Citrus Sinensis ID: 016235

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---
MALIQFQAHATEDWLSWSCCSSSSGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMRL
cccEEEccccccHHHHHcccccccccccEEEEEccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcccccEEcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHcHHHHccccccccHHHHccccccccccccccccccEEccccHHHHHHHHHHccccccEEEEcccEEEEEEEccccc
ccEEEEccccccccHHcccccccccccccccHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEcccHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccccHHHHHHHHccccccccccccccccccccHHcHHHHHHHHHccccccEEEEcccEEEEEEEEEccc
MALIQFQAHatedwlswsccssssggcslrKILAlkpsrknlllkpksslvCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESlwygeerprwlgpipydypsyltgelpgdygfdvaglskdpmafQKYFNFEILHARWAMLGALGALVPEVLDMVGAFhlvepvwwrvgysklqgetldylgipglhlagsQGVIVIAICQALLMVgpecarycgiealeplgiflpgdinypggalfdplnlskdpvaFEELKVKEIKNGRLAMVAWLGFYIQAAftgkgpvqnlldhisdplhNNLLSMVksmddpsgcplermrrcqfrCNQTRRSLVLSMLtitpkkkiifgnnCFIYSTVRSMRL
MALIQFQahatedwlswSCCSSSSGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNeslwygeerprwlGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMltitpkkkiifgnncFIYSTVRSMRL
MALIQFQAHATEDwlswsccssssggcslRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMRL
***IQFQAHATEDWLSWSCCSSSSGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQN************************NESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMV********CPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTV*****
*ALI***AHATEDWLSWSCCSSSSGGCSLRK*******************************LVFSAI**********************************************************PIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMR*
MALIQFQAHATEDWLSWSCCSSSSGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMRL
*ALIQFQAHATEDWLSWSCCSSSSGGCSLRKILALKPSRKNLL******LVCKASWQELAGVLVFSAIPFTAVK****************************************LWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMRL
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MALIQFQAHATEDWLSWSCCSSSSGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSMDDPSGCPLERMRRCQFRCNQTRRSLVLSMLTITPKKKIIFGNNCFIYSTVRSMRL
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 ?
Query393 2.2.26 [Sep-21-2011]
P22686256 Chlorophyll a-b binding p N/A no 0.613 0.941 0.468 1e-55
P14278265 Chlorophyll a-b binding p N/A no 0.529 0.784 0.532 4e-55
P07370265 Chlorophyll a-b binding p N/A no 0.552 0.818 0.515 9e-55
P12328264 Chlorophyll a-b binding p N/A no 0.592 0.882 0.477 2e-54
P12470266 Chlorophyll a-b binding p N/A no 0.638 0.943 0.468 3e-54
P12062265 Chlorophyll a-b binding p N/A no 0.529 0.784 0.522 4e-54
P12469267 Chlorophyll a-b binding p N/A no 0.641 0.943 0.466 4e-54
P07369267 Chlorophyll a-b binding p N/A no 0.613 0.902 0.476 5e-54
P27494265 Chlorophyll a-b binding p N/A no 0.529 0.784 0.518 5e-54
P27495267 Chlorophyll a-b binding p N/A no 0.620 0.913 0.471 7e-54
>sp|P22686|CB2_CHLMO Chlorophyll a-b binding protein of LHCII type I, chloroplastic OS=Chlamydomonas moewusii PE=2 SV=1 Back     alignment and function desciption
 Score =  217 bits (553), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 118/252 (46%), Positives = 150/252 (59%), Gaps = 11/252 (4%)

Query: 84  LLQNRMLETK-KAALQDSSKFKALARQARNESL-WYGEERPRWLGPIPYDYPSYLTGELP 141
           L+ NR L  K +AA + +   +  A  A++  + WYG +R +WLGP   + P+YLTGE P
Sbjct: 5   LISNRALTVKVEAAKKAAGTKQTKAAPAKSAGIEWYGPDRAKWLGPFSTNTPAYLTGEFP 64

Query: 142 GDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRV 201
           GDYG+D AGLS DP  F+KY   E++HARWA+LGALG L PE+L         EPVW++ 
Sbjct: 65  GDYGWDTAGLSADPETFKKYRELEVIHARWALLGALGILTPELLSTYAGVKFGEPVWFKA 124

Query: 202 GYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPG 261
           G        LDYLG P L  A  Q ++     Q +LM   E  R  G  A E L    PG
Sbjct: 125 GAQIFSEGGLDYLGSPALIHA--QNIVATLAVQVVLMGLIEGYRVNGGPAGEGLDPLYPG 182

Query: 262 DINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLD 321
           +        FDPL L+ DP  F ELKVKEIKNGRLAM +  GF++QA  TGKGP+QNL D
Sbjct: 183 ES-------FDPLGLADDPDTFAELKVKEIKNGRLAMFSCFGFFVQAIVTGKGPIQNLAD 235

