Citrus Sinensis ID: 010783

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-
MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGTKKRRADSLVSGKEKELCG
ccccccccccccccccccccccccccccccEEEEEcccccccccHHHHHHHHHcccccccEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEcccHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHcccccEEEEEcccEEEEccccccccccccccccHHHHHccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHccccHHHHHHccccccccccccccccccccHHHHccccccHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccccccccHHHHHHcccccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccccccccccccEEEccccccccccccccccccccccccHHHHccccHHHHHHHHHHHccccccccccccccccccccc
ccccccccccccHHHHHHHccccccccccEEEEEEccccHHccHHHHHHHHHHHHHccccEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHccccEEEEccccHHHHHHHHHHcccEEEEEcccccccHHHHHHHHHHHccccccEEEEEcccEEEEEEcccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHcccccHHHHHHHHHHHHHccHHHcccccccHHHHHHHHHHHHHHHHHHHcEEEccccccccccHHHHHHHHHHHHcccccccccHHHHHHcccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccccccEEEEEEEcccccccccccccEEEEEEEccccccccccHHHHHHHHHHHHHHHHccccHHccccccccccc
masltppstavqpgrirvlkqgsldkkrgpvvYWMFRDQRVRDNWALIHAVDqanknnvpVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFqgeaednipnFVRECGasllvtdfsplreirRCKDKIcnrvsdsvtihevdahnvvpVWVASEKLEYSAKTLRGKINKLLpeylidypmleqpiekwtgtrqsidWDSIIAAVLRkgaevpeigwcesgeDAAMEVLKgskdgfltkrlknyptdrnnplkpralsglspylhfgqISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELAdnfcfyqpnydslKGAWEWARKSLKDHASDKREHIYTKEQfekaqtadplwnasQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNdkyeidgrdpngyvgcmwsicgvhdqgwkerpvfgkirymnysgckrkfdvdGYIAYVKRIVGGtkkrradslvsgkekelcg
masltppstavqpgrirvlkqgsldkkrgpvvYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASllvtdfsplreirrCKDKICNRVSdsvtihevdahnvvpVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLknyptdrnnplkpRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIytkeqfekaqtadplwnaSQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSgckrkfdvdGYIAYVKrivggtkkrradslvsgkekelcg
MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGTKKRRADSLVSGKEKELCG
**************************KRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK****GFLT******************LSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSL**********IY*********TADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGG*******************
*****************************PVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEK****R**IDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCP*********KAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGG*******************
***********QPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGT******************
**********VQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGTKK****************
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MASLTPPSTAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGTKKRRADSLVSGKEKELCG
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 ?
Query501 2.2.26 [Sep-21-2011]
Q9SB00496 Deoxyribodipyrimidine pho yes no 0.938 0.947 0.754 0.0
Q6F6A2506 Deoxyribodipyrimidine pho yes no 0.948 0.938 0.628 1e-174
P34205556 Deoxyribodipyrimidine pho N/A no 0.856 0.771 0.492 1e-127
Q28811532 Deoxyribodipyrimidine pho N/A no 0.868 0.817 0.495 1e-123
P58818444 Deoxyribodipyrimidine pho yes no 0.834 0.941 0.380 2e-80
P12769445 Deoxyribodipyrimidine pho yes no 0.860 0.968 0.388 7e-79
P05327484 Deoxyribodipyrimidine pho yes no 0.786 0.814 0.220 0.0001
>sp|Q9SB00|PHR_ARATH Deoxyribodipyrimidine photo-lyase OS=Arabidopsis thaliana GN=PHR1 PE=2 SV=1 Back     alignment and function desciption
 Score =  779 bits (2011), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 366/485 (75%), Positives = 418/485 (86%), Gaps = 15/485 (3%)

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 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLY 302
           G+KDGFLTKRLKNY TDRNNP+KP+ALSGLSPYLHFGQ+SAQRCALEARK R   P+   
Sbjct: 243 GNKDGFLTKRLKNYSTDRNNPIKPKALSGLSPYLHFGQVSAQRCALEARKVRSTSPQ--- 299

Query: 303 LPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTK 362
                 A+DTFLEELIVRREL+DNFC+YQP+YDSLKGAWEWARKSL DHASDKREHIY+ 
Sbjct: 300 ------AVDTFLEELIVRRELSDNFCYYQPHYDSLKGAWEWARKSLMDHASDKREHIYSL 353

Query: 363 EQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYE 422
           EQ EK  TADPLWNASQ+EMVY GKMHGFMRMYWAKKILEWT GPEEAL+I+IYLN+KYE
Sbjct: 354 EQLEKGLTADPLWNASQLEMVYQGKMHGFMRMYWAKKILEWTKGPEEALSISIYLNNKYE 413

Query: 423 IDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGG 482
           IDGRDP+GYVGCMWSICGVHDQGWKERPVFGKIRYMNY+GCKRKF+VD YI+YVK +V  
Sbjct: 414 IDGRDPSGYVGCMWSICGVHDQGWKERPVFGKIRYMNYAGCKRKFNVDSYISYVKSLVSV 473

