Citrus Sinensis ID: 014573

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--
MALISFPRFLSRPLESNHRRSLRSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQVHS
ccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccHHHHHHHHcccEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHHcccEEEEcccccHHHHHHHHHHHHHHHHcccccccccEEEEcccEEEcccccccccccHHHHHHHccccccccccccccccccccccccccHHHHHHHcccccccHHHHHHHHHccHHHHHcHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccHHHHHHHHHHHccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEccccEEcccc
ccHEEccccccccccccccccccccccEEEEcccccHHHccccccEEEEEEcccccccccHHHHHHHccccEEEEEEEcHHHHHcccHHHHHHHHHHHHHHHHHHHHccccEEEEEccHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHHHHccccccccEEEEEcccccccccHHcccHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccEEEEccccEEcccHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcHHHccccccEEEEEEEEEEEEEcc
malisfprflsrplesnhrrslrsrykcvccvsptaaatskgrsgsaviwfkqdlrvddhLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVslvdgkpkiclwqtpfydiknlndlpvshnefrklqrpltspilpptlagakleadwgplptfdelkefvnenpwklEESWTLINNMSAETILTDKLSKLgkrskrnlnnqhsprkrldksffvtdkgntvggGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNaesrdgasfatlFGPALCLGIISRRGVHYEAIKFekernagflspfgysAATIAAAADAVCSMEWYWLMSLRSlrsnegvystriwrwngyqiqvhs
malisfprflsrplesnhrrslrsrykcVCCVSptaaatskgrsgsAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEevkatsvfaEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDklsklgkrskrnlnnqhsprkrldksffVTDKgntvgggtNAVLNALQAYLRYLEGTVRDDWQELQEKLRNaesrdgasFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYStriwrwngyqiqvhs
MALISFPRFLSRPLESNHRRSLRSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSaatiaaaadaVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQVHS
**********************RSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILT***************************FFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQE*********GASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLM****************************
*ALISFP*****************************************IWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPIL***LAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQI*V**
MALISFPRFLSRPL*********SRYKCVCCVSPT**********SAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQVHS
*ALISFPRFLSRPLE*NHRRSLRSRYKCVCCVSPTAA****GRSGSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPW**EESWTLINNMSAETILTDKLSKLG*************R*RLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQVHS
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MALISFPRFLSRPLESNHRRSLRSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQVHS
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 ?
Query422 2.2.26 [Sep-21-2011]
Q651U1582 Cryptochrome DASH, chloro no no 0.360 0.261 0.306 6e-14
Q84KJ5569 Cryptochrome DASH, chloro no no 0.445 0.330 0.260 2e-12
Q38JU2 577 Cryptochrome DASH, chloro N/A no 0.609 0.445 0.222 2e-12
Q8LB72447 Blue-light photoreceptor no no 0.338 0.319 0.312 2e-11
Q3IPX9474 Cryptochrome DASH OS=Natr yes no 0.407 0.362 0.291 3e-11
Q4KML2 520 Cryptochrome DASH OS=Dani yes no 0.419 0.340 0.266 4e-09
Q75WS4 523 Cryptochrome DASH OS=Xeno N/A no 0.606 0.489 0.241 8e-09
Q7NMD1 500 Cryptochrome DASH OS=Gloe yes no 0.227 0.192 0.365 2e-08
Q5IFN2 546 Cryptochrome DASH, chloro no no 0.635 0.490 0.245 2e-07
P77967 489 Cryptochrome DASH OS=Syne N/A no 0.613 0.529 0.218 1e-06
>sp|Q651U1|CRYD_ORYSJ Cryptochrome DASH, chloroplastic/mitochondrial OS=Oryza sativa subsp. japonica GN=CRYD PE=2 SV=1 Back     alignment and function desciption
 Score = 79.3 bits (194), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 54/176 (30%), Positives = 92/176 (52%), Gaps = 24/176 (13%)

Query: 42  GRSGSAVIWFKQDLRVDDHLGLVAA-SKYQAVVPLYVFDHRILSRYSNEM---------L 91
           G  G A++WF+ DLRV D+  +V A +   AV+P+Y  D RI +  ++            
Sbjct: 81  GGGGVAIVWFRNDLRVLDNEAVVRAWAASDAVLPVYCVDPRISAGSTHYFGFPKTGALRA 140

Query: 92  ELVIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAI 151
           + +I  LEDL+++L +QG DL+IR G+ E+++  + + V A +V+A +E       +  +
Sbjct: 141 QFLIECLEDLKRNLTKQGLDLLIRHGKPEDILPSIAKAVTAHTVYAHKETCSEELLVEHL 200

Query: 152 VDETLAKVSLVDG---------KPKICL-WQTPFYDIKNL----NDLPVSHNEFRK 193
           V + L +V +  G          PK+ L W    Y + +L    N+LP  + +FRK
Sbjct: 201 VRKGLEQVVIPQGGASNQKKPRNPKLQLIWGATLYHVDDLPFSVNNLPDVYTQFRK 256
May have a photoreceptor function. Bind ss- and ds-DNA in a sequence non-specific manner, lacks photolyase activity.
Oryza sativa subsp. japonica (taxid: 39947)
>sp|Q84KJ5|CRYD_ARATH Cryptochrome DASH, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=CRYD PE=1 SV=2 Back     alignment and function description
>sp|Q38JU2|CRYD_SOLLC Cryptochrome DASH, chloroplastic/mitochondrial OS=Solanum lycopersicum GN=CRYD PE=3 SV=2 Back     alignment and function description
>sp|Q8LB72|PHR2_ARATH Blue-light photoreceptor PHR2 OS=Arabidopsis thaliana GN=PHR2 PE=2 SV=2 Back     alignment and function description
>sp|Q3IPX9|CRYD_NATPD Cryptochrome DASH OS=Natronomonas pharaonis (strain DSM 2160 / ATCC 35678) GN=cry PE=3 SV=1 Back     alignment and function description
>sp|Q4KML2|CRYD_DANRE Cryptochrome DASH OS=Danio rerio GN=cry-dash PE=2 SV=2 Back     alignment and function description
>sp|Q75WS4|CRYD_XENLA Cryptochrome DASH OS=Xenopus laevis GN=cry-dash PE=2 SV=1 Back     alignment and function description
>sp|Q7NMD1|CRYD_GLOVI Cryptochrome DASH OS=Gloeobacter violaceus (strain PCC 7421) GN=cry PE=3 SV=1 Back     alignment and function description
>sp|Q5IFN2|CRYD_OSTTA Cryptochrome DASH, chloroplastic/mitochondrial OS=Ostreococcus tauri GN=Ot01g06320 PE=3 SV=1 Back     alignment and function description
>sp|P77967|CRYD_SYNY3 Cryptochrome DASH OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=cry PE=1 SV=2 Back     alignment and function description

