein (USP); structural genomic 93.74
3hgm_A147 Universal stress protein TEAD; rossman fold, signa 92.94
2dum_A170 Hypothetical protein PH0823; conserved hypothetica 92.76
1tq8_A163 Hypothetical protein RV1636; MTCY01B2.28, structur 92.67
3idf_A138 USP-like protein; universal, stress, PSI, MCSG, st 91.46
3olq_A319 Universal stress protein E; structural genomics, P 91.45
1mjh_A162 Protein (ATP-binding domain of protein MJ0577); hy 90.64
3loq_A294 Universal stress protein; structural genomics, PSI 90.51
2z08_A137 Universal stress protein family; uncharacterized c 89.62
1jmv_A141 USPA, universal stress protein A; chaperone; 1.85A 88.1
3mt0_A290 Uncharacterized protein PA1789; structural genomic 86.53
2gm3_A175 Unknown protein; AT3G01520, putative ethylene-resp 85.73
1q77_A138 Hypothetical protein AQ_178; structural genomics, 84.29
3loq_A294 Universal stress protein; structural genomics, PSI 81.92
3mt0_A290 Uncharacterized protein PA1789; structural genomic 81.24
>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
Probab=100.00  E-value=4.8e-75  Score=586.06  Aligned_cols=361  Identities=58%  Similarity=1.042  Sum_probs=308.8

Q ss_pred             CccccccccccccCcCCCCCCcEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCC--CcCcchhHHHHHHHhH
Q 017242            9 TAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ--FLGAKARQLGFMLRGL   86 (375)
Q Consensus         9 ~~~~~~r~~~~~~~~~~~~~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~--~~~~~~~r~~Fl~esL   86 (375)
                      ..++++|||.||+++ .+.++.+|||||||||++||+||.+|++.|++.+.+|+||||+||.  +...+.+|++||++||
T Consensus        19 ~~~~~~r~~~l~~~~-~~~~~~vlvWFRrDLRl~DN~AL~~A~~~a~~~~~pVl~vfildp~~~~~~~~~~r~~FL~~sL   97 (506)
T 3umv_A           19 SPAHPSRVRVIHPGG-GKPGGPVVYWMLRDQRLADNWALLHAAGLAAASASPLAVAFALFPRPFLLSARRRQLGFLLRGL   97 (506)
T ss_dssp             CCSCGGGEEEEECCC-SCTTSCEEEEESSCCCSTTCHHHHHHHHHHHHHTCCEEEEEECCCTTCGGGCCHHHHHHHHHHH
T ss_pred             cccCHhHhhhhccCC-CCCCCEEEEEeCCCcchhhcHHHHHHHHhhhhcCCCEEEEEeccchhhccCCCHHHHHHHHHHH
Confidence            567899999999987 6678899999999999999999999999887677899999999998  4468899999999999


Q ss_pred             HHHHHHHHHhcCCcEEEEcCCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc---CCCceEEEecCCeeeecc
Q 017242           87 RLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV---SDSVTIHEVDAHNVVPVW  163 (375)
Q Consensus        87 ~~L~~~L~~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l---~~~i~~~~~~~~~l~~~~  163 (375)
                      .+|+++| +++|++|+|+.|++.++ ++|+++++|+.|++|++|...+++||++|++.|   +.||++++|++++|++|+
T Consensus        98 ~dL~~~L-~~lG~~L~v~~G~p~~v-~~L~~~~~a~~V~~d~ep~~~~r~rD~~V~~~l~~~~~gi~~~~~~~~~l~~p~  175 (506)
T 3umv_A           98 RRLAADA-AARHLPFFLFTGGPAEI-PALVQRLGASTLVADFSPLRPVREALDAVVGDLRREAPGVAVHQVDAHNVVPVW  175 (506)
T ss_dssp             HHHHHHH-HHTTCCEEEESSCTTHH-HHHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHCTTSEEEEECCSCSSCHH
T ss_pred             HHHHHHH-HHcCCceEEEecChHHH-HHHHHhcCCCEEEeccChhHHHHHHHHHHHHHHhhccCCeEEEEeCCcEEECcc
Confidence            9999999 99999999999999999 999999999999999999987788999999887   579999999999999999