Query: 322 HISDPLHNNLLS 333
           H++DP  NN  +
Sbjct: 236 HLADPGTNNAFA 247
The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.
Chlamydomonas moewusii (taxid: 3054)
>sp|P14278|CB24_SOLLC Chlorophyll a-b binding protein 4, chloroplastic OS=Solanum lycopersicum GN=CAB4 PE=2 SV=1 Back     alignment and function description
>sp|P07370|CB2B_SOLLC Chlorophyll a-b binding protein 1B, chloroplastic OS=Solanum lycopersicum GN=CAB1B PE=3 SV=1 Back     alignment and function description
>sp|P12328|CB21_LEMGI Chlorophyll a-b binding protein of LHCII type I, chloroplastic OS=Lemna gibba PE=3 SV=1 Back     alignment and function description
>sp|P12470|CB25_NICPL Chlorophyll a-b binding protein E, chloroplastic OS=Nicotiana plumbaginifolia GN=CABE PE=3 SV=1 Back     alignment and function description
>sp|P12062|CB26_PETSP Chlorophyll a-b binding protein 37, chloroplastic OS=Petunia sp. GN=CAB37 PE=3 SV=1 Back     alignment and function description
>sp|P12469|CB23_NICPL Chlorophyll a-b binding protein C, chloroplastic OS=Nicotiana plumbaginifolia GN=CABC PE=3 SV=1 Back     alignment and function description
>sp|P07369|CB2G_SOLLC Chlorophyll a-b binding protein 3C, chloroplastic OS=Solanum lycopersicum GN=CAB3C PE=3 SV=1 Back     alignment and function description
>sp|P27494|CB23_TOBAC Chlorophyll a-b binding protein 36, chloroplastic OS=Nicotiana tabacum GN=CAB36 PE=3 SV=1 Back     alignment and function description
>sp|P27495|CB24_TOBAC Chlorophyll a-b binding protein 40, chloroplastic OS=Nicotiana tabacum GN=CAB40 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query393
297839529330 chlorophyll A-B binding family protein [ 0.781 0.930 0.788 1e-144
224083380338 light-harvesting complex II protein Lhcb 0.727 0.846 0.835 1e-143
15223108327 putative chlorophyll a/b-binding protein 0.776 0.932 0.778 1e-142
449455655338 PREDICTED: chlorophyll a-b binding prote 0.770 0.896 0.781 1e-141
255539358329 chlorophyll A/B binding protein, putativ 0.832 0.993 0.770 1e-141
449525738338 PREDICTED: chlorophyll a-b binding prote 0.770 0.896 0.778 1e-141
225457685331 PREDICTED: chlorophyll a-b binding prote 0.730 0.867 0.878 1e-140
358248178331 uncharacterized protein LOC100786260 [Gl 0.732 0.870 0.819 1e-139
115478412321 Os09g0296800 [Oryza sativa Japonica Grou 0.717 0.878 0.765 1e-125
414884910315 TPA: hypothetical protein ZEAMMB73_23528 0.763 0.952 0.733 1e-125
>gi|297839529|ref|XP_002887646.1| chlorophyll A-B binding family protein [Arabidopsis lyrata subsp. lyrata] gi|297333487|gb|EFH63905.1| chlorophyll A-B binding family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
 Score =  517 bits (1331), Expect = e-144,   Method: Compositional matrix adjust.
 Identities = 243/308 (78%), Positives = 275/308 (89%), Gaps = 1/308 (0%)

Query: 30  RKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRM 89
           ++I   +P R  + +  +S  +C+ASWQELAGVLVFSAIPFTAVKAIANS LGE L+ R+
Sbjct: 24  QRIYVPEPPRSRIAVT-RSRSICRASWQELAGVLVFSAIPFTAVKAIANSSLGESLRRRL 82

Query: 90  LETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVA 149
            E KK A+++SS+FKA A++ARN+S WYG+ERPRW GPIPYDYP YLTGELPGDYGFD+A
Sbjct: 83  EEKKKEAVENSSRFKAKAQEARNDSKWYGKERPRWFGPIPYDYPPYLTGELPGDYGFDIA 142

Query: 150 GLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGE 209
           GL KD + F KYFNFEILHARWAML ALGAL+PEVLD+ GAFH  EPVWWRVGYSKLQGE
Sbjct: 143 GLGKDRLTFDKYFNFEILHARWAMLAALGALIPEVLDLTGAFHFAEPVWWRVGYSKLQGE 202

Query: 210 TLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGA 269
           TLDYLGIPGLH+AGSQGVIVIAICQ LLMVGPE ARYCGIEALEPLGI+LPGDINYPGG 
Sbjct: 203 TLDYLGIPGLHVAGSQGVIVIAICQVLLMVGPEYARYCGIEALEPLGIYLPGDINYPGGT 262

Query: 270 LFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHN 329
           LFDPLNLS+DPVAFE+LKVKEIKNGRLAMVAWLGFY QAAFTGKGPVQNL+DH+SDPLHN
Sbjct: 263 LFDPLNLSEDPVAFEDLKVKEIKNGRLAMVAWLGFYAQAAFTGKGPVQNLVDHVSDPLHN 322