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 ?
Query422
255539721 691 hydrolase, putative [Ricinus communis] g 0.985 0.602 0.670 1e-153
296084158 704 unnamed protein product [Vitis vinifera] 0.990 0.593 0.598 1e-137
359490262 722 PREDICTED: uncharacterized protein LOC10 0.938 0.548 0.596 1e-134
240256063 692 DNA photolyase [Arabidopsis thaliana] gi 0.966 0.589 0.551 1e-128
356529875 654 PREDICTED: uncharacterized protein LOC10 0.890 0.574 0.608 1e-127
147827517 1716 hypothetical protein VITISV_024326 [Viti 0.808 0.198 0.613 1e-115
449488669 679 PREDICTED: uncharacterized LOC101210685 0.869 0.540 0.558 1e-112
449451936 679 PREDICTED: uncharacterized protein LOC10 0.869 0.540 0.558 1e-112
212275864 706 uncharacterized protein LOC100191423 [Ze 0.983 0.587 0.470 1e-101
115480339 695 Os09g0532700 [Oryza sativa Japonica Grou 0.881 0.535 0.483 5e-98
>gi|255539721|ref|XP_002510925.1| hydrolase, putative [Ricinus communis] gi|223550040|gb|EEF51527.1| hydrolase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  548 bits (1413), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 283/422 (67%), Positives = 329/422 (77%), Gaps = 6/422 (1%)

Query: 1   MALISFPRFLSRPLESNHRRSLRSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDH 60
           MAL+ FPRFLS P  S     LR    C  C S +   T++ R+ SA++WFKQDLRVDDH
Sbjct: 1   MALLFFPRFLS-PSPSLRTPPLRFNNPCCFC-SLSPQTTNRRRTSSAILWFKQDLRVDDH 58

Query: 61  LGLVAASKYQ--AVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGR 118
            GL+ AS +   +++PLYVFDH ILSRYS+EMLE+V+FAL+DLR SLKEQGS+LMIRFG 
Sbjct: 59  FGLLQASNHSPSSLLPLYVFDHIILSRYSDEMLEIVLFALQDLRNSLKEQGSNLMIRFGS 118

Query: 119 VENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVS-LVDGKPKICLWQTPFYD 177
            E VIR+LV+EV+AT VFAEEEVEYHLR  + IV + L K    +D  PKI LWQTPFYD
Sbjct: 119 AEGVIRDLVQEVEATVVFAEEEVEYHLRSTVEIVKQNLTKSQPHLDVNPKIVLWQTPFYD 178

Query: 178 IKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLE 237
           IKNL DLP SH+ F+KLQ P+TSPILPPTL    +E DWG +PT DELK+FVNE+P+KL+
Sbjct: 179 IKNLKDLPASHDHFKKLQLPVTSPILPPTLPATPMELDWGSMPTLDELKKFVNESPFKLK 238

Query: 238 ESWTLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAV 297
           ESW+LI  M  ETIL +KLSK  + +  NLN   S RKR++ S FVT + N VGGGTN V
Sbjct: 239 ESWSLIKEMPTETILHNKLSKF-RGTDVNLNFNQSQRKRVENSVFVTQRQNFVGGGTNKV 297

Query: 298 LNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAI 357
           LNAL AYLRYLEGT RDDWQE+ E+LRNAESRDGASF TLFGP+LCLGIISRR VHYEAI
Sbjct: 298 LNALAAYLRYLEGTARDDWQEVHERLRNAESRDGASFFTLFGPSLCLGIISRRRVHYEAI 357

Query: 358 KFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQ 417
           K+EKERNAGFLSPFGYS  T+AAAADAVCSMEWYWLM+L+   S  G YS RIWRWNGY 
Sbjct: 358 KYEKERNAGFLSPFGYSTTTVAAAADAVCSMEWYWLMALKGQISVGGTYSVRIWRWNGYL 417

Query: 418 IQ 419
           IQ
Sbjct: 418 IQ 419

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|296084158|emb|CBI24546.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359490262|ref|XP_002265202.2| PREDICTED: uncharacterized protein LOC100259267 [Vitis vinifera] Back     alignment and taxonomy information
>gi|240256063|ref|NP_194259.4| DNA photolyase [Arabidopsis thaliana] gi|332659635|gb|AEE85035.1| DNA photolyase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356529875|ref|XP_003533512.1| PREDICTED: uncharacterized protein LOC100813721 [Glycine max] Back     alignment and taxonomy information
>gi|147827517|emb|CAN66342.1| hypothetical protein VITISV_024326 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449488669|ref|XP_004158137.1| PREDICTED: uncharacterized LOC101210685 [Cucumis sativus] Back     alignment and taxonomy information
>gi|449451936|ref|XP_004143716.1| PREDICTED: uncharacterized protein LOC101210685 [Cucumis sativus] Back     alignment and taxonomy information
>gi|212275864|ref|NP_001130328.1| uncharacterized protein LOC100191423 [Zea mays] gi|195612420|gb|ACG28040.1| deoxyribodipyrimidine photolyase family protein [Zea mays] gi|414886442|tpg|DAA62456.1| TPA: deoxyribodipyrimidine photolyase family protein [Zea mays] Back     alignment and taxonomy information
>gi|115480339|ref|NP_001063763.1| Os09g0532700 [Oryza sativa Japonica Group] gi|52075945|dbj|BAD46025.1| deoxyribodipyrimidine photolyase family protein-like [Oryza sativa Japonica Group] gi|52077228|dbj|BAD46272.1| deoxyribodipyrimidine photolyase family protein-like [Oryza sativa Japonica Group] gi|113631996|dbj|BAF25677.1| Os09g0532700 [Oryza sativa Japonica Group] 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 ?
Query422
TAIR|locus:2122654 692 AT4G25290 [Arabidopsis thalian 0.966 0.589 0.534 9.1e-116
TAIR|locus:2061961447 PHR2 "photolyase/blue-light re 0.374 0.353 0.314 6e-12
ZFIN|ZDB-GENE-040617-2 521 cry-dash "cryptochrome DASH" [ 0.419 0.339 0.272 1.3e-10
TIGR_CMR|CBU_1176472 CBU_1176 "deoxyribodipyrimidin 0.272 0.243 0.256 5.6e-06
UNIPROTKB|F1P5X2 547 LOC395100 "Uncharacterized pro 0.277 0.213 0.311 1.2e-05
UNIPROTKB|Q2TV23 529 LOC395100 "Cryptochrome-like p 0.236 0.189 0.326 3.1e-05
ZFIN|ZDB-GENE-010426-7 582 cry4 "cryptochrome 4" [Danio r 0.350 0.254 0.278 0.00013
TAIR|locus:2093217 556 UVR3 "UV REPAIR DEFECTIVE 3" [ 0.476 0.361 0.248 0.00015
TAIR|locus:2122654 AT4G25290 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1141 (406.7 bits), Expect = 9.1e-116, P = 9.1e-116
 Identities = 224/419 (53%), Positives = 292/419 (69%)