Query: 483 TKKRR 487
           TKK+R
Sbjct: 474 TKKKR 478
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
>sp|P05327|PHR_SYNP6 Deoxyribodipyrimidine photo-lyase OS=Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) GN=phr PE=1 SV=4 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 ?
Query501
224124936503 predicted protein [Populus trichocarpa] 0.978 0.974 0.782 0.0
225470301485 PREDICTED: deoxyribodipyrimidine photo-l 0.958 0.989 0.794 0.0
255537109489 DNA photolyase, putative [Ricinus commun 0.972 0.995 0.778 0.0
147862663514 hypothetical protein VITISV_026088 [Viti 0.976 0.951 0.746 0.0
449459676489 PREDICTED: deoxyribodipyrimidine photo-l 0.954 0.977 0.766 0.0
30682738496 photolyase 1 [Arabidopsis thaliana] gi|7 0.938 0.947 0.754 0.0
296082842543 unnamed protein product [Vitis vinifera] 0.954 0.880 0.712 0.0
1617219496 CPD photolyase [Arabidopsis thaliana] gi 0.938 0.947 0.748 0.0
297849606496 hypothetical protein ARALYDRAFT_471385 [ 0.938 0.947 0.748 0.0
30421116491 CPD photolyase [Spinacia oleracea] gi|30 0.972 0.991 0.736 0.0
>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 =  823 bits (2127), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 399/510 (78%), Positives = 441/510 (86%), Gaps = 20/510 (3%)

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 LCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDK 355
           L P+         + D FLEELIVRRELADNFCFYQPNYDS+ GAWEWARK+L DHASDK
Sbjct: 301 LSPQ---------SADAFLEELIVRRELADNFCFYQPNYDSIHGAWEWARKTLADHASDK 351

Query: 356 REHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMR------MYWAKKILEWTTGPEE 409
           REHIY+KEQ EKAQTADPLWNASQ+EMV +GKMHGFMR      MYWAKKILEWT GPEE
Sbjct: 352 REHIYSKEQLEKAQTADPLWNASQLEMVCHGKMHGFMRQKTLCSMYWAKKILEWTRGPEE 411

Query: 410 ALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDV 469
           ALAI+IYLNDKYEIDGRDP GYVGCMWSICG+HDQGWKERP+FGKIRYMNY+GCKRKF+V
Sbjct: 412 ALAISIYLNDKYEIDGRDPGGYVGCMWSICGIHDQGWKERPIFGKIRYMNYAGCKRKFNV 471

Query: 470 DGYIAYVKRIVGGTKKRRADSLVSGKEKEL 499
           DGYI YVKRIVG  KKR+A++ +    KEL
Sbjct: 472 DGYITYVKRIVGDMKKRKAENELHKTMKEL 501

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|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|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|296082842|emb|CBI22143.3| unnamed protein product [Vitis vinifera] 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
>gi|297849606|ref|XP_002892684.1| hypothetical protein ARALYDRAFT_471385 [Arabidopsis lyrata subsp. lyrata] gi|297338526|gb|EFH68943.1| hypothetical protein ARALYDRAFT_471385 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|30421116|gb|AAP31406.1| CPD photolyase [Spinacia oleracea] gi|30421159|gb|AAP31407.1| CPD photolyase [Spinacia oleracea] 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 ?
Query501
TAIR|locus:2034675496 PHR1 "photolyase 1" [Arabidops 0.938 0.947 0.754 1.1e-204
UNIPROTKB|Q6F6A2506 PHR "Deoxyribodipyrimidine pho 0.936 0.926 0.648 2.7e-171
UNIPROTKB|F1NSZ2487 LOC424919 "Uncharacterized pro 0.880 0.905 0.513 3.1e-122
FB|FBgn0003082640 phr "photorepair" [Drosophila 0.900 0.704 0.492 5.2e-113
ZFIN|ZDB-GENE-040426-1644516 zgc:66475 "zgc:66475" [Danio r 0.740 0.718 0.491 4.2e-102
TIGR_CMR|GSU_2829461 GSU_2829 "deoxyribodipyrimidin 0.626 0.681 0.497 8.2e-83
FB|FBgn0042173330 CG18853 [Drosophila melanogast 0.321 0.487 0.634 2.8e-57
TIGR_CMR|CBU_1176472 CBU_1176 "deoxyribodipyrimidin 0.315 0.334 0.295 1.3e-05
FB|FBgn0016054540 phr6-4 "(6-4)-photolyase" [Dro 0.690 0.640 0.232 0.0007
TIGR_CMR|SPO_1917481 SPO_1917 "deoxyribodipyrimidin 0.163 0.170 0.322 0.00097
TAIR|locus:2034675 PHR1 "photolyase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1980 (702.1 bits), Expect = 1.1e-204, P = 1.1e-204
 Identities = 366/485 (75%), Positives = 418/485 (86%)

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 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLY 302
             G+KDGFLTKRLKNY TDRNNP+KP+ALSGLSPYLHFGQ+SAQRCALEARK R   P+   
Sbjct:   243 GNKDGFLTKRLKNYSTDRNNPIKPKALSGLSPYLHFGQVSAQRCALEARKVRSTSPQ--- 299

Query:   303 LPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTK 362
                   A+DTFLEELIVRREL+DNFC+YQP+YDSLKGAWEWARKSL DHASDKREHIY+ 
Sbjct:   300 ------AVDTFLEELIVRRELSDNFCYYQPHYDSLKGAWEWARKSLMDHASDKREHIYSL 353

Query:   363 EQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYE 422
             EQ EK  TADPLWNASQ+EMVY GKMHGFMRMYWAKKILEWT GPEEAL+I+IYLN+KYE
Sbjct:   354 EQLEKGLTADPLWNASQLEMVYQGKMHGFMRMYWAKKILEWTKGPEEALSISIYLNNKYE 413

Query:   423 IDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGG 482
             IDGRDP+GYVGCMWSICGVHDQGWKERPVFGKIRYMNY+GCKRKF+VD YI+YVK +V  
Sbjct:   414 IDGRDPSGYVGCMWSICGVHDQGWKERPVFGKIRYMNYAGCKRKFNVDSYISYVKSLVSV 473