Query: 330 NLLSMVKS 337
           NLL+M+++
Sbjct: 323 NLLAMLQT 330

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224083380|ref|XP_002307004.1| light-harvesting complex II protein Lhcb7 [Populus trichocarpa] gi|222856453|gb|EEE94000.1| light-harvesting complex II protein Lhcb7 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|15223108|ref|NP_177783.1| putative chlorophyll a/b-binding protein [Arabidopsis thaliana] gi|12323973|gb|AAG51944.1|AC015450_5 putative chlorophyll A-B binding protein; 65434-67056 [Arabidopsis thaliana] gi|332197739|gb|AEE35860.1| putative chlorophyll a/b-binding protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|449455655|ref|XP_004145567.1| PREDICTED: chlorophyll a-b binding protein of LHCII type I, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|255539358|ref|XP_002510744.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223551445|gb|EEF52931.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449525738|ref|XP_004169873.1| PREDICTED: chlorophyll a-b binding protein of LHCII type I, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225457685|ref|XP_002276647.1| PREDICTED: chlorophyll a-b binding protein of LHCII type I, chloroplastic [Vitis vinifera] gi|297745621|emb|CBI40786.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|358248178|ref|NP_001240088.1| uncharacterized protein LOC100786260 [Glycine max] gi|255636882|gb|ACU18774.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|115478412|ref|NP_001062801.1| Os09g0296800 [Oryza sativa Japonica Group] gi|50725078|dbj|BAD33211.1| putative chlorophyll a/b-binding protein [Oryza sativa Japonica Group] gi|113631034|dbj|BAF24715.1| Os09g0296800 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|414884910|tpg|DAA60924.1| TPA: hypothetical protein ZEAMMB73_235289 [Zea mays] 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 ?
Query393
TAIR|locus:2011691327 AT1G76570 [Arabidopsis thalian 0.776 0.932 0.778 2.3e-133
TAIR|locus:2089139266 LHCB2.3 "photosystem II light 0.529 0.781 0.532 7e-54
TAIR|locus:2044988265 LHCB2.2 "photosystem II light 0.536 0.796 0.520 1e-52
TAIR|locus:2042148265 LHCB2.1 "photosystem II light 0.536 0.796 0.520 1e-52
TAIR|locus:2162540265 LHCB3 "light-harvesting chloro 0.529 0.784 0.504 1.5e-51
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.557 0.839 0.502 1.3e-50
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.554 0.816 0.486 1.3e-50
TAIR|locus:2019372267 CAB2 "chlorophyll A/B-binding 0.554 0.816 0.486 1.3e-50
TAIR|locus:2019322267 CAB1 "chlorophyll A/B binding 0.554 0.816 0.486 1.3e-50
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.536 0.796 0.515 1.7e-50
TAIR|locus:2011691 AT1G76570 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1307 (465.1 bits), Expect = 2.3e-133, P = 2.3e-133
 Identities = 239/307 (77%), Positives = 272/307 (88%)

Query:    31 KILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRML 90
             +IL  KP  +N +   KS  +C+ASWQELAGVLVFSAIPFTAVKAIANS +G  L+ R+ 
Sbjct:    23 RILVSKP--RNRIAVTKSRSICRASWQELAGVLVFSAIPFTAVKAIANSSIGVSLRRRLE 80

Query:    91 ETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAG 150
             E KK A+++SS+FK+ A++ARN+S WYG+ERPRW GPIPYDYP YLTGELPGDYGFD+AG
Sbjct:    81 EKKKEAVENSSRFKSKAQEARNDSKWYGKERPRWFGPIPYDYPPYLTGELPGDYGFDIAG 140

Query:   151 LSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGET 210
             L KD + F KYFNFEILHARWAML ALGAL+PEV D+ G FH  EPVWWRVGYSKLQGET
Sbjct:   141 LGKDRLTFDKYFNFEILHARWAMLAALGALIPEVFDLTGTFHFAEPVWWRVGYSKLQGET 200

Query:   211 LDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGAL 270
             L+YLGIPGLH+AGSQGVIVIAICQ LLMVGPE ARYCGIEALEPLGI+LPGDINYPGG L
Sbjct:   201 LEYLGIPGLHVAGSQGVIVIAICQVLLMVGPEYARYCGIEALEPLGIYLPGDINYPGGTL 260

Query:   271 FDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNN 330
             FDPLNLS+DPVAFE+LKVKEIKNGRLAMVAWLGFY QAAFTGKGPVQNL+DH+SDPLHNN
Sbjct:   261 FDPLNLSEDPVAFEDLKVKEIKNGRLAMVAWLGFYAQAAFTGKGPVQNLVDHVSDPLHNN 320