Query:     1 MALISFPRFLSRPLESNHRRSLRSRYKCVCCVSPTAAATSKGRSGSAVIWFKQDLRVDDH 60
             MA ++ P FL   L  N R++     +C CC+S   +AT++G   +AV+WFK DLRVDDH
Sbjct:     1 MAFLALPHFLHLRLRRNDRKN-----RCKCCLS---SATNEG--STAVVWFKHDLRVDDH 50

Query:    61 LGLVAASKYQAVVPLYVFDHRILSRYSNEMLELVIFALEDLRKSLKEQGSDLMIRFGRVE 120
              GL+AASK++AV+PLYV D RILSRY+ + LEL I ALEDLRK+LK+QGS+LM+R+G  E
Sbjct:    51 PGLLAASKHRAVIPLYVLDRRILSRYTTDTLELAIIALEDLRKTLKKQGSNLMLRYGNAE 110

Query:   121 NVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKN 180
             NVI +LV+EV+A  VF EEEVEYHL +++  V   L  VSL    P+I  W+TPFY+ +N
Sbjct:   111 NVIEDLVKEVRAPFVFVEEEVEYHLCEVLDAVKNKLEGVSLSGESPRIVAWRTPFYESQN 170

Query:   181 LNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESW 240
             L DLP S  EF+KL+ PLT P+     +    E  WG +PT D+LK+++ E+ W++E SW
Sbjct:   171 LTDLPQSWEEFKKLKLPLTLPVPAAKFSSPGSELQWGSVPTLDDLKDYLKESLWEIENSW 230

Query:   241 TLINNMSAETILTDKLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNA 300
               +   SAE +L ++L  L + S   + +  S  K++D S FVT K +TVGGG   VLNA
Sbjct:   231 REMAQASAERVLMERLGNLKESSMEPIVDG-SLGKKVDNSVFVTSKRDTVGGGNEVVLNA 289

Query:   301 LQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFE 360
             L  YLRYLEGT RDDWQE+  +LR+AE+R GASF  LFGP LCLGI+SRR VHYEAI++E
Sbjct:   290 LAGYLRYLEGTSRDDWQEVHARLRDAETRPGASFFKLFGPVLCLGIVSRRSVHYEAIEYE 349

Query:   361 KERNAGFLSPFGYSXXXXXXXXXXVCSMEWYWLMSLRSLRSNEGVYSTRIWRWNGYQIQ 419
             KERNAGF+SPFGYS          VCSMEWY+L++L   R +E  ++ RIWRW GY IQ
Sbjct:   350 KERNAGFISPFGYSAATVSAATDAVCSMEWYYLLALSRERIDEKRHAIRIWRWKGYLIQ 408
GO:0003913 "DNA photolyase activity" evidence=IEA;ISS
GO:0006281 "DNA repair" evidence=IEA;ISS
TAIR|locus:2061961 PHR2 "photolyase/blue-light receptor 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040617-2 cry-dash "cryptochrome DASH" [Danio rerio (taxid:7955)] 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
UNIPROTKB|F1P5X2 LOC395100 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q2TV23 LOC395100 "Cryptochrome-like protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-010426-7 cry4 "cryptochrome 4" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
TAIR|locus:2093217 UVR3 "UV REPAIR DEFECTIVE 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query422
TIGR02765429 TIGR02765, crypto_DASH, cryptochrome, DASH family 7e-23
pfam00875164 pfam00875, DNA_photolyase, DNA photolyase 2e-20
COG0415 461 COG0415, PhrB, Deoxyribodipyrimidine photolyase [D 9e-16
TIGR03556471 TIGR03556, photolyase_8HDF, deoxyribodipyrimidine 4e-07
TIGR02766 475 TIGR02766, crypt_chrom_pln, cryptochrome, plant fa 2e-05
>gnl|CDD|234002 TIGR02765, crypto_DASH, cryptochrome, DASH family Back     alignment and domain information 
 Score = 99.8 bits (249), Expect = 7e-23
 Identities = 87/339 (25%), Positives = 141/339 (41%), Gaps = 90/339 (26%)

Query: 48  VIWFKQDLRVDDHLGLV-AASKYQAVVPLYVFDHRI--LSRYSNEM------LELVIFAL 98
           + WF+ DLRV D+  L  A+S    ++PLY FD R   L+ +           + ++ +L
Sbjct: 4   LYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESL 63

Query: 99  EDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAK 158
           +DLR SL++ GSDL++R G+ E+V+ EL++E+   +VF  +EV    + +  ++ + LA+
Sbjct: 64  KDLRTSLRKLGSDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALAR 123

Query: 159 VSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEA 214
           + +   +     W +  Y   +L     DLP    +FRK      S I PP  A  KL  
Sbjct: 124 LGIHVEQ----HWGSTLYHEDDLPFDLEDLPDVFTQFRKQVEAKCS-IRPPLPAPEKLPP 178

Query: 215 -----DWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLNN 269
                D G +PT   L++   E+                                     
Sbjct: 179 LPSVDDPGWIPT---LEDLGEESS------------------------------------ 199

Query: 270 QHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESR 329
                          D+G    GG  A L  L+ Y           W +  +  +  E+R
Sbjct: 200 -------------EVDRGLPFVGGETAGLARLKEYF----------WSKDLKSYK--ETR 234

Query: 330 ---DGASFATLFGPALCLGIISRRGVHYEAIKFEKERNA 365
               G  ++T F P L LG +S R ++ E  ++E ER A
Sbjct: 235 NGMLGPDYSTKFSPWLALGCVSPRQIYEELQRYETERGA 273