Q ss_pred             cccccCCcchhhhHHHHHhhCCCcCCCCCCCCCCCCccCC-CCCCCChHHHHHHHHhcCCCCCCcccCCCcHHHHHHHHc
Q 017242          164 VASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTG-TRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK  242 (375)
Q Consensus       164 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~p~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~  242 (375)
                      .+.++.+|+++||++++++.+..++.+.|.. +...+++. .+..+++..+.+.+...+..++...++.|||++|+++|+
T Consensus       176 ~v~~~~~~~~~t~~~~~~~~~~~~~~~~p~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~Ge~~A~~~L~  254 (506)
T 3umv_A          176 TASAKMEYSAKTFRGKVSKVMDEYLVEFPEL-PAVVPWDREQPEGVDWDALIARVCSEAENVPEIDWCEPGEEAAIEALL  254 (506)
T ss_dssp             HHCSSCCSSHHHHHHHHHTTHHHHSCCCCCC-CCCCCCCSCCCCCCCHHHHHHHHHHTSCCCCCCCSSCCSHHHHHHHHH
T ss_pred             cccCCCCCCccCHHHHHHHhccccccCCCCC-CCccccccccccccChhhhhhhhccccccccccCCCCCCHHHHHHHHH
Confidence            9888889999999999887654444444432 11111111 122345554433222333334434467899999999998


Q ss_pred             cchhHHHhhhcCCCCCcCCCCCCCCCCccCchhhhcCcccHHHHHHHHHHHhhcCcchHHHHHHHhHHHHHHhhhhhhcC
Q 017242          243 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPEAIDTFLEELIVRRELADNFCFYQ  322 (375)
Q Consensus       243 ~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~fl~eL~wRrEf~~~~~~~~  322 (375)
                      |+++.|+.+++.+|+++||.|+..++||+|||||+||+||||+|++++.+......++.++|++||+||||||+++++++
T Consensus       255 ~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSPyL~~G~lS~r~v~~~~~~~~~~~~~~~~~f~~eL~WRREf~~~~~~~~  334 (506)
T 3umv_A          255 GSKDGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALEAKKCRHLSPKSVDAFLEELVVRRELADNFCYYQ  334 (506)
T ss_dssp             CTTTCHHHHTGGGHHHHTTCTTCGGGSCCCHHHHHHTSSCHHHHHHHHHHHGGGSHHHHHHHHHHHTHHHHHHHHHHHHC
T ss_pred             hhHHHHHHhHHhhhccccCCccccCCCccCCHHHhCCCcCHHHHHHHHHHHHhhccccHHHHHHHHHHhHHHHHHHHHhC
Confidence            88889999999999999999976579999999999999999999999987654455678899999999889999999999


Q ss_pred             CCCCCCcCchHHHHHhHhhhhcCCcccCCCHHHHhhCCCCchhhhHhhhhh
Q 017242          323 PNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPVSIYLWMFI  373 (375)
Q Consensus       323 P~~~~~~~~~~W~~~~l~~~~~d~~~w~~~~e~~~~G~TG~PiVDA~~~~~  373 (375)
                      |+|+.+.+.++|+..++.+|..|.+++.|+.++|++|+||||+|||+|.-|
T Consensus       335 p~~~~~~~~~~w~~~~l~~~~~d~~~~~~~~~~w~~G~TG~p~vDA~mrqL  385 (506)
T 3umv_A          335 PQYDSLSGAWEWARKTLMDHAADKREHIYTREQLENAKTHDPLWNASQLEM  385 (506)
T ss_dssp             TTTTSGGGSCHHHHHHHHHTTTSCCSCCCCHHHHHTTCSSCHHHHHHHHHH
T ss_pred             cchhhhhccchhhhhhhhhhcccchhhhccHHHHHcCCCCCHHHHHHHHHH
Confidence            999988888999999999998888889899999999999999999999755
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Back     alignment and structure
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} 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
>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
>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
>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
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD, DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii} Back     alignment and structure
>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
>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
>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
>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
>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
>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
>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
>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
>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
>2dum_A Hypothetical protein PH0823; conserved hypothetical protein, putative universal protein A structural genomics, NPPSFA; 2.75A {Pyrococcus horikoshii} 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
>3idf_A USP-like protein; universal, stress, PSI, MCSG, structural genomics, midwest center for structural genomics structure initiative; 2.00A {Wolinella succinogenes} Back     alignment and structure
>3olq_A Universal stress protein E; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: UNL; 1.82A {Proteus mirabilis} Back     alignment and structure
>1mjh_A Protein (ATP-binding domain of protein MJ0577); hypothetical protein, structural genomics, functional assignment; HET: ATP; 1.70A {Methanocaldococcus jannaschii} SCOP: c.26.2.4 Back     alignment and structure
>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus} Back     alignment and structure
>2z08_A Universal stress protein family; uncharacterized conserved protein, structural genomics, unknown function, NPPSFA; HET: ATP; 1.55A {Thermus thermophilus} SCOP: c.26.2.4 PDB: 1wjg_A* 2z09_A* 2z3v_A Back     alignment and structure
>1jmv_A USPA, universal stress protein A; chaperone; 1.85A {Haemophilus influenzae} SCOP: c.26.2.4 Back     alignment and structure
>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa} Back     alignment and structure
>2gm3_A Unknown protein; AT3G01520, putative ethylene-responsive protein, USP domain, nucleotide binding domain, AMP; HET: MSE AMP; 2.46A {Arabidopsis thaliana} SCOP: c.26.2.4 Back     alignment and structure
>1q77_A Hypothetical protein AQ_178; structural genomics, universal stress protein, PSI, protein structure initiative; 2.70A {Aquifex aeolicus} SCOP: c.26.2.4 Back     alignment and structure
>3loq_A Universal stress protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: AMP; 2.32A {Archaeoglobus fulgidus} Back     alignment and structure
>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa} 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 375
d1owla1 271 a.99.1.1 (A:205-475) C-terminal domain of DNA phot 3e-13
d1u3da1 300 a.99.1.1 (A:198-497) Cryptochrome C-terminal domai 4e-10
d1dnpa1 269 a.99.1.1 (A:201-469) C-terminal domain of DNA phot 6e-10
d1np7a1 279 a.99.1.1 (A:205-483) Cryptochrome C-terminal domai 7e-10
d2j07a1234 a.99.1.1 (A:172-405) C-terminal domain of DNA phot 2e-09
d2j07a2170 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermop 2e-07
d1owla2202 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus e 3e-05
d1dnpa2200 c.28.1.1 (A:1-200) DNA photolyase {Escherichia col 3e-04
d1u3da2185 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Ara 3e-04
d1np7a2204 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp. 4e-04
>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