Query:   483 TKKRR 487
             TKK+R
Sbjct:   474 TKKKR 478
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
FB|FBgn0003082 phr "photorepair" [Drosophila melanogaster (taxid:7227)] 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|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
FB|FBgn0016054 phr6-4 "(6-4)-photolyase" [Drosophila melanogaster (taxid:7227)] 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, ., 30.6280.94810.9387yesno
Q9SB00PHR_ARATH4, ., 1, ., 9, 9, ., 30.75460.93810.9475yesno
P58818PHR_METTM4, ., 1, ., 9, 9, ., 30.38000.83430.9414yesno
P12769PHR_METTH4, ., 1, ., 9, 9, ., 30.38870.86020.9685yesno

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 Layer4.1.99.30.914
3rd Layer4.1.990.921

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 ?
Query501
TIGR00591454 TIGR00591, phr2, photolyase PhrII 0.0
COG0415461 COG0415, PhrB, Deoxyribodipyrimidine photolyase [D 4e-60
pfam03441276 pfam03441, FAD_binding_7, FAD binding domain of DN 2e-57
pfam00875164 pfam00875, DNA_photolyase, DNA photolyase 4e-30
TIGR03556471 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine 4e-04
>gnl|CDD|129679 TIGR00591, phr2, photolyase PhrII Back     alignment and domain information 
 Score =  583 bits (1505), Expect = 0.0
 Identities = 242/468 (51%), Positives = 304/468 (64%), Gaps = 18/468 (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 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLK 308
           + KRL  + T RN+P    ALS LSP+LHFGQ+SAQR A    +AR    E         
Sbjct: 237 IEKRLCFFRTRRNDP-NNDALSMLSPWLHFGQLSAQRAARAVERARGNAGE--------- 286

Query: 309 AIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKA 368
           +++ F EEL+VRRELADNFCFY P YDSL GA+ WAR +L DHA DKREH+Y+ EQ EK+
Sbjct: 287 SVEFFEEELVVRRELADNFCFYNPYYDSLCGAYWWARTTLDDHAKDKREHLYSLEQLEKS 346

Query: 369 QTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDGRDP 428
            T D LWNA+Q ++V  GKMHGF+RMYWAKKILEWT  PEEAL+IAIYLNDKY +DGRDP
Sbjct: 347 TTHDYLWNAAQEQLVTEGKMHGFLRMYWAKKILEWTHSPEEALSIAIYLNDKYILDGRDP 406

Query: 429 NGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYV 476
           NGYVGCMWSICG+HDQGW ER VFGKIRYMNY+GC+RKF+V  +    
Sbjct: 407 NGYVGCMWSICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAYFERKY 454

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|217559 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase Back     alignment and domain information
>gnl|CDD|216167 pfam00875, DNA_photolyase, DNA photolyase Back     alignment and domain information
>gnl|CDD|132595 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine photo-lyase, 8-HDF type Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 501
TIGR00591454 phr2 photolyase PhrII. All proteins in this family 100.0
COG0415461 PhrB Deoxyribodipyrimidine photolyase [DNA replica 100.0
TIGR02766475 crypt_chrom_pln cryptochrome, plant family. At lea 100.0
TIGR03556471 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 100.0
TIGR02765429 crypto_DASH cryptochrome, DASH family. Photolyases 100.0
PRK10674472 deoxyribodipyrimidine photolyase; Provisional 100.0
PF03441277 FAD_binding_7: FAD binding domain of DNA photolyas 100.0
KOG0133531 consensus Deoxyribodipyrimidine photolyase/cryptoc 100.0
PF00875165 DNA_photolyase: DNA photolyase from Prosite.; Inte 99.97
COG3046505 Uncharacterized protein related to deoxyribodipyri 99.97
KOG0133531 consensus Deoxyribodipyrimidine photolyase/cryptoc 98.92
PF04244224 DPRP: Deoxyribodipyrimidine photo-lyase-related pr 97.9
PRK09982142 universal stress protein UspD; Provisional 92.35
PRK12652357 putative monovalent cation/H+ antiporter subunit E 91.3
PRK15005144 universal stress protein F; Provisional 91.24
PRK10116142 universal stress protein UspC; Provisional 91.23
cd01989146 STK_N The N-terminal domain of Eukaryotic Serine T 90.42
cd01988132 Na_H_Antiporter_C The C-terminal domain of a subfa 89.55
cd01987124 USP_OKCHK USP domain is located between the N-term 89.48
cd00293130 USP_Like Usp: Universal stress protein family. The 88.99
TIGR00289222 conserved hypothetical protein TIGR00289. Homologo 87.0
PRK15456142 universal stress protein UspG; Provisional 86.01
TIGR00290223 MJ0570_dom MJ0570-related uncharacterized domain. 84.98
PF00582140 Usp: Universal stress protein family; InterPro: IP 84.48
cd01994194 Alpha_ANH_like_IV This is a subfamily of Adenine n 82.8
PRK10490 895 sensor protein KdpD; Provisional 81.62
PRK15118144 universal stress global response regulator UspA; P 81.45
>TIGR00591 phr2 photolyase PhrII Back     alignment and domain information 
Probab=100.00  E-value=4.9e-104  Score=839.82  Aligned_cols=450  Identities=53%  Similarity=0.916  Sum_probs=378.3

Q ss_pred             cccccccccccCc-cCCCC-CcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCCccccchhHHHHHHHHHHH
Q 010783           11 VQPGRIRVLKQGS-LDKKR-GPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQFLGAKARQLGFMLRGLRL   88 (501)
Q Consensus        11 ~~~~r~~~~~~~~-~~~~~-~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~~~~~~~~r~~Fl~esL~~   88 (501)
                      +++.||+-+|+.| +.+.+ .++|||||||||++||+||++|++.|.+.+.+|+||||+||.++..+++|.+||++||.+
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 54555 459999999999999999999987665557799999999998887899999999999999