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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 422
TIGR02765429 crypto_DASH cryptochrome, DASH family. Photolyases 100.0
COG0415 461 PhrB Deoxyribodipyrimidine photolyase [DNA replica 100.0
TIGR03556 471 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 100.0
TIGR02766 475 crypt_chrom_pln cryptochrome, plant family. At lea 100.0
PRK10674 472 deoxyribodipyrimidine photolyase; Provisional 100.0
TIGR00591 454 phr2 photolyase PhrII. All proteins in this family 100.0
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 99.74
COG3046 505 Uncharacterized protein related to deoxyribodipyri 98.47
PF04244224 DPRP: Deoxyribodipyrimidine photo-lyase-related pr 93.82
PRK09982142 universal stress protein UspD; Provisional 89.91
PRK12652357 putative monovalent cation/H+ antiporter subunit E 87.5
cd01989146 STK_N The N-terminal domain of Eukaryotic Serine T 85.98
PRK15456142 universal stress protein UspG; Provisional 85.78
PRK15005144 universal stress protein F; Provisional 83.48
cd01987124 USP_OKCHK USP domain is located between the N-term 83.44
TIGR00289222 conserved hypothetical protein TIGR00289. Homologo 81.2
>TIGR02765 crypto_DASH cryptochrome, DASH family Back     alignment and domain information 
Probab=100.00  E-value=1.6e-53  Score=439.49  Aligned_cols=301  Identities=28%  Similarity=0.451  Sum_probs=232.1

Q ss_pred             eEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCcccc--------CCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe
Q 014573           46 SAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILSR--------YSNEMLELVIFALEDLRKSLKEQGSDLMIRF  116 (422)
Q Consensus        46 ~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~~--------~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~  116 (422)
                      .+|||||||||++||+||.+|++. .+|+||||+||+++..        .|++|++||++||.+|+++|+++|++|+|+.
T Consensus         2 ~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~   81 (429)
T TIGR02765         2 VVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVRS   81 (429)
T ss_pred             eEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEe
Confidence            589999999999999999999987 6899999999987652        5899999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHH
Q 014573          117 GRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFR  192 (422)
Q Consensus       117 G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~  192 (422)
                      |++.++|++|+++++|++||+|.+|+++++++|++|++.|.+.||    .++.+++++|++|+++    +++|++||+|+
T Consensus        82 G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i----~~~~~~~~~l~~p~~v~~~~~~~~~~ft~f~  157 (429)
T TIGR02765        82 GKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGI----HVEQHWGSTLYHEDDLPFDLEDLPDVFTQFR  157 (429)
T ss_pred             CCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCc----eEEEecCCEeECHHhcCCCCCCCCCCchHHH
Confidence            999999999999999999999999999999999999999998887    8899999999998864    78899999999


Q ss_pred             hccCC---CCCCCCCC-CCCCCcccCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhhhccccccCCC
Q 014573          193 KLQRP---LTSPILPP-TLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSKLGKRSKRNLN  268 (422)
Q Consensus       193 k~~~~---~~~pl~~p-~lp~~~~~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~~~~~~~~~~~  268 (422)
                      |++..   ...+++.| .+++.+.......+|++++++.                                         
T Consensus       158 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~l~~~~~-----------------------------------------  196 (429)
T TIGR02765       158 KQVEAKCSIRPPLPAPEKLPPLPSVDDPGWIPTLEDLGE-----------------------------------------  196 (429)
T ss_pred             HHHHhhCCCCCCCCCcccCCCCcccccccCCCChhhcCC-----------------------------------------
Confidence            98653   22333333 2221111000001122111100                                         


Q ss_pred             CCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCCcchhhHHHHHhhhcccCCCCCCCCCCCchhhhcCCcc
Q 014573          269 NQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRDDWQELQEKLRNAESRDGASFATLFGPALCLGIIS  348 (422)
Q Consensus       269 ~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~~~~~Y~~~Rn~~r~~~t~~~~~~tS~LSPyLa~G~IS  348 (422)
                               +...  ......++|||++|+++|++||+   ...+..|++.||.      .++.++||+|||||++||||
T Consensus       197 ---------~~~~--~~~~~~~~gGe~~A~~~L~~Fl~---~~~l~~Y~~~R~~------~~~~~~tS~LSpyL~~G~iS  256 (429)
T TIGR02765       197 ---------ESSE--VDRGLPFVGGETAGLARLKEYFW---SKDLKSYKETRNG------MLGPDYSTKFSPWLALGCVS  256 (429)
T ss_pred             ---------Cccc--ccccCCcCchHHHHHHHHHHHHh---hccHhhhhhccCc------ccCCCCcCccCHHHhCCccc
Confidence                     0000  00012479999999999999984   2468899998752      35678999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCccc------------eeeecCCc
Q 014573          349 RRGVHYEAIKFEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRSNEGVYST------------RIWRWNGY  416 (422)
Q Consensus       349 ~R~i~~~l~~~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~~~~~~~~------------~~w~w~~~  416 (422)
                      ||+|++++.+++...+.+      .++.+   +++||+|||||+++...++..++.....            .+-+|+.|
T Consensus       257 ~r~v~~~~~~~~~~~~~~------~~~~~---~~~eL~WRef~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~W~~G  327 (429)
T TIGR02765       257 PRQIYEELQRYETERGAN------DSTYW---VIFELLWRDYFRFYALKYGNRLFRFGGLRGKHPKWSFDAKRFEQWKTG  327 (429)
T ss_pred             HHHHHHHHHHHHhhcccC------CCcHH---HHHHHHHHHHHHHHHHHcCCcccccCCCccCCCCCccCHHHHHHHhCC
Confidence            999999998766433222      23333   6779999999999988888655542222            23479999


Q ss_pred             cccc
Q 014573          417 QIQV  420 (422)
Q Consensus       417 ~~~~  420 (422)
                      .|+|
T Consensus       328 ~TG~  331 (429)
T TIGR02765       328 TTGY  331 (429)
T ss_pred             CCCC
Confidence            9988

Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
>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
>TIGR02766 crypt_chrom_pln cryptochrome, plant family Back     alignment and domain information
>PRK10674 deoxyribodipyrimidine photolyase; Provisional Back     alignment and domain information
>TIGR00591 phr2 photolyase PhrII Back     alignment and domain information
>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
>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
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases Back     alignment and domain information
>PRK15456 universal stress protein UspG; Provisional Back     alignment and domain information
>PRK15005 universal stress protein F; Provisional 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
>TIGR00289 conserved hypothetical protein TIGR00289 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 ?
Query422
2vtb_B 525 Structure Of Cryptochrome 3 - Dna Complex Length = 3e-14
2j4d_A 525 Cryptochrome 3 From Arabidopsis Thaliana Length = 5 3e-14
2ijg_X 526 Crystal Structure Of Cryptochrome 3 From Arabidopsi 3e-14
1np7_A 489 Crystal Structure Analysis Of Synechocystis Sp. Pcc 8e-08
1tez_A474 Complex Between Dna And The Dna Photolyase From Ana 4e-06
1owl_A 484 Structure Of Apophotolyase From Anacystis Nidulans 4e-06
2e0i_A440 Crystal Structure Of Archaeal Photolyase From Sulfo 4e-05
3fy4_A 537 (6-4) Photolyase Crystal Structure Length = 537 5e-05
1dnp_A471 Structure Of Deoxyribodipyrimidine Photolyase Lengt 9e-05
>pdb|2VTB|B Chain B, Structure Of Cryptochrome 3 - Dna Complex Length = 525 Back     alignment and structure 
Iteration: 1