class: All alpha proteins
fold: Cryptochrome/photolyase FAD-binding domain
superfamily: Cryptochrome/photolyase FAD-binding domain
family: Cryptochrome/photolyase FAD-binding domain
domain: C-terminal domain of DNA photolyase
species: Synechococcus elongatus [TaxId: 32046]

 Score = 67.0 bits (162), Expect = 3e-13
 Identities = 33/126 (26%), Positives = 49/126 (38%), Gaps = 6/126 (4%)

Query: 230 CESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALE 289
            E GE AA+  L      F  + + +Y   RN P +    SGLSP L FG I   R A +
Sbjct: 2   VEPGETAAIARL----QEFCDRAIADYDPQRNFPAEA-GTSGLSPALKFGAIGI-RQAWQ 55

Query: 290 ARKARKLCPEAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREH 349
           A  A      + +      + ++ELA    +    Y     A    R   +    + RE 
Sbjct: 56  AASAAHALSRSDEARNSIRVWQQELAWREFYQHALYHFPSLADGPYRSLWQQFPWENREA 115

Query: 350 IYTKEQ 355
           ++T   
Sbjct: 116 LFTAWT 121
>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
>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
>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
>d2j07a1 a.99.1.1 (A:172-405) C-terminal domain of DNA photolyase {Thermus thermophilus [TaxId: 274]} Length = 234 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
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Length = 202 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
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 185 Back     information, alignment and structure
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]} Length = 204 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 ?
Query375
d1u3da2185 Cryptochrome {Thale cress (Arabidopsis thaliana) [ 100.0
d1np7a2204 Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 100.0
d1owla2202 DNA photolyase {Synechococcus elongatus [TaxId: 32 100.0
d2j07a2170 DNA photolyase {Thermus thermophilus [TaxId: 274]} 99.97
d1dnpa2200 DNA photolyase {Escherichia coli [TaxId: 562]} 99.97
d1u3da1 300 Cryptochrome C-terminal domain {Thale cress (Arabi 99.96
d1dnpa1 269 C-terminal domain of DNA photolyase {Escherichia c 99.95
d1owla1 271 C-terminal domain of DNA photolyase {Synechococcus 99.95
d1np7a1 279 Cryptochrome C-terminal domain {Synechocystis sp., 99.94
d2j07a1 234 C-terminal domain of DNA photolyase {Thermus therm 99.94
d2z3va1135 Hypothetical protein TTHA0895 {Thermus thermophilu 93.65
d1mjha_160 "Hypothetical" protein MJ0577 {Archaeon Methanococ 93.42
d1q77a_138 Hypothetical protein Aq_178 {Aquifex aeolicus [Tax 90.52
d1jmva_140 Universal stress protein A, UspA {Haemophilus infl 90.13
d1tq8a_147 Hypothetical protein Rv1636 {Mycobacterium tubercu 90.09
d2gm3a1171 Putative ethylene-responsive protein AT3g01520/F4P 88.12
d2b8ea1135 Cation-transporting ATPase {Archaeon Archaeoglobus 83.18
d2d13a1226 Hypothetical protein PH1257 {Archaeon Pyrococcus h 80.87
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} 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: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=100.00  E-value=1.6e-33  Score=247.05  Aligned_cols=147  Identities=16%  Similarity=0.148  Sum_probs=132.1