Q ss_pred             HHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHhCCCceEEEEecceEEeCcccccC
Q 010783           89 LQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRVSDSVTIHEVDAHNVVPVWVASEK  168 (501)
Q Consensus        89 L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l~~gi~~~~~~~~~l~~p~~~~~~  168 (501)
                      |+++| +++|++|+++.|++.++|.+|+++++|++|+++.++...++++|++|++.|+++|.++++++++|++++.+.++
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 99999999999999999999999999999999988888888999999999966899999999999999876666


Q ss_pred             CCCccchhhHHHHhhCCCcCCCCCCCCCCCCccCCCCCCCChHHHHHHHhhcCCCCCccccCCCcHHHHHHHHhcchhHH
Q 010783          169 LEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWTGTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLKGSKDGF  248 (501)
Q Consensus       169 ~~y~~ft~~~~~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~~~~~~F  248 (501)
                      .+|++||+|++..+.++..+.+.+...+...|....+...++..+...+ .....+....+++|||++|+++|    ++|
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            8999999998876544332222222100010000001112222221111 11112222223389999999999    999


Q ss_pred             HhhhccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHHHHHHHH
Q 010783          249 LTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFC  328 (501)
Q Consensus       249 l~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrEf~~~~~  328 (501)
                      +++++.+|.++||.|+. ++||+|||||+||+||||+|++++.+.....         .++.+.|++||+||||||+|++
T Consensus       237 ~~~~l~~Y~~~Rn~p~~-~~tS~LSPyL~~G~IS~R~i~~~~~~~~~~~---------~~~~~~fl~EL~WR~ef~~~~~  306 (454)
T TIGR00591       237 IEKRLCFFRTRRNDPNN-DALSMLSPWLHFGQLSAQRAARAVERARGNA---------GESVEFFEEELVVRRELADNFC  306 (454)
T ss_pred             HHHHHHHHHHhcCCccc-ccccccchHHhcCcccHHHHHHHHHHhccCC---------chHHHHHHHHHHHHHHHHhHhh
Confidence            99999999999999999 9999999999999999999999986533211         1456789999999989999999


Q ss_pred             HhCCCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHhcccccCCCCHH
Q 010783          329 FYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPE  408 (501)
Q Consensus       329 ~~~p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~LidWr~G~~  408 (501)
                      +++|++..+.....|..+++.+|..|.+++.+.|++|++|+|||||||||||||++|||||||+||+|||+||||+.|++
T Consensus       307 ~~~p~~~~~~~~~~w~~~~l~~~~~d~r~~~~~~~~W~~G~Tg~pivdA~MrqL~~TG~MHNr~RMi~aK~li~W~~g~~  386 (454)
T TIGR00591       307 FYNPYYDSLCGAYWWARTTLDDHAKDKREHLYSLEQLEKSTTHDYLWNAAQEQLVTEGKMHGFLRMYWAKKILEWTHSPE  386 (454)
T ss_pred             hcCCCccccccchHHHHHHHHHHhcCCccccCCHHHHHhcCcCcHhHhHHHHHHHHhCccccceeeeeeeehhhcCCCHH
Confidence            99999987666667998888888776655556799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhccccCCCCCCCcCcEEeecccCCCCCCCCCCcCcccccccchhhhcCCccchHHhh
Q 010783          409 EALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYV  476 (501)
Q Consensus       409 ~a~~~~~~f~~~yliD~d~a~n~g~wqw~a~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~gyIr~w  476 (501)
                      +|+..++|++++||||||+|+|+|||||++||+|+++|+++|+||+||+|||++|++||||+||||+|
T Consensus       387 ~f~~~~~~ln~~~lvDgd~a~n~~~wqW~~~G~d~~p~~~~~~fg~iR~~np~~q~~kfd~~~yi~~~  454 (454)
T TIGR00591       387 EALSIAIYLNDKYILDGRDPNGYVGCMWSICGIHDQGWAERIVFGKIRYMNYAGCRRKFNVAYFERKY  454 (454)
T ss_pred             HHHHHHHHhhhhhhccCCCCCccceeeeEeccccCCCCCCCccceeeeecChhhhhccCCHHHHHhhC
Confidence            99999999999999999999999999999669999999999999999999999999999999999998