 Score = 76.6 bits (187), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 82/351 (23%), Positives = 141/351 (40%), Gaps = 83/351 (23%)
Query: 34  PTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAA-SKYQAVVPLYVFDHRILSRYSNEMLE 92
           P++++  +   G  ++WF+ DLRV D+  L  A S    ++P+Y  D R+   ++     
Sbjct: 30  PSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAWSSSDTILPVYCLDPRLF--HTTHFFN 87
Query: 93  L----------VIFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVE 142
                      ++  L DLRK+L ++G +L+IR G+ E ++  L ++  A +VFA +E  
Sbjct: 88  FPKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTVFAHKETC 147
Query: 143 YHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNLN----DLPVSHNEFRKLQRP- 197
                +  +V++ L +V   +      +W +  Y   +L     DLP  + +FRK     
Sbjct: 148 SEEVDVERLVNQGLKRVG--NSTKLELIWGSTMYHKDDLPFDVFDLPDVYTQFRKSVEAK 205
Query: 198 ---LTSPILPPTLAGAKLEADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTD 254
               +S  +P +L       DWG +PT                                 
Sbjct: 206 CSIRSSTRIPLSLGPTPSVDDWGDVPT--------------------------------- 232
Query: 255 KLSKLGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGTVRD 314
            L KLG   +                  VT     VGG +  V    + + +        
Sbjct: 233 -LEKLGVEPQE-----------------VTRGMRFVGGESAGVGRVFEYFWK-------K 267
Query: 315 DWQELQEKLRNAESRDGASFATLFGPALCLGIISRRGVHYEAIKFEKERNA 365
           D  ++ ++ RN     G  ++T F P L  G IS R ++ E  ++EKER A
Sbjct: 268 DLLKVYKETRNGML--GPDYSTKFSPWLAFGCISPRFIYEEVQRYEKERVA 316
>pdb|2J4D|A Chain A, Cryptochrome 3 From Arabidopsis Thaliana Length = 525 Back     alignment and structure
>pdb|2IJG|X Chain X, Crystal Structure Of Cryptochrome 3 From Arabidopsis Thaliana Length = 526 Back     alignment and structure
>pdb|1NP7|A Chain A, Crystal Structure Analysis Of Synechocystis Sp. Pcc6803 Cryptochrome Length = 489 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|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans Length = 484 Back     alignment and structure
>pdb|2E0I|A Chain A, Crystal Structure Of Archaeal Photolyase From Sulfolobus Tokodaii With Two Fad Molecules: Implication Of A Novel Light-Harvesting Cofactor Length = 440 Back     alignment and structure
>pdb|3FY4|A Chain A, (6-4) Photolyase Crystal Structure Length = 537 Back     alignment and structure
>pdb|1DNP|A Chain A, Structure Of Deoxyribodipyrimidine Photolyase Length = 471 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 ?
Query422
2j4d_A525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 4e-26
1np7_A489 DNA photolyase; protein with FAD cofactor; HET: DN 3e-21
2j07_A420 Deoxyribodipyrimidine photo-lyase; flavoprotein, n 5e-21
2e0i_A440 432AA long hypothetical deoxyribodipyrimidine PHO; 3e-20
2wq7_A 543 RE11660P; lyase-DNA complex, DNA repair, DNA lesio 6e-20
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 9e-20
1owl_A484 Photolyase, deoxyribodipyrimidine photolyase; DNA 1e-19
3tvs_A 538 Cryptochrome-1; circadian clock light entrainment, 4e-19
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 9e-18
1dnp_A471 DNA photolyase; DNA repair, electron transfer, exc 1e-17
2xry_A482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 1e-15
3umv_A506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 9e-13
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-07
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* Length = 525 Back     alignment and structure
 Score =  109 bits (274), Expect = 4e-26
 Identities = 54/215 (25%), Positives = 96/215 (44%), Gaps = 29/215 (13%)

Query: 33  SPTAAATSKGRSGSAVIWFKQDLRVDDHLGLVAASK-YQAVVPLYVFDHRILSRYSNEML 91
            P++++  +   G  ++WF+ DLRV D+  L  A      ++P+Y  D R+         
Sbjct: 28  LPSSSSVKRKGKGVTILWFRNDLRVLDNDALYKAWSSSDTILPVYCLDPRLFHTTHFFNF 87

Query: 92  ELV--------IFALEDLRKSLKEQGSDLMIRFGRVENVIRELVEEVKATSVFAEEEVEY 143
                      +  L DLRK+L ++G +L+IR G+ E ++  L ++  A +VFA +E   
Sbjct: 88  PKTGALRGGFLMECLVDLRKNLMKRGLNLLIRSGKPEEILPSLAKDFGARTVFAHKETCS 147

Query: 144 HLRQMMAIVDETLA------KVSLVDGKPKICL---WQTPFYDIKNLNDLPVSHNEFRK- 193
               +  +V++ L       K+ L+ G     +      PF    ++ DLP  + +FRK 
Sbjct: 148 EEVDVERLVNQGLKRVGNSTKLELIWGS---TMYHKDDLPF----DVFDLPDVYTQFRKS 200