Query:   331 LLSMVKS 337
             L++M+++
Sbjct:   321 LIAMLQT 327
GO:0009507 "chloroplast" evidence=ISM
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0015979 "photosynthesis" evidence=ISS
GO:0016020 "membrane" evidence=IEA
GO:0016168 "chlorophyll binding" evidence=ISS
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0009637 "response to blue light" evidence=IEP
GO:0010218 "response to far red light" evidence=IEP
GO:0010264 "myo-inositol hexakisphosphate biosynthetic process" evidence=RCA
GO:0015996 "chlorophyll catabolic process" evidence=RCA
TAIR|locus:2089139 LHCB2.3 "photosystem II light harvesting complex gene 2.3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2044988 LHCB2.2 "photosystem II light harvesting complex gene 2.2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2042148 LHCB2.1 "photosystem II light harvesting complex gene 2.1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2162540 LHCB3 "light-harvesting chlorophyll B-binding protein 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P12331 CAB2R "Chlorophyll a-b binding protein 2, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2019287 CAB3 "chlorophyll A/B binding protein 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2019372 CAB2 "chlorophyll A/B-binding protein 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2019322 CAB1 "chlorophyll A/B binding protein 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P12330 CAB1R "Chlorophyll a-b binding protein 1, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)] 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 ?
Query393
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 0.0
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 1e-82
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 6e-49
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 5e-46
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 3e-40
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 1e-38
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 3e-38
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 7e-38
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 4e-36
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 2e-35
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 8e-29
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 9e-19
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 4e-09
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 1e-06
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 3e-04
PLN00120202 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c bi 8e-04
>gnl|CDD|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information 
 Score =  622 bits (1605), Expect = 0.0
 Identities = 262/322 (81%), Positives = 286/322 (88%), Gaps = 3/322 (0%)

Query: 16  SWSCCSSS-SGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVK 74
           S S  SSS SG  SL +ILA KP R+    +P SS  C+ASWQELAGVLVFSAIPFTAVK
Sbjct: 4   SVSSSSSSFSGQHSLPRILASKPRRRRATRRPASS--CRASWQELAGVLVFSAIPFTAVK 61

Query: 75  AIANSPLGELLQNRMLETKKAALQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPS 134
           AIANS LGE LQ R+ ETKKAA+++SS FKA A++ARNES WYGEERPRWLGPIPYDYP 
Sbjct: 62  AIANSSLGESLQRRLEETKKAAVEESSAFKAAAQKARNESFWYGEERPRWLGPIPYDYPD 121

Query: 135 YLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHLV 194
           +LTGELPGDYGFD+AGL KDP+AF KYFNFEILHARWAML ALG ++PEVLD+ GA H  
Sbjct: 122 HLTGELPGDYGFDIAGLGKDPVAFDKYFNFEILHARWAMLAALGVVIPEVLDLFGAVHFA 181

Query: 195 EPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEP 254
           EPVWWRVGY+KLQG+TLDYLGIPGLH+AGSQGVIVIAICQALLMVGPE ARYCGIEALEP
Sbjct: 182 EPVWWRVGYAKLQGDTLDYLGIPGLHIAGSQGVIVIAICQALLMVGPEYARYCGIEALEP 241

Query: 255 LGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKG 314
           LGI+LPGDINYPGGALFDPL LSKDPVAFE+LKVKEIKNGRLAMVAWLGFYIQAA TGKG
Sbjct: 242 LGIYLPGDINYPGGALFDPLGLSKDPVAFEDLKVKEIKNGRLAMVAWLGFYIQAAVTGKG 301

Query: 315 PVQNLLDHISDPLHNNLLSMVK 336
           PVQNL+DH+SDPLHNNLLS +K
Sbjct: 302 PVQNLVDHLSDPLHNNLLSSLK 323

Length = 324
>gnl|CDD|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>gnl|CDD|215076 PLN00147, PLN00147, light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>gnl|CDD|177680 PLN00048, PLN00048, photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|177716 PLN00098, PLN00098, light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>gnl|CDD|165670 PLN00097, PLN00097, photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>gnl|CDD|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>gnl|CDD|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>gnl|CDD|215054 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>gnl|CDD|215087 PLN00170, PLN00170, photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>gnl|CDD|177710 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|215063 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 393
PLN00171324 photosystem light-harvesting complex -chlorophyll 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 100.0
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 100.0
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 100.0
PLN00101250 Photosystem I light-harvesting complex type 4 prot 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 100.0
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 100.0
PLN00170255 photosystem II light-harvesting-Chl-binding protei 100.0
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 100.0
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 100.0
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.73
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.65
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.65
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.6
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.59
PLN00187286 photosystem II light-harvesting complex II protein 99.59
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.59
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.58
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.58
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.55
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.54
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.53
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.46
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.34
PHA0233735 putative high light inducible protein 97.87
PLN00084214 photosystem II subunit S (PsbS); Provisional 97.66
PLN00014250 light-harvesting-like protein 3; Provisional 97.27
PHA0233735 putative high light inducible protein 96.97
PLN00014250 light-harvesting-like protein 3; Provisional 95.23
PLN00084214 photosystem II subunit S (PsbS); Provisional 91.55
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.3e-95  Score=715.52  Aligned_cols=317  Identities=81%  Similarity=1.348  Sum_probs=294.9