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
>TIGR02766 crypt_chrom_pln cryptochrome, plant family 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
>PRK10674 deoxyribodipyrimidine photolyase; Provisional 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
>PF00875 DNA_photolyase: 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
>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
>PRK10116 universal stress protein UspC; 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
>TIGR00289 conserved hypothetical protein TIGR00289 Back     alignment and domain information
>PRK15456 universal stress protein UspG; Provisional Back     alignment and domain information
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain 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
>PRK10490 sensor protein KdpD; Provisional Back     alignment and domain information
>PRK15118 universal stress global response regulator UspA; 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 ?
Query501
3umv_A506 Eukaryotic Class Ii Cpd Photolyase Structure Reveal 1e-175
2xry_A482 X-Ray Structure Of Archaeal Class Ii Cpd Photolyase 1e-114
1owl_A484 Structure Of Apophotolyase From Anacystis Nidulans 8e-07
1tez_A474 Complex Between Dna And The Dna Photolyase From Ana 9e-07
3cvx_A543 Drosophila Melanogaster (6-4) Photolyase H369m Muta 8e-06
3cvw_A543 Drosophila Melanogaster (6-4) Photolyase H365n Muta 3e-05
3cvu_A543 Drosophila Melanogaster (6-4) Photolyase Bound To D 4e-05
>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 =  611 bits (1575), Expect = e-175,   Method: Compositional matrix adjust.
 Identities = 313/500 (62%), Positives = 371/500 (74%), Gaps = 25/500 (5%)
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 ARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLK 349
           A+K R L P         K++D FLEEL+VRRELADNFC+YQP YDSL GAWEWARK+L 
Sbjct: 302 AKKCRHLSP---------KSVDAFLEELVVRRELADNFCYYQPQYDSLSGAWEWARKTLM 352
Query: 350 DHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEE 409
           DHA+DKREHIYT+EQ E A+T DPLWNASQ+EMV++GKMHGFMRMYWAKKILEWT+GPEE
Sbjct: 353 DHAADKREHIYTREQLENAKTHDPLWNASQLEMVHHGKMHGFMRMYWAKKILEWTSGPEE 412
Query: 410 ALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDV 469
           AL+ AIYLNDKYEIDGRDP+GYVGCMWSICG+HDQGWKERPVFGKIRYMNY+GCKRKFDV
Sbjct: 413 ALSTAIYLNDKYEIDGRDPSGYVGCMWSICGLHDQGWKERPVFGKIRYMNYAGCKRKFDV 472
Query: 470 DGYIAYVKRIVGGTKKRRAD 489
           D YI+YVKR+ G +KKR A+
Sbjct: 473 DAYISYVKRLAGQSKKRNAE 492
>pdb|2XRY|A Chain A, X-Ray Structure Of Archaeal Class Ii Cpd Photolyase From Methanosarcina Mazei Length = 482 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|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 ?
Query501
3umv_A506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 0.0
2xry_A482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 0.0
1owl_A484 Photolyase, deoxyribodipyrimidine photolyase; DNA 3e-27
1dnp_A471 DNA photolyase; DNA repair, electron transfer, exc 2e-24
2wq7_A543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 2e-22
3tvs_A538 Cryptochrome-1; circadian clock light entrainment, 1e-21
2j07_A420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 5e-21
1u3d_A509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 7e-21
1np7_A489 DNA photolyase; protein with FAD cofactor; HET: DN 3e-20
2j4d_A525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 8e-20
3fy4_A537 6-4 photolyase; DNA repair, clock cryptochrome; HE 2e-16
2e0i_A440 432AA long hypothetical deoxyribodipyrimidine PHO; 2e-15
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-12
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-08
>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 =  574 bits (1482), Expect = 0.0
 Identities = 311/484 (64%), Positives = 370/484 (76%), Gaps = 17/484 (3%)

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 DGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPA 305
           DGFLTKR+K+Y TDRN+P KPRALSGLSPYLHFG ISAQRCALEA+K R L P+      
Sbjct: 258 DGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALEAKKCRHLSPK------ 311

Query: 306 TLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQF 365
              ++D FLEEL+VRRELADNFC+YQP YDSL GAWEWARK+L DHA+DKREHIYT+EQ 
Sbjct: 312 ---SVDAFLEELVVRRELADNFCYYQPQYDSLSGAWEWARKTLMDHAADKREHIYTREQL 368

Query: 366 EKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEEALAIAIYLNDKYEIDG 425
           E A+T DPLWNASQ+EMV++GKMHGFMRMYWAKKILEWT+GPEEAL+ AIYLNDKYEIDG
Sbjct: 369 ENAKTHDPLWNASQLEMVHHGKMHGFMRMYWAKKILEWTSGPEEALSTAIYLNDKYEIDG 428

Query: 426 RDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDGYIAYVKRIVGGTKK 485
           RDP+GYVGCMWSICG+HDQGWKERPVFGKIRYMNY+GCKRKFDVD YI+YVKR+ G +KK
Sbjct: 429 RDPSGYVGCMWSICGLHDQGWKERPVFGKIRYMNYAGCKRKFDVDAYISYVKRLAGQSKK 488

Query: 486 RRAD 489
           R A+
Sbjct: 489 RNAE 492
>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
>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
>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
>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 ?
Query501
3umv_A506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 100.0
2xry_A482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 100.0
3fy4_A537 6-4 photolyase; DNA repair, clock cryptochrome; HE 100.0
1dnp_A471 DNA photolyase; DNA repair, electron transfer, exc 100.0
3tvs_A538 Cryptochrome-1; circadian clock light entrainment, 100.0
1owl_A484 Photolyase, deoxyribodipyrimidine photolyase; DNA 100.0
1u3d_A509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 100.0
1np7_A489 DNA photolyase; protein with FAD cofactor; HET: DN 100.0
2wq7_A543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 100.0
2j07_A420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 100.0
2e0i_A440 432AA long hypothetical deoxyribodipyrimidine PHO; 100.0
2j4d_A525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 100.0
3zxs_A522 Cryptochrome B, rscryb; lyase, cryPro, lumazine, i 100.0
3s3t_A146 Nucleotide-binding protein, universal stress PROT 93.3
3dlo_A155 Universal stress protein; unknown function, struct 93.12
3fdx_A143 Putative filament protein / universal stress PROT; 92.78
3fg9_A156 Protein of universal stress protein USPA family; A 92.66
3tnj_A150 Universal stress protein (USP); structural genomic 92.5
2dum_A170 Hypothetical protein PH0823; conserved hypothetica 91.61
3hgm_A147 Universal stress protein TEAD; rossman fold, signa 91.55
1tq8_A163 Hypothetical protein RV1636; MTCY01B2.28, structur 90.42
1mjh_A162 Protein (ATP-binding domain of protein MJ0577); hy 89.22
3idf_A138 USP-like protein; universal, stress, PSI, MCSG, st 88.65
3olq_A319 Universal stress protein E; structural genomics, P 86.87
2z08_A137 Universal stress protein family; uncharacterized c 86.51
3loq_A294 Universal stress protein; structural genomics, PSI 85.35
2gm3_A175 Unknown protein; AT3G01520, putative ethylene-resp 82.62
1jmv_A141 USPA, universal stress protein A; chaperone; 1.85A 82.45
3mt0_A290 Uncharacterized protein PA1789; structural genomic 82.13
>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=8.1e-112  Score=902.73  Aligned_cols=468  Identities=64%  Similarity=1.157  Sum_probs=403.8