Query: 194 -LQRPLTSPIL--PPTLAGAKLEADWGPLPTFDEL 225
              +         P +L       DWG +PT ++L
Sbjct: 201 VEAKCSIRSSTRIPLSLGPTPSVDDWGDVPTLEKL 235
>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
>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
>2e0i_A 432AA long hypothetical deoxyribodipyrimidine PHO; photolyase, FAD, DNA repair, lyase; HET: FAD; 2.80A {Sulfolobus tokodaii} Length = 440 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
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} Length = 537 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
>1u3d_A Cryptochrome 1 apoprotein; photolyase, AMPPNP, signaling protein; HET: FAD ANP NDS; 2.45A {Arabidopsis thaliana} SCOP: a.99.1.1 c.28.1.1 PDB: 1u3c_A* Length = 509 Back     alignment and structure
>1dnp_A DNA photolyase; DNA repair, electron transfer, excitation energy transfer, carbon-carbon, lyase (carbon-carbon); HET: DNA FAD MHF; 2.30A {Escherichia coli} SCOP: a.99.1.1 c.28.1.1 Length = 471 Back     alignment and structure
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Length = 482 Back     alignment and structure
>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
>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 ?
Query422
3fy4_A 537 6-4 photolyase; DNA repair, clock cryptochrome; HE 100.0
1np7_A 489 DNA photolyase; protein with FAD cofactor; HET: DN 100.0
2j4d_A 525 Cryptochrome 3, cryptochrome DASH; DNA-binding pro 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
1u3d_A 509 Cryptochrome 1 apoprotein; photolyase, AMPPNP, sig 100.0
3umv_A 506 Deoxyribodipyrimidine photo-lyase; CPD cyclobutane 100.0
2xry_A 482 Deoxyribodipyrimidine photolyase; DNA damage, DNA 100.0
3zxs_A 522 Cryptochrome B, rscryb; lyase, cryPro, lumazine, i 99.94
3s3t_A146 Nucleotide-binding protein, universal stress PROT 92.81
3dlo_A155 Universal stress protein; unknown function, struct 91.05
3fg9_A156 Protein of universal stress protein USPA family; A 89.85
3tnj_A150 Universal stress protein (USP); structural genomic 89.31
3fdx_A143 Putative filament protein / universal stress PROT; 89.28
3hgm_A147 Universal stress protein TEAD; rossman fold, signa 88.97
2dum_A170 Hypothetical protein PH0823; conserved hypothetica 86.73
1mjh_A162 Protein (ATP-binding domain of protein MJ0577); hy 85.91
2z08_A137 Universal stress protein family; uncharacterized c 83.91
3loq_A294 Universal stress protein; structural genomics, PSI 82.2
1jmv_A141 USPA, universal stress protein A; chaperone; 1.85A 80.36
>3fy4_A 6-4 photolyase; DNA repair, clock cryptochrome; HET: MES FAD; 2.70A {Arabidopsis thaliana} Back     alignment and structure
Probab=100.00  E-value=3.8e-54  Score=451.48  Aligned_cols=305  Identities=17%  Similarity=0.249  Sum_probs=235.0

Q ss_pred             CCCeEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCccc-----------cCCHhHHHHHHHHHHHHHHHHHhcCC
Q 014573           43 RSGSAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILS-----------RYSNEMLELVIFALEDLRKSLKEQGS  110 (422)
Q Consensus        43 ~~~~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~-----------~~~~~r~~Fl~esL~~L~~~L~~lg~  110 (422)
                      |.+++||||||||||+||+||++|++. .+|+||||+||.++.           ..|++|++||++||.+|+++|+++|+
T Consensus         3 ~~~~~lvWFRrDLRl~DN~AL~~A~~~~~~vlpvfi~dp~~~~~~~~~~~~g~~~~g~~r~~Fl~~sL~~L~~~L~~~G~   82 (537)
T 3fy4_A            3 TGSGSLIWFRKGLRVHDNPALEYASKGSEFMYPVFVIDPHYMESDPSAFSPGSSRAGVNRIRFLLESLKDLDSSLKKLGS   82 (537)
T ss_dssp             -CCEEEEEESSCCCSTTCHHHHHHHTTCSCEEEEEEECHHHHSCCTTSSSSBCSSCBHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             CCCcEEEEeCCCcccchhHHHHHHHhcCCCEEEEEEeChhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence            447899999999999999999999987 689999999998764           25899999999999999999999999


Q ss_pred             cEEEEeCCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC-----CCCC
Q 014573          111 DLMIRFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL-----NDLP  185 (422)
Q Consensus       111 ~L~v~~G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~-----~~~p  185 (422)
                      +|+|+.|++.++|++|+++++|++|++|.+|+++++++|++|++.|++.||    +++.+++++|++|+++     +++|
T Consensus        83 ~L~v~~G~~~~vl~~L~~~~~~~~V~~n~~~~p~~~~RD~~v~~~l~~~gI----~~~~~~~~~L~~p~~v~~~~~~~~y  158 (537)
T 3fy4_A           83 RLLVFKGEPGEVLVRCLQEWKVKRLCFEYDTDPYYQALDVKVKDYASSTGV----EVFSPVSHTLFNPAHIIEKNGGKPP  158 (537)
T ss_dssp             CCEEEESCHHHHHHHHHTTSCEEEEEECCCCSHHHHHHHHHHHHHHHHTTC----EEECCCCSSSSCHHHHHHHTSSSCC
T ss_pred             ceEEEECCHHHHHHHHHHHcCCCEEEEeccccHHHHHHHHHHHHHHHHcCC----eEEEecCCEEEchhhcccCCCCCCC
Confidence            999999999999999999999999999999999999999999999998887    9999999999999753     5699


Q ss_pred             ccchhHHhccCCCC---CCC-CCC-CCCCCcc--cCCCCCCCChhhhhhhhcCCCccchhhhhhhccchHHHHHHHHhhh
Q 014573          186 VSHNEFRKLQRPLT---SPI-LPP-TLAGAKL--EADWGPLPTFDELKEFVNENPWKLEESWTLINNMSAETILTDKLSK  258 (422)
Q Consensus       186 ~~ft~F~k~~~~~~---~pl-~~p-~lp~~~~--~~~~~~ip~~~~L~~~~~~~~~~~~~~~~~~g~~~a~~~l~~~l~~  258 (422)
                      +|||+|+|++....   .|+ +.| .+|+++.  .+....+|+++++++...                            
T Consensus       159 ~vftpf~k~~~~~~~~~~p~~~~p~~~~~~~~~~~~~~~~~p~l~~l~~~~~----------------------------  210 (537)
T 3fy4_A          159 LSYQSFLKVAGEPSCAKSELVMSYSSLPPIGDIGNLGISEVPSLEELGYKDD----------------------------  210 (537)
T ss_dssp             SSHHHHHHHHCCCTTTTCCCCCCCSCCCCCCCCCSSCCCCCCCTTTTTCCGG----------------------------
T ss_pred             CccCHHHHHHHhhcCCcCCCCCccccCCCcccccccccccCCcHHhcCCCcc----------------------------
Confidence            99999999976542   232 222 2333221  011233444443321000                            


Q ss_pred             hccccccCCCCCCCCccccCCcccccCCCCCCCCcHHHHHHHHHHHHHHhcCC--cchhhHHHHHhhhcccCCCCCCCCC
Q 014573          259 LGKRSKRNLNNQHSPRKRLDKSFFVTDKGNTVGGGTNAVLNALQAYLRYLEGT--VRDDWQELQEKLRNAESRDGASFAT  336 (422)
Q Consensus       259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gGE~~Al~~L~~fl~~~~~~--~~~~Y~~~Rn~~r~~~t~~~~~~tS  336 (422)
                                        ...      ....|+|||++|+++|+.||+    +  .+..|++.||.+    ..++.++||
T Consensus       211 ------------------~~~------~~~~~~~Ge~~A~~~L~~Fl~----~~~~l~~Y~~~rd~p----~~~~~~~tS  258 (537)
T 3fy4_A          211 ------------------EQA------DWTPFRGGESEALKRLTKSIS----DKAWVANFEKPKGDP----SAFLKPATT  258 (537)
T ss_dssp             ------------------GSS------CCCSCCCSHHHHHHHHHHHTC----CHHHHHTCCGGGCCT----TCCSSCSSC
T ss_pred             ------------------ccc------ccCCCCccHHHHHHHHHHHHh----CchHHhhhcccccCc----cccCCCCCc
Confidence                              000      002589999999999999983    3  488999887431    112468999


Q ss_pred             CCchhhhcCCccHHHHHHHHHH-HHHHhcCCCCCCCCCChhhHHHHHHHHHHHHHHHHHHhcCCCC--CCCCccce----
Q 014573          337 LFGPALCLGIISRRGVHYEAIK-FEKERNAGFLSPFGYSAATIAAAADAVCSMEWYWLMSLRSLRS--NEGVYSTR----  409 (422)
Q Consensus       337 ~LSPyLa~G~IS~R~i~~~l~~-~e~~~~~n~~~~~g~st~~~~~~~~ELlWReFy~~~~~~~~~~--~~~~~~~~----  409 (422)
                      +|||||+|||||||+|++++.+ ++...+.+      .++.+   |++||+|||||++++..+++-  ..++..+.    
T Consensus       259 ~LSpyL~~G~lS~r~v~~~~~~~~~~~~~~~------~~~~~---f~~eL~WRef~~~~~~~~p~~~~~~~~~~~~~~~w  329 (537)
T 3fy4_A          259 VMSPYLKFGCLSSRYFYQCLQNIYKDVKKHT------SPPVS---LLGQLLWREFFYTTAFGTPNFDKMKGNRICKQIPW  329 (537)
T ss_dssp             CCHHHHHTTSSCHHHHHHHHHHHHHTTSCCC------CTTTS---HHHHHHHHHHHHHHHHTCTTTTSSTTCTTSCCCCC
T ss_pred             cCCHHHhCCCcCHHHHHHHHHHHHhhccccc------ccHHH---HHHHHHHHHHHHHHHHHCcchhcccCChhhhcCCc
Confidence            9999999999999999999987 44322111      23333   899999999999999988762  22222222    


Q ss_pred             ------eeecCCccccc
Q 014573          410 ------IWRWNGYQIQV  420 (422)
Q Consensus       410 ------~w~w~~~~~~~  420 (422)
                            +-+|+.|.|+|
T Consensus       330 ~~~~~~~~aW~~G~TG~  346 (537)
T 3fy4_A          330 NEDHAMLAAWRDGKTGY  346 (537)
T ss_dssp             BCCHHHHHHHHTTCSSC
T ss_pred             hhhhHHHHHHHcCCCCC
Confidence                  23799999987
>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
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein, flavoprotein, FAD, mitochondrion, plastid, chromophore, chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana} PDB: 2vtb_A* 2ijg_X* 2vtb_B* Back     alignment and structure
>1owl_A Photolyase, deoxyribodipyrimidine photolyase; DNA repair, flavin enzyme, photoreactivating enzyme; HET: FAD; 1.80A {Synechococcus elongatus} SCOP: a.99.1.1 c.28.1.1 PDB: 1owm_A* 1own_A* 1owo_A* 1owp_A* 1qnf_A* 1tez_A* Back     alignment and structure
>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
>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
>3umv_A Deoxyribodipyrimidine photo-lyase; CPD cyclobutane pyrimidine dimers, UV damaged DNA, DNA repai flavoprotein; HET: FAD; 1.71A {Oryza sativa japonica group} Back     alignment and structure
>2xry_A Deoxyribodipyrimidine photolyase; DNA damage, DNA repair; HET: FAD; 1.50A {Methanosarcina mazei} PDB: 2xrz_A* Back     alignment and structure
>3zxs_A Cryptochrome B, rscryb; lyase, cryPro, lumazine, iron-sulfur-cluster; HET: FAD DLZ; 2.70A {Rhodobacter sphaeroides} Back     alignment and structure
>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
>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
>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
>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
>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
>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
>1jmv_A USPA, universal stress protein A; chaperone; 1.85A {Haemophilus influenzae} SCOP: c.26.2.4 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 422
d1u3da2185 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Ara 2e-13
d1owla2202 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus e 3e-13
d1np7a2204 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp. 3e-13
d2j07a2170 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermop 3e-12
d1dnpa2200 c.28.1.1 (A:1-200) DNA photolyase {Escherichia col 5e-11
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 185 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]

 Score = 66.2 bits (160), Expect = 2e-13
 Identities = 33/181 (18%), Positives = 62/181 (34%), Gaps = 3/181 (1%)

Query: 48  VIWFKQDLRVDDHLGLVAASKYQAVVPLYVFDHRILS--RYSNEMLELVIFALEDLRKSL 105
           ++WF++DLRV+D+  L AA +   V+ L+V+                 +  +L  L  SL
Sbjct: 3   IVWFRRDLRVEDNPALAAAVRAGPVIALFVWAPEEEGHYHPGRVSRWWLKNSLAQLDSSL 62

Query: 106 KEQGSDLMI-RFGRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDG 164
           +  G+ L+  R       + ++V+   A+ +F     +           + L    +   
Sbjct: 63  RSLGTCLITKRSTDSVASLLDVVKSTGASQIFFNHLYDPLSLVRDHRAKDVLTAQGIAVR 122

Query: 165 KPKICLWQTPFYDIKNLNDLPVSHNEFRKLQRPLTSPILPPTLAGAKLEADWGPLPTFDE 224
                L   P+     L         F +    +      P L   K+ +        D 
Sbjct: 123 SFNADLLYEPWEVTDELGRPFSMFAAFWERCLSMPYDPESPLLPPKKIISGDVSKCVADP 182

Query: 225 L 225
           L
Sbjct: 183 L 183
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Length = 202 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
>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]} Length = 170 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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query422
d1np7a2204 Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 100.0
d1owla2202 DNA photolyase {Synechococcus elongatus [TaxId: 32 100.0
d1u3da2185 Cryptochrome {Thale cress (Arabidopsis thaliana) [ 100.0
d2j07a2170 DNA photolyase {Thermus thermophilus [TaxId: 274]} 100.0
d1dnpa2200 DNA photolyase {Escherichia coli [TaxId: 562]} 100.0
d1np7a1 279 Cryptochrome C-terminal domain {Synechocystis sp., 99.78
d1dnpa1 269 C-terminal domain of DNA photolyase {Escherichia c 99.76
d1owla1 271 C-terminal domain of DNA photolyase {Synechococcus 99.75
d1u3da1 300 Cryptochrome C-terminal domain {Thale cress (Arabi 99.69
d2j07a1 234 C-terminal domain of DNA photolyase {Thermus therm 99.63
d2z3va1135 Hypothetical protein TTHA0895 {Thermus thermophilu 91.36
d1mjha_160 "Hypothetical" protein MJ0577 {Archaeon Methanococ 90.62
d1jmva_140 Universal stress protein A, UspA {Haemophilus infl 81.0
d2gm3a1171 Putative ethylene-responsive protein AT3g01520/F4P 80.52
>d1np7a2 c.28.1.1 (A:1-204) Cryptochrome {Synechocystis sp., pcc 6803 [TaxId: 1143]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Cryptochrome/photolyase, N-terminal domain
superfamily: Cryptochrome/photolyase, N-terminal domain
family: Cryptochrome/photolyase, N-terminal domain
domain: Cryptochrome
species: Synechocystis sp., pcc 6803 [TaxId: 1143]

Probab=100.00  E-value=1.6e-37  Score=285.92  Aligned_cols=163  Identities=23%  Similarity=0.414  Sum_probs=146.5

Q ss_pred             CeEEEEEcCCCCccCCHHHHHHHhc-CCeEEEEEEcCCccc-------cCCHhHHHHHHHHHHHHHHHHHhcCCcEEEEe
Q 014573           45 GSAVIWFKQDLRVDDHLGLVAASKY-QAVVPLYVFDHRILS-------RYSNEMLELVIFALEDLRKSLKEQGSDLMIRF  116 (422)
Q Consensus        45 ~~~L~Wfr~DLRl~DN~aL~~A~~~-~~vl~vfi~dp~~~~-------~~~~~r~~Fl~esL~~L~~~L~~lg~~L~v~~  116 (422)
                      .++||||||||||+||+||.+|++. .+|+||||+||+.+.       ..|.+|.+|+++||.+|+++|+++|++|+|+.
T Consensus         6 ~~~lvWfr~DLRl~DN~aL~~A~~~~~~vi~vyi~dp~~~~~~~~~~~~~~~~r~~fl~~sL~~L~~~L~~~g~~L~v~~   85 (204)
T d1np7a2           6 PTVLVWFRNDLRLHDHEPLHRALKSGLAITAVYCYDPRQFAQTHQGFAKTGPWRSNFLQQSVQNLAESLQKVGNKLLVTT   85 (204)
T ss_dssp             CEEEEEESSCCCSTTCHHHHHHHHTTSEEEEEEEECGGGGSBCTTSCBSSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CcEEEEeCCCCccccHHHHHHHHhcCCcEEEEEEECchHhcCcccccccccHHHHHHHHHHHHHHHHHHHhccchhhhhh
Confidence            5789999999999999999999987 689999999998764       25899999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhCccEEEEccccchhHHHHHHHHHHHhhhcCCCCCCceeEecCcccccCCCC----CCCCccchhHH
Q 014573          117 GRVENVIRELVEEVKATSVFAEEEVEYHLRQMMAIVDETLAKVSLVDGKPKICLWQTPFYDIKNL----NDLPVSHNEFR  192 (422)
Q Consensus       117 G~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~gi~~~~~~~~~~~~~L~~~~~~----~~~p~~ft~F~  192 (422)
                      |++.++|.+|+++++|++||+|++++++++++|++|.+.|++.||    .++.+++++|++|+++    +++|+|||+|+
T Consensus        86 G~~~~~l~~l~~~~~i~~V~~n~~~~~~e~~rd~~v~~~l~~~~i----~~~~~~~~~L~~p~~l~~~~~~~~~vFTpFr  161 (204)
T d1np7a2          86 GLPEQVIPQIAKQINAKTIYYHREVTQEELDVERNLVKQLTILGI----EAKGYWGSTLCHPEDLPFSIQDLPDLFTKFR  161 (204)
T ss_dssp             SCHHHHHHHHHHHTTEEEEEEECCCSHHHHHHHHHHHHHHHHHTC----EEEEECCSSSSCGGGSSSCGGGCCSSHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhheeeeccccHHHHHHHHHHhhhhcccee----eeEeccCccccChhhccCCCCCCCccchHHH
Confidence            999999999999999999999999999999999999999998887    8999999999999864    78899999999


Q ss_pred             hccCC----CCCCCCCC-CCCCCc
Q 014573          193 KLQRP----LTSPILPP-TLAGAK  211 (422)
Q Consensus       193 k~~~~----~~~pl~~p-~lp~~~  211 (422)
                      |+++.    +..+++.| .+++.|
T Consensus       162 k~~e~~~~~~~~~~~~p~~~~~~p  185 (204)
T d1np7a2         162 KDIEKKKISIRPCFFAPSQLLPSP  185 (204)
T ss_dssp             HHHHTTTCCCCCCCCCCSCCCCCC
T ss_pred             HHHHhccCCCCCCccChhhcCCCC
Confidence            98753    34556666 444433
>d1owla2 c.28.1.1 (A:3-204) DNA photolyase {Synechococcus elongatus [TaxId: 32046]} Back     information, alignment and structure
>d1u3da2 c.28.1.1 (A:13-197) Cryptochrome {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2j07a2 c.28.1.1 (A:2-171) DNA photolyase {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1dnpa2 c.28.1.1 (A:1-200) DNA photolyase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1np7a1 a.99.1.1 (A:205-483) Cryptochrome C-terminal domain {Synechocystis sp., pcc 6803 [TaxId: 1143]} Back     information, alignment and structure
>d1dnpa1 a.99.1.1 (A:201-469) C-terminal domain of DNA photolyase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1owla1 a.99.1.1 (A:205-475) C-terminal domain of DNA photolyase {Synechococcus elongatus [TaxId: 32046]} 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
>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
>d1jmva_ c.26.2.4 (A:) Universal stress protein A, UspA {Haemophilus influenzae [TaxId: 727]} 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