Q ss_pred             ccccCC-CCCcchhHHHhcCccccccccCCCCcchhhhhHhhhhhheeeeccchhhHHHhhcChhhHHHHHhHHHhHHHh
Q 016235           18 SCCSSS-SGGCSLRKILALKPSRKNLLLKPKSSLVCKASWQELAGVLVFSAIPFTAVKAIANSPLGELLQNRMLETKKAA   96 (393)
Q Consensus        18 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~s~~g~~~~~~~~~~~~~~   96 (393)
                      ||-+|| ++.-++++++++++|++..  +++.+++|||||||+|||+||||+|||++|+||||+||++||+|++++|+++
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (324)
T PLN00171          6 SSSSSSFSGQHSLPRILASKPRRRRA--TRRPASSCRASWQELAGVLVFSAIPFTAVKAIANSSLGESLQRRLEETKKAA   83 (324)
T ss_pred             cccccccccccccchhhccccccccc--cCCCCccchhhHHhhhheeeeecccHHHHHHHhcCcHHHHHHHHHHHhhHHH
Confidence            443443 3445789999999999988  7778999999999999999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHhhcccCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCHHHHHHHHHHHHhhhhhHHHHh
Q 016235           97 LQDSSKFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGA  176 (393)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~wyg~~r~~wl~~~~~~~P~yLdGslPGD~GFDPLGLs~dpe~~~~yREAELkHGR~AMLA~  176 (393)
                      +++++++++.++++|+.+.||+++|++||||+++++|+||||++|||||||||||++||++++||||+|||||||||||+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~g~~R~~wl~~~~~~~P~yLdG~lpGD~GFDPLGL~~dp~~l~~~reaELkHGR~AMLA~  163 (324)
T PLN00171         84 VEESSAFKAAAQKARNESFWYGEERPRWLGPIPYDYPDHLTGELPGDYGFDIAGLGKDPVAFDKYFNFEILHARWAMLAA  163 (324)
T ss_pred             HHhHHHHHHHHHhhcccCcccCCCCccccCCCCCCCCcccCCCCCcccCCCccccccCHHHHHHHHHHHhccchHHHHHH
Confidence            99999999999999999999999999999999889999999999999999999999999999999999999999999999


Q ss_pred             hhhhhhhhhhcccccccCcchhhhccccccCCCcccccCCCcccccchhhHHHHHHHHHHHhhcchhhhcccccccCCCC
Q 016235          177 LGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLG  256 (393)
Q Consensus       177 vG~lvpEll~~~G~~~f~~p~W~~aG~~~l~g~~l~ylg~P~l~~ag~q~i~~i~~~Qillm~g~E~~r~~gi~~~~p~G  256 (393)
                      +|+++||++++.|.+++++|+||++|+..+++..++|+++|+..+++.|.+..++++|+++|+++|++|+.++...++.+
T Consensus       164 ~G~lv~e~l~~~g~~~~~~p~W~~aG~~~~~g~~~~y~~~p~~~~~~~q~l~~i~~iEillm~g~E~~R~~~~~~~~~~g  243 (324)
T PLN00171        164 LGVVIPEVLDLFGAVHFAEPVWWRVGYAKLQGDTLDYLGIPGLHIAGSQGVIVIAICQALLMVGPEYARYCGIEALEPLG  243 (324)
T ss_pred             hhHHHHHHhccCCccccCccchhhcccccccccchhhccCCccccchhHHHHHHHHHHHHHhhhhhheeeccccccCCcc
Confidence            99999999988888888889999999888888888899888765667788899999999999999999998876555556


Q ss_pred             ccCCCCCCCCCCCCCCCCCCCCChHHHHHHHHHHHhhhHHHHHHHHHHHHhhhccCCCchhhhhhhhcCccccchhhhcc
Q 016235          257 IFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVK  336 (393)
Q Consensus       257 ~~~pGD~~yPGg~gFDPLGLakdpe~~~elklKEIKNGRLAMlA~lGf~aQe~VTGkGPlenL~~hlaDP~~~N~~~~~~  336 (393)
                      .+.|||..||||.+|||||+++|+++++++|++|||||||||+||+||++|+.+||+||++||.+|++||+|||+++++.
T Consensus       244 ~~~PGD~gYPGG~~FDPLGl~~d~~~~~~~k~kELkNGRLAM~A~lG~~vq~~vTG~GPlenL~~hladP~~~Ni~~~~~  323 (324)
T PLN00171        244 IYLPGDINYPGGALFDPLGLSKDPVAFEDLKVKEIKNGRLAMVAWLGFYIQAAVTGKGPVQNLVDHLSDPLHNNLLSSLK  323 (324)
T ss_pred             ccCCCcccCCcccCCCccccCCCHHHHHHHHHHHHhhhHHHHHHHHHHHHhHhhcCCChHHHHHHHhcCccccchHHHhc
Confidence            67899999999988999999999999999999999999999999999999999999999999999999999999999873