Q ss_pred             CccccccccccccCccCCCCCcEEEEEeCCCCccCCHHHHHHHHHHhhCCCCEEEEEEecCC--ccccchhHHHHHHHHH
Q 010783            9 TAVQPGRIRVLKQGSLDKKRGPVVYWMFRDQRVRDNWALIHAVDQANKNNVPVAVAFNLFDQ--FLGAKARQLGFMLRGL   86 (501)
Q Consensus         9 ~~~~~~r~~~~~~~~~~~~~~~~l~WfrrDLRl~DN~aL~~A~~~a~~~~~~vl~vfi~dp~--~~~~~~~r~~Fl~esL   86 (501)
                      ..++++|||+||+.+ .+.++++||||||||||+||+||.+|++.|++.+.+|+||||+||.  +...+.+|++||++||
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            458999999999876 5677899999999999999999999998777667899999999998  4578899999999999


Q ss_pred             HHHHHHHHhhcCCeEEEEecChhhHHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHh---CCCceEEEEecceEEeCc
Q 010783           87 RLLQRNIEETFQILFFLFQGEAEDNIPNFVRECGASLLVTDFSPLREIRRCKDKICNRV---SDSVTIHEVDAHNVVPVW  163 (501)
Q Consensus        87 ~~L~~~L~~~~G~~L~v~~G~~~~~l~~L~~~~~i~~V~~~~~p~~~~~~rd~~v~~~l---~~gi~~~~~~~~~l~~p~  163 (501)
                      .+|+++| +++|++|+|++|++.++ ++|+++++|++|++|++|...+++||++|++.|   ..||+++++++++|++|+
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 999999999999999999988888999999988   479999999999999999


Q ss_pred             ccccCCCCccchhhHHHHhhCCCcCCCCCCCCCCCCccC-CCCCCCChHHHHHHHhhcCCCCCccccCCCcHHHHHHHHh
Q 010783          164 VASEKLEYSAKTLRGKINKLLPEYLIDYPMLEQPIEKWT-GTRQSIDWDSIIAAVLRKGAEVPEIGWCESGEDAAMEVLK  242 (501)
Q Consensus       164 ~~~~~~~y~~ft~~~~~~~~~~~~~~~~p~~~~~~~p~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGe~~A~~~L~  242 (501)
                      .+.++.+|.++|+++++++.+..++.+.|.. +...+.. ..+..+++..+.+.+...+..++...+++|||++|+++|+
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            8777888999999988887654444444432 1111111 1123345655433221334344444457899999999998


Q ss_pred             cchhHHHhhhccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccHHHHHHHhHhHHH
Q 010783          243 GSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAIDTFLEELIVRRE  322 (501)
Q Consensus       243 ~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~~~fi~eL~wRrE  322 (501)
                      |++++|+.+++.+|+++||.|+..++||+|||||+|||||||+|++++.+.....         .++.++|++||+||||
T Consensus       255 ~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSPyL~~G~lS~r~v~~~~~~~~~~~---------~~~~~~f~~eL~WRRE  325 (506)
T 3umv_A          255 GSKDGFLTKRIKSYETDRNDPTKPRALSGLSPYLHFGHISAQRCALEAKKCRHLS---------PKSVDAFLEELVVRRE  325 (506)
T ss_dssp             CTTTCHHHHTGGGHHHHTTCTTCGGGSCCCHHHHHHTSSCHHHHHHHHHHHGGGS---------HHHHHHHHHHHTHHHH
T ss_pred             hhHHHHHHhHHhhhccccCCccccCCCccCCHHHhCCCcCHHHHHHHHHHHHhhc---------cccHHHHHHHHHHhHH
Confidence            8888999999999999999997547999999999999999999999998765432         2678999999999889


Q ss_pred             HHHHHHHhCCCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchhhhHHHHhccccc
Q 010783          323 LADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILE  402 (501)
Q Consensus       323 f~~~~~~~~p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhnr~Rm~vak~Lid  402 (501)
                      ||+++++++|+|+...+.++|..+++.+|..|++++.+.|++|++|+|||||||||||||++|||||||+||||||+|||
T Consensus       326 f~~~~~~~~p~~~~~~~~~~w~~~~l~~~~~d~~~~~~~~~~w~~G~TG~p~vDA~mrqL~~tG~mHnr~Rm~~ak~ll~  405 (506)
T 3umv_A          326 LADNFCYYQPQYDSLSGAWEWARKTLMDHAADKREHIYTREQLENAKTHDPLWNASQLEMVHHGKMHGFMRMYWAKKILE  405 (506)
T ss_dssp             HHHHHHHHCTTTTSGGGSCHHHHHHHHHTTTSCCSCCCCHHHHHTTCSSCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCcchhhhhccchhhhhhhhhhcccchhhhccHHHHHcCCCCCHHHHHHHHHHHHhCchhHHHHHHHHHhhcc
Confidence            99999999999987777789998888877666665555699999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEeecccCCCCCCCCCCcCcccccccchhhhcCCccc---hHHhhhhh
Q 010783          403 WTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDVDG---YIAYVKRI  479 (501)
Q Consensus       403 Wr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a~G~~~~~~~~~pyfg~~R~fnp~~q~~k~Dp~g---yIr~wvPe  479 (501)
                      |+.|+++|+.+++||+++||||||+|||++||||+|||++++||+++||||+||+|||++|++||||+|   |||+||||
T Consensus       406 W~~g~~~~~~~a~~f~~~~llD~d~~~n~~~wqw~a~G~~~~g~~~~p~fg~iR~~np~~q~~k~Dp~gyi~yir~wvpe  485 (506)
T 3umv_A          406 WTSGPEEALSTAIYLNDKYEIDGRDPSGYVGCMWSICGLHDQGWKERPVFGKIRYMNYAGCKRKFDVDAYISYVKRLAGQ  485 (506)
T ss_dssp             TSSSHHHHHHHHHHHHHHHCTTCSSHHHHHHHHHHHHCTTSCCCCCBTTTBTSCCCCHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHhhccCcccCccccccceeEEecCCCCCCCccccccCcceeECHHHHHHHhCCCchHHHHHHhCHH
Confidence            999999999999999998799999999999999999999999999999999999999999999999998   99999999