Q ss_pred             cEEEEeeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEcCCCCc---CcchhHHHHHHHhHHHHHHHHHHhcCCcEEEEc-
Q 017242           30 PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFL---GAKARQLGFMLRGLRLLQRNIEETFQILFFLFQ-  105 (375)
Q Consensus        30 ~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~---~~~~~r~~Fl~esL~~L~~~L~~~~g~~L~v~~-  105 (375)
                      ++|||||||||++||+||.+|++.     .+|+||||+||.++   ..|.+|.+|+++||.+|+++| +++|+.|+++. 
T Consensus         1 ~SlvWFR~DLRl~DN~aL~~A~~~-----~~vi~vfi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L-~~~g~~L~v~~~   74 (185)
T d1u3da2           1 CSIVWFRRDLRVEDNPALAAAVRA-----GPVIALFVWAPEEEGHYHPGRVSRWWLKNSLAQLDSSL-RSLGTCLITKRS   74 (185)
T ss_dssp             CEEEEESSCCCSTTCHHHHHHHHH-----SCEEEEEEECGGGGTTCCCCHHHHHHHHHHHHHHHHHH-HHTTCCEEEEEC
T ss_pred             CEEEEECCCCCcccHHHHHHHHhC-----CCEEEEEEEcchHhcccChHHHHHHHHHHHHHHHHHHH-HhcCCcceEeec
Confidence            479999999999999999999872     48999999999865   478999999999999999999 99999999985 


Q ss_pred             CCccchHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHc-CCCceEEEecCCeeeecccccc--cCCcchhhhHHHHHh
Q 017242          106 GEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV-SDSVTIHEVDAHNVVPVWVASE--KLEYSAKTLRGKINK  182 (375)
Q Consensus       106 g~~~~~l~~l~~~~~~~~V~~~~~p~~~~~~rd~~v~~~l-~~~i~~~~~~~~~l~~~~~~~~--~~~~~~~t~~~~~~~  182 (375)
                      |++.++|.+|+++++|++||++.++...+++||++|.+.| +.||+++.+++++|++|+.+.+  |.+|+|||+|++.+.
T Consensus        75 g~~~~~l~~l~~~~~i~~v~~n~~~~~~e~~rd~~v~~~l~~~gi~~~~~~~~~L~~p~~i~~~~g~~y~vFTpF~k~~~  154 (185)
T d1u3da2          75 TDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVRSFNADLLYEPWEVTDELGRPFSMFAAFWERCL  154 (185)
T ss_dssp             SCHHHHHHHHHHHHTCCEEEEECCCSHHHHHHHHHHHHHHHTTTCEEEEECCSCSSCGGGCCCSSSCCCSSHHHHHHHHH
T ss_pred             cchHHHHHHHHHhcCCceEEEeccccHHHHHHHHHHHHHHHHcCCceeecCCceecCccccccCCCCCCcccHHHHHHHH
Confidence            8899999999999999999997666556889999999999 8899999999999999998864  578999998887553
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]} Back     information, alignment and structure
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} 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
>d1u3da1 a.99.1.1 (A:198-497) Cryptochrome C-terminal domain {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} 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
>d1owla1 a.99.1.1 (A:205-475) C-terminal domain of DNA photolyase {Synechococcus elongatus [TaxId: 32046]} 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
>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
>d1mjha_ c.26.2.4 (A:) "Hypothetical" protein MJ0577 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1q77a_ c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex aeolicus [TaxId: 63363]} Back     information, alignment and structure
>d1jmva_ c.26.2.4 (A:) Universal stress protein A, UspA {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1tq8a_ c.26.2.4 (A:) Hypothetical protein Rv1636 {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d2gm3a1 c.26.2.4 (A:5-175) Putative ethylene-responsive protein AT3g01520/F4P13_7 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2b8ea1 c.108.1.7 (A:416-434,A:548-663) Cation-transporting ATPase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} 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