>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PF00504 Chloroa_b-bind: Chlorophyll A-B binding protein; InterPro: IPR022796 The light-harvesting complex (LHC) consists of chlorophylls A and B and the chlorophyll A-B binding protein Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PF00504 Chloroa_b-bind: Chlorophyll A-B binding protein; InterPro: IPR022796 The light-harvesting complex (LHC) consists of chlorophylls A and B and the chlorophyll A-B binding protein Back     alignment and domain information
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PHA02337 putative high light inducible protein Back     alignment and domain information
>PLN00084 photosystem II subunit S (PsbS); Provisional Back     alignment and domain information
>PLN00014 light-harvesting-like protein 3; Provisional Back     alignment and domain information
>PHA02337 putative high light inducible protein Back     alignment and domain information
>PLN00014 light-harvesting-like protein 3; Provisional Back     alignment and domain information
>PLN00084 photosystem II subunit S (PsbS); 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 ?
Query393
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 3e-53
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 3e-53
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 6e-53
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 2e-33
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 2e-30
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 3e-30
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 4e-30
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 6e-29
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 4e-28
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 5e-26
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 1e-22
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 1e-21
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 1e-20
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 4e-20
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 3e-18
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 1e-15
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 Back     alignment and structure 
Iteration: 1

 Score =  206 bits (523), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 113/231 (48%), Positives = 145/231 (62%), Gaps = 10/231 (4%)
Query: 108 RQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEIL 167
           + A + S WYG +R ++LGP   + PSYLTGE PGDYG+D AGLS DP  F K    E++
Sbjct: 8   KVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVI 67
Query: 168 HARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGV 227
           H+RWAMLGALG++ PE+L   G     E VW++ G        LDYLG P L  A  Q +
Sbjct: 68  HSRWAMLGALGSVFPELLSRNGV-KFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA--QSI 124
Query: 228 IVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELK 287
           + I   Q +LM   E  R  G     PLG  +  D  YPGG+ FDPL L+ DP AF ELK
Sbjct: 125 LAIWATQVILMGAVEGYRIAG----GPLGEVV--DPLYPGGS-FDPLGLADDPEAFAELK 177
Query: 288 VKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM 338
           VKE+KNGRLAM +  GF++QA  TGKGP++NL DH++DP++NN  S   + 
Sbjct: 178 VKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNF 228
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 Back     alignment and structure
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB Protein Complex From Pea Thylakoid Membranes Length = 232 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 Back     alignment and structure
>pdb|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I Length = 241 Back     alignment and structure
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 186 Back     alignment and structure
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 187 Back     alignment and structure
>pdb|2WSC|2 Chain 2, Improved Model Of Plant Photosystem I Length = 269 Back     alignment and structure
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 Back     alignment and structure
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting Complex Cp29 At 2.80 Angstrom Resolution Length = 243 Back     alignment and structure
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 Back     alignment and structure
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I Length = 166 Back     alignment and structure
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 Back     alignment and structure
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I Length = 172 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 ?
Query393
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 1e-64
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 1e-57
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 5e-57
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 7e-51
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 6e-48
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 2e-47
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-04
>2bhw_A Chlorophyll A-B binding protein AB80; LHC-II, photosynthesis, light-harvesting, membrane protein, chloroplast, chromophore, membrane; HET: LUX NEX XAT CLA CHL LHG DGD; 2.50A {Pisum sativum} PDB: 1vcr_A* 1rwt_A* Length = 232 Back     alignment and structure
 Score =  205 bits (521), Expect = 1e-64
 Identities = 108/232 (46%), Positives = 139/232 (59%), Gaps = 10/232 (4%)

Query: 102 KFKALARQARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKY 161
           K     + A + S WYG +R ++LGP   + PSYLTGE PGDYG+D AGLS DP  F K 
Sbjct: 2   KSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKN 61

Query: 162 FNFEILHARWAMLGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHL 221
              E++H+RWAMLGALG++ PE+L   G     E VW++ G        LDYLG P   L
Sbjct: 62  RELEVIHSRWAMLGALGSVFPELLSRNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPS--L 118

Query: 222 AGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPV 281
             +Q ++ I   Q +LM   E  R  G    E +    PG         FDPL L+ DP 
Sbjct: 119 VHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGS-------FDPLGLADDPE 171

Query: 282 AFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLS 333
           AF ELKVKE+KNGRLAM +  GF++QA  TGKGP++NL DH++DP++NN  S
Sbjct: 172 AFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWS 223
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Length = 276 Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Length = 269 Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Length = 251 Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Length = 243 Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Length = 241 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 ?
Query393
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 100.0
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 100.0
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 100.0
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 100.0
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 100.0
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.6
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.6
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.56
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.55
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.55
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.42
>2bhw_A Chlorophyll A-B binding protein AB80; LHC-II, photosynthesis, light-harvesting, membrane protein, chloroplast, chromophore, membrane; HET: LUX NEX XAT CLA CHL LHG DGD; 2.50A {Pisum sativum} PDB: 1vcr_A* 1rwt_A* Back     alignment and structure
Probab=100.00  E-value=9.7e-67  Score=493.34  Aligned_cols=219  Identities=51%  Similarity=0.909  Sum_probs=196.1