Q ss_pred             hcCCCccccc
Q 010783          480 VGGTKKRRAD  489 (501)
Q Consensus       480 L~~~~~~~~~  489 (501)
                      |+++|++.-.
T Consensus       486 l~~~~~~~~~  495 (506)
T 3umv_A          486 SKKRNAEESP  495 (506)
T ss_dssp             HHHHC-----
T ss_pred             hcCCCccccc
Confidence            9999999554
>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
>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
>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
>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
>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
>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
>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
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD, DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii} 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
>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
>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
>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
>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
>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
>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
>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
>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
>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

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 501
d1owla1271 a.99.1.1 (A:205-475) C-terminal domain of DNA phot 4e-21
d2j07a1234 a.99.1.1 (A:172-405) C-terminal domain of DNA phot 1e-19
d1dnpa1269 a.99.1.1 (A:201-469) C-terminal domain of DNA phot 1e-16
d1u3da1300 a.99.1.1 (A:198-497) Cryptochrome C-terminal domai 3e-16
d1np7a1279 a.99.1.1 (A:205-483) Cryptochrome C-terminal domai 1e-13
d2j07a2170 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermop 3e-07
d1owla2202 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus e 5e-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 5e-04
d1np7a2204 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp. 5e-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 = 90.8 bits (224), Expect = 4e-21
 Identities = 50/251 (19%), Positives = 82/251 (32%), Gaps = 30/251 (11%)

Query: 230 CESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALE 289
            E GE AA+  L      F  + + +Y   RN P +    SGLSP L FG I  ++    
Sbjct: 2   VEPGETAAIARL----QEFCDRAIADYDPQRNFPAEA-GTSGLSPALKFGAIGIRQAWQA 56

Query: 290 ARKARKLCPELLYLPATLKAIDTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLK 349
           A  A  L              +      + ++ELA    +    Y     A    R   +
Sbjct: 57  ASAAHALSRS----------DEARNSIRVWQQELAWREFYQHALYHFPSLADGPYRSLWQ 106

Query: 350 DHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHGFMRMYWAKKILEWTTGPEE 409
               + RE ++T     +     P+ +A+  ++   G MH   RM  A  + +       
Sbjct: 107 QFPWENREALFTAWTQAQTG--YPIVDAAMRQLTETGWMHNRCRMIVASFLTKDLIIDWR 164

Query: 410 ALAIAIYLNDKYEIDGRDPNGYVGCMWSICGVHDQGWKERPVFGKIRYMNYSGCKRKFDV 469
                     ++ +DG       G  WS     D                ++   +    
Sbjct: 165 ---RGEQFFMQHLVDGDLAANNGGWQWSASSGMDPKP----------LRIFNPASQAKKF 211

Query: 470 DGYIAYVKRIV 480
           D    Y+KR +
Sbjct: 212 DATATYIKRWL 222
>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
>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
>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
>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
>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 ?
Query501
d1dnpa1269 C-terminal domain of DNA photolyase {Escherichia c 100.0
d1u3da1300 Cryptochrome C-terminal domain {Thale cress (Arabi 100.0
d1owla1271 C-terminal domain of DNA photolyase {Synechococcus 100.0
d1np7a1279 Cryptochrome C-terminal domain {Synechocystis sp., 100.0
d2j07a1234 C-terminal domain of DNA photolyase {Thermus therm 100.0
d1np7a2204 Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 99.98
d1u3da2185 Cryptochrome {Thale cress (Arabidopsis thaliana) [ 99.98
d1owla2202 DNA photolyase {Synechococcus elongatus [TaxId: 32 99.97
d2j07a2170 DNA photolyase {Thermus thermophilus [TaxId: 274]} 99.97
d1dnpa2200 DNA photolyase {Escherichia coli [TaxId: 562]} 99.97
d2z3va1135 Hypothetical protein TTHA0895 {Thermus thermophilu 92.73
d1mjha_160 "Hypothetical" protein MJ0577 {Archaeon Methanococ 92.61
d1jmva_140 Universal stress protein A, UspA {Haemophilus infl 90.52
d1tq8a_147 Hypothetical protein Rv1636 {Mycobacterium tubercu 88.19
d2gm3a1171 Putative ethylene-responsive protein AT3g01520/F4P 87.62
d1q77a_138 Hypothetical protein Aq_178 {Aquifex aeolicus [Tax 86.44
d2d13a1226 Hypothetical protein PH1257 {Archaeon Pyrococcus h 82.32
>d1dnpa1 a.99.1.1 (A:201-469) C-terminal domain of DNA photolyase {Escherichia coli [TaxId: 562]} 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: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5e-65  Score=501.65  Aligned_cols=225  Identities=24%  Similarity=0.374  Sum_probs=192.5

Q ss_pred             CCcHHHHHHHHhcchhHHHhhhccCCCCCCCCCCCCCCCCCCccccccCcccHHHHHHHHHHHhhhCCcccccccccccH
Q 010783          231 ESGEDAAMEVLKGSKDGFLTKRLKNYPTDRNNPLKPRALSGLSPYLHFGQISAQRCALEARKARKLCPELLYLPATLKAI  310 (501)
Q Consensus       231 ~gGe~~A~~~L~~~~~~Fl~~~l~~Y~~~Rd~p~~~~~tS~LSpyL~~G~IS~R~v~~~~~~~~~~~~~~~~~~~~~~~~  310 (501)
                      ||||++|+++|    ++||++++.+|.++||.|+. ++||+|||||+||+||||+|++++.+......       ...+.
T Consensus         1 P~Ge~aAl~~L----~~Fl~~~l~~Y~~~Rn~p~~-~~tSrLSPyL~~G~ISprev~~~v~~~~~~~~-------~~~~~   68 (269)
T d1dnpa1           1 PVEEKAAIAQL----RQFCQNGAGEYEQQRDFPAV-EGTSRLSASLATGGLSPRQCLHRLLAEQPQAL-------DGGAG   68 (269)
T ss_dssp             CCSHHHHHHHH----HHHHHTHHHHHHHHTTCTTS-CCSCCCHHHHHHTSSCHHHHHHHHHHHCGGGG-------GTSTT
T ss_pred             CCCHHHHHHHH----HHHHHhHHHHHhHhcCCCCC-CCCccCcHHHcCCcCCHHHHHHHHHHhhhhcc-------ccccc
Confidence            68999999999    99999999999999999988 89999999999999999999999987654321       22456


Q ss_pred             HHHHHHhHhHHHHHHHHHHhCCCCcccccchhhhHhhhhhhccCchhhhhhHHHHHhCCCCchHHhHHHHHHHHhccchh
Q 010783          311 DTFLEELIVRRELADNFCFYQPNYDSLKGAWEWARKSLKDHASDKREHIYTKEQFEKAQTADPLWNASQMEMVYNGKMHG  390 (501)
Q Consensus       311 ~~fi~eL~wRrEf~~~~~~~~p~~~~~~~~~~w~~~~~~~~~~d~~~~~~~~~~W~~G~TG~P~vDAaMrqL~~tG~mhn  390 (501)
                      +.|++||+|| ||++++++++|.+........+... . ....+.    +.+++|++|+||+||||||||||++||||||
T Consensus        69 ~~~l~eL~wR-e~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~----~~~~~w~~G~Tg~p~vDAamr~L~~tG~mhn  141 (269)
T d1dnpa1          69 SVWLNELIWR-EFYRHLITYHPSLCKHRPFIAWTDR-V-QWQSNP----AHLQAWQEGKTGYPIVDAAMRQLNSTGWMHN  141 (269)
T ss_dssp             HHHHHHHHHH-HHHHHHHHHCGGGGGTCCSSGGGGG-S-CCCCCH----HHHHHHHHTCSSCHHHHHHHHHHHHHSCCCH
T ss_pred             hhHHhhhhhh-hhhhhhhhccchhhhhccccccccc-c-ccccCh----HHHhhccCCCcCchHHHHHHHHHhccCchhH
Confidence            8899999999 9999998888764322111111100 0 001122    3589999999999999999999999999999


Q ss_pred             hhHHHHh----ccc-ccCCCCHHHHHHHHHHHhhhccccCCCCCCCcCcEEee-cccCCCCCCCCCCcCcccccccchhh
Q 010783          391 FMRMYWA----KKI-LEWTTGPEEALAIAIYLNDKYEIDGRDPNGYVGCMWSI-CGVHDQGWKERPVFGKIRYMNYSGCK  464 (501)
Q Consensus       391 r~Rm~va----k~L-idWr~G~~~a~~~~~~f~~~yliD~d~a~n~g~wqw~a-~G~~~~~~~~~pyfg~~R~fnp~~q~  464 (501)
                      |+|||||    ++| |||+.|++       ||+++ |||||+++|++||||+| +|+|+.     |||   |||||++|+
T Consensus       142 ~~Rm~~as~l~~~l~i~W~~g~~-------~f~~~-llD~d~~~n~~~wq~~ag~g~~~~-----~~~---r~~np~~q~  205 (269)
T d1dnpa1         142 RLRMITASFLVKDLLIDWREGER-------YFMSQ-LIDGDLAANNGGWQWAASTGTDAA-----PYF---RIFNPTTQG  205 (269)
T ss_dssp             HHHHHHHHHHHHTSCCCHHHHHH-------HHHTT-CTTCCHHHHHHHHHHHTTCSTTCC-----CTT---CCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcccccchhHH-------HHHHH-HHhcCcccCHHHHHhhhccCCCcc-----ccc---cccchHHHH
Confidence            9999998    678 99999999       99999 89999999999999999 588875     889   999999999


Q ss_pred             hcCCccc-hHHhhhhhhcCCCcccccc
Q 010783          465 RKFDVDG-YIAYVKRIVGGTKKRRADS  490 (501)
Q Consensus       465 ~k~Dp~g-yIr~wvPeL~~~~~~~~~~  490 (501)
                      ++|||+| |||+|||||+++|.+.||.
T Consensus       206 ~~~Dp~g~~ir~w~pel~~~p~~~ih~  232 (269)
T d1dnpa1         206 EKFDHEGEFIRQWLPELRDVPGKVVHE  232 (269)
T ss_dssp             HHHTTTCHHHHHHCGGGTTSCTTGGGS
T ss_pred             HHhCCCcchHHHhChhhccCCHHhcCC
Confidence            9999999 9999999999999999976
>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
>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
>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
>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
>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
>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
>d1q77a_ c.26.2.4 (A:) Hypothetical protein Aq_178 {Aquifex aeolicus [TaxId: 63363]} 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