Q ss_pred             hcccCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCHHHHHHHHHHHHhhhhhHHHHhhhhhhhhhhhccc
Q 016235          110 ARNESLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVG  189 (393)
Q Consensus       110 ~~~~~~wyg~~r~~wl~~~~~~~P~yLdGslPGD~GFDPLGLs~dpe~~~~yREAELkHGR~AMLA~vG~lvpEll~~~G  189 (393)
                      +.+.+.||+++|++||||++.++|+||||++|||||||||||++|+++++||||+|||||||||||++|+++||+++..|
T Consensus        10 ~~~~~~~~~~~r~~~l~~~~~~~P~~LdG~~pGD~GFDPLGLs~d~e~~~r~ReaELkHGR~AMLA~~G~lv~E~l~~~G   89 (232)
T 2bhw_A           10 ASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPELLSRNG   89 (232)
T ss_dssp             CCTTCTTSSTTCCCTTGGGCCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cccCCcccCCCcccccCccccCCccccCCcCCCCCCCCCCcCCCCHHHHHHHHHHHHhccchHHHhhhhhhhHHHhccCC
Confidence            34578999999999999987789999999999999999999999999999999999999999999999999999998877


Q ss_pred             ccccCcchhhhccccccCCCcccccCCCcccccchhhHHHHHHHHHHHhhcchhhhcccccccCCCCccCCCCCCCCCCC
Q 016235          190 AFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGA  269 (393)
Q Consensus       190 ~~~f~~p~W~~aG~~~l~g~~l~ylg~P~l~~ag~q~i~~i~~~Qillm~g~E~~r~~gi~~~~p~G~~~pGD~~yPGg~  269 (393)
                       ++|+++.||++|...+++..++|+++|.+.  +.|.+.+++++|+++|+.+|.+|+.+    ++.++  ..|..||||+
T Consensus        90 -~~~~~~~w~~ag~~~~~~~~~~~~~~P~~~--~~q~i~~~~~~q~~~~g~~E~~r~~~----g~~g~--~~d~~~Pg~~  160 (232)
T 2bhw_A           90 -VKFGEAVWFKAGSQIFSEGGLDYLGNPSLV--HAQSILAIWATQVILMGAVEGYRIAG----GPLGE--VVDPLYPGGS  160 (232)
T ss_dssp             -CCCSCCSGGGSGGGGGSTTCEEGGGCTTSE--EECCHHHHHHHHHHHHHHHHHHHHHE----ETTEE--CSSSSCCCTT
T ss_pred             -cCCcccccccccchhccccchhcccCcchh--hHHHHHHHHHHHHHHHHHHHHHhhcc----Ccccc--cccccCCCcc
Confidence             578889999999877776678898888643  45777888999999999899998765    12222  2466799996


Q ss_pred             CCCCCCCCCChHHHHHHHHHHHhhhHHHHHHHHHHHHhhhccCCCchhhhhhhhcCccccchhhhcccC
Q 016235          270 LFDPLNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM  338 (393)
Q Consensus       270 gFDPLGLakdpe~~~elklKEIKNGRLAMlA~lGf~aQe~VTGkGPlenL~~hlaDP~~~N~~~~~~~~  338 (393)
                       |||||+.+|+++++++|++|||||||||+|++|+++|+++||+||++||.+|++||+|||++++++.+
T Consensus       161 -fdPlgl~~~~~~~~~~~~~E~~nGRlAM~~~~g~~~~~~~tg~g~~~~l~~~~adP~~~n~~~~~~~~  228 (232)
T 2bhw_A          161 -FDPLGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSYATNF  228 (232)
T ss_dssp             -SCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCSHHHHHHHHHCTTTSSGGGGTTTT
T ss_pred             -cccchhccchHHHHHHHHhhhhccchHHHHHHHHHHHHHhcCCChHHHHHHHhcChHHhHHHHHHHhh
Confidence             99999999999999999999999999999999999999999999999999999999999999998654
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Back     alignment and structure
>2bhw_A Chlorophyll A-B binding protein AB80; LHC-II, photosynthesis, light-harvesting, membrane protein, chloroplast, chromophore, membrane; HET: LUX NEX XAT CLA CHL LHG DGD; 2.50A {Pisum sativum} PDB: 1vcr_A* 1rwt_A* Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* 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 393
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 2e-73
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 218 Back     information, alignment and structure

class: Membrane and cell surface proteins and peptides
fold: Chlorophyll a-b binding protein
superfamily: Chlorophyll a-b binding protein
family: Chlorophyll a-b binding protein
domain: Chlorophyll a-b binding protein
species: Spinach (Spinacia oleracea) [TaxId: 3562]

 Score =  226 bits (577), Expect = 2e-73
 Identities = 110/222 (49%), Positives = 138/222 (62%), Gaps = 10/222 (4%)

Query: 114 SLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAM 173
           S WYG +R ++LGP   + PSYLTGE PGDYG+D AGLS DP  F K    E++H RWAM
Sbjct: 1   SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAM 60

Query: 174 LGALGALVPEVLDMVGAFHLVEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAIC 233
           LGALG + PE+L   G     E VW++ G        LDYLG P   L  +Q ++ I  C
Sbjct: 61  LGALGCVFPELLARNG-VKFGEAVWFKAGSQIFSEGGLDYLGNPS--LVHAQSILAIWAC 117

Query: 234 QALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDPLNLSKDPVAFEELKVKEIKN 293
           Q +LM   E  R  G    E +      D  YPGG+ FDPL L+ DP AF ELKVKEIKN
Sbjct: 118 QVILMGAVEGYRIAGGPLGEVV------DPLYPGGS-FDPLGLADDPEAFAELKVKEIKN 170

Query: 294 GRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMV 335
           GRLAM +  GF++QA  TGKGP++NL DH++DP++NN  +  
Sbjct: 171 GRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFA 212

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query393
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.67
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure
class: Membrane and cell surface proteins and peptides
fold: Chlorophyll a-b binding protein
superfamily: Chlorophyll a-b binding protein
family: Chlorophyll a-b binding protein
domain: Chlorophyll a-b binding protein
species: Spinach (Spinacia oleracea) [TaxId: 3562]

Probab=100.00  E-value=7.6e-67  Score=485.74  Aligned_cols=215  Identities=52%  Similarity=0.932  Sum_probs=183.2

Q ss_pred             CccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCCCCHHHHHHHHHHHHhhhhhHHHHhhhhhhhhhhhccccccc
Q 016235          114 SLWYGEERPRWLGPIPYDYPSYLTGELPGDYGFDVAGLSKDPMAFQKYFNFEILHARWAMLGALGALVPEVLDMVGAFHL  193 (393)
Q Consensus       114 ~~wyg~~r~~wl~~~~~~~P~yLdGslPGD~GFDPLGLs~dpe~~~~yREAELkHGR~AMLA~vG~lvpEll~~~G~~~f  193 (393)
                      ++|||+||++||||++.+.|+||||+||||||||||||++|+++++||||+|||||||||||++|++++|+++..+ ..+
T Consensus         1 ~~~~~~~r~~~~~~~~~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~-~~~   79 (218)
T d1rwta_           1 SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNG-VKF   79 (218)
T ss_dssp             CTTSSTTCCCTTGGGGCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT-CCC
T ss_pred             CCCCCCCCcccCCccccCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCC-CCC
Confidence            5899999999999998889999999999999999999999999999999999999999999999999999988765 346


Q ss_pred             CcchhhhccccccCCCcccccCCCcccccchhhHHHHHHHHHHHhhcchhhhcccccccCCCCccCCCCCCCCCCCCCCC
Q 016235          194 VEPVWWRVGYSKLQGETLDYLGIPGLHLAGSQGVIVIAICQALLMVGPECARYCGIEALEPLGIFLPGDINYPGGALFDP  273 (393)
Q Consensus       194 ~~p~W~~aG~~~l~g~~l~ylg~P~l~~ag~q~i~~i~~~Qillm~g~E~~r~~gi~~~~p~G~~~pGD~~yPGg~gFDP  273 (393)
                      ..+.|++++........++++..|..  ...+.+..++.+++.++..+|..|..+.    +.+  ...|..|||+ +|||
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~e~~~~~~~----~~~--~~~~~~~~~g-~fdP  150 (218)
T d1rwta_          80 GEAVWFKAGSQIFSEGGLDYLGNPSL--VHAQSILAIWACQVILMGAVEGYRIAGG----PLG--EVVDPLYPGG-SFDP  150 (218)
T ss_dssp             SCCSHHHHGGGGGSTTCBCGGGCTTS--CCBCCHHHHHHHHHHHHHHHHHHHHHCB----TTB--CCSSSSCCCG-GGCT
T ss_pred             CCcccccccccccCcchhhhhcCchH--HHHHHHHHHHHHHHHHHhhhhhhcccCC----Ccc--cccCCCCCCC-Cccc
Confidence            67788887776665566666666643  2345566666667777777787775432    111  2346678888 7999


Q ss_pred             CCCCCChHHHHHHHHHHHhhhHHHHHHHHHHHHhhhccCCCchhhhhhhhcCccccchhhhcccC
Q 016235          274 LNLSKDPVAFEELKVKEIKNGRLAMVAWLGFYIQAAFTGKGPVQNLLDHISDPLHNNLLSMVKSM  338 (393)
Q Consensus       274 LGLakdpe~~~elklKEIKNGRLAMlA~lGf~aQe~VTGkGPlenL~~hlaDP~~~N~~~~~~~~  338 (393)
                      +++.+|+++++++|+|||||||||||||+||++|+++||+||++||.+|++||+||||++++++.
T Consensus       151 lg~~~~~e~~~~~k~kElkNGRLAMlAi~G~~~qe~vtG~gp~~nl~~h~~~P~~~n~~~~~~~~  215 (218)
T d1rwta_         151 LGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFATNF  215 (218)
T ss_dssp             TCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHCTTTSSGGGGTTSS
T ss_pred             cccCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhcCCCHHHHHHHHhcCchhhhHHHHHhcc
Confidence            99999999999999999999999999999999999999999999999999999999999988764
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure