Citrus Sinensis ID: 040587

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-------16
SLAASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccc
ccccHHHHccccHEHHHccccccccccccccccccccccccccccccccHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHEEHHcc
slaaseihgkgcitmrktagkpkpvssgsqwygpdrvkyldplsggapfyltgefpgdygwdtaclsadpeiFAKNRELKVIHARWAMLGVLCCFKAGAQifseggldylenpslihAQSILAVWAIQVILMGavggygtaggplgevtdplslswwql
slaaseihgkgcitmrktagkpkpvssgsqwygpDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
SLAASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMgavggygtaggplgEVTDPLSLSWWQL
******************************WYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWW**
*************************************KYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
SLAASEIHGKGCITMRK***********SQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
*****************************QWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SLAASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWWQL
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 ?
Query159 2.2.26 [Sep-21-2011]
P27492266 Chlorophyll a-b binding p N/A no 0.955 0.571 0.705 3e-62
P12333267 Chlorophyll a-b binding p N/A no 0.937 0.558 0.730 6e-62
P07369267 Chlorophyll a-b binding p N/A no 0.955 0.569 0.705 1e-61
P04783267 Chlorophyll a-b binding p N/A no 0.955 0.569 0.711 2e-61
P12470266 Chlorophyll a-b binding p N/A no 0.955 0.571 0.7 2e-61
P27495267 Chlorophyll a-b binding p N/A no 0.955 0.569 0.705 2e-61
P27496267 Chlorophyll a-b binding p N/A no 0.955 0.569 0.7 2e-61
P27491267 Chlorophyll a-b binding p N/A no 0.955 0.569 0.705 3e-61
P12331261 Chlorophyll a-b binding p yes no 0.943 0.574 0.702 5e-61
P04782266 Chlorophyll a-b binding p N/A no 0.943 0.563 0.708 5e-61
>sp|P27492|CB21_TOBAC Chlorophyll a-b binding protein 16, chloroplastic OS=Nicotiana tabacum GN=CAB16 PE=2 SV=1 Back     alignment and function desciption
 Score =  236 bits (603), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 120/170 (70%), Positives = 130/170 (76%), Gaps = 18/170 (10%)

Query: 1   SLAASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYG 60
           S ++SE+ G G +TMRKTA K KPVSSGS WYGPDRVKYL P SG +P YLTGEFPGDYG
Sbjct: 20  SPSSSEVTGNGKVTMRKTASKAKPVSSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYG 79

Query: 61  WDTACLSADPEIFAKNRELKVIHARWAMLGVLCC------------------FKAGAQIF 102
           WDTA LSADPE FAKNREL+VIH RWAMLG L C                  FKAG+QIF
Sbjct: 80  WDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIF 139

Query: 103 SEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPL 152
           SEGGLDYL NPSL+HAQSILA+WA QV+LMGAV GY  AGGPLGEV DPL
Sbjct: 140 SEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRVAGGPLGEVVDPL 189
The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.
Nicotiana tabacum (taxid: 4097)
>sp|P12333|CB2A_SPIOL Chlorophyll a-b binding protein, chloroplastic OS=Spinacia oleracea PE=1 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|P04783|CB25_PETSP Chlorophyll a-b binding protein 91R, chloroplastic OS=Petunia sp. GN=CAB91R 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|P27495|CB24_TOBAC Chlorophyll a-b binding protein 40, chloroplastic OS=Nicotiana tabacum GN=CAB40 PE=2 SV=1 Back     alignment and function description
>sp|P27496|CB25_TOBAC Chlorophyll a-b binding protein 50, chloroplastic OS=Nicotiana tabacum GN=CAB50 PE=2 SV=1 Back     alignment and function description
>sp|P27491|CB27_TOBAC Chlorophyll a-b binding protein 7, chloroplastic OS=Nicotiana tabacum GN=CAB7 PE=3 SV=1 Back     alignment and function description
>sp|P12331|CB22_ORYSJ Chlorophyll a-b binding protein 2, chloroplastic OS=Oryza sativa subsp. japonica GN=CAB2R PE=2 SV=2 Back     alignment and function description
>sp|P04782|CB24_PETSP Chlorophyll a-b binding protein 25, chloroplastic OS=Petunia sp. GN=CAB25 PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query159
168296 266 light-harvesting chlorophyll a/b protein 0.943 0.563 0.732 2e-62
94404555 267 putative chloroplast chlorophyll a/b-bin 0.943 0.561 0.720 7e-62
449455992 267 PREDICTED: chlorophyll a-b binding prote 0.955 0.569 0.717 1e-61
133917261 267 major chlorophyll a/b binding protein LH 0.937 0.558 0.736 4e-61
556367 267 light-harvesting chlorophyll a/b-binding 0.943 0.561 0.726 7e-61
3036949 266 light harvesting chlorophyll a/b-binding 0.955 0.571 0.717 8e-61
3036948 267 light harvesting chlorophyll a/b-binding 0.955 0.569 0.711 1e-60
3036955 267 light harvesting chlorophyll a/b-binding 0.955 0.569 0.711 2e-60
283549609 267 major chlorophyll a/b binding protein LH 0.937 0.558 0.730 2e-60
115781 266 RecName: Full=Chlorophyll a-b binding pr 0.955 0.571 0.705 2e-60
>gi|168296|gb|AAA33396.1| light-harvesting chlorophyll a/b protein precursor [Lemna gibba] Back     alignment and taxonomy information
 Score =  243 bits (621), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 123/168 (73%), Positives = 132/168 (78%), Gaps = 18/168 (10%)

Query: 3   AASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWD 62
           AASE+ G+G ++MRKTAGKPKPVSSGS WYGPDRVKYL P SG AP YLTGEF GDYGWD
Sbjct: 22  AASEVFGEGRVSMRKTAGKPKPVSSGSPWYGPDRVKYLGPFSGEAPSYLTGEFAGDYGWD 81

Query: 63  TACLSADPEIFAKNRELKVIHARWAMLGVLCC------------------FKAGAQIFSE 104
           TA LSADPE FAKNREL+VIHARWAMLG L C                  FKAG+QIFSE
Sbjct: 82  TAGLSADPETFAKNRELEVIHARWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSE 141

Query: 105 GGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPL 152
           GGLDYL NPSL+HAQSILA+WA QV+LMGAV GY  AGGPLGEV DPL
Sbjct: 142 GGLDYLGNPSLVHAQSILAIWATQVVLMGAVEGYRVAGGPLGEVVDPL 189

Source: Lemna gibba

Species: Lemna gibba

Genus: Lemna

Family: Araceae

Order: Alismatales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|94404555|gb|ABF17940.1| putative chloroplast chlorophyll a/b-binding protein [Carya cathayensis] Back     alignment and taxonomy information
>gi|449455992|ref|XP_004145734.1| PREDICTED: chlorophyll a-b binding protein, chloroplastic-like [Cucumis sativus] gi|449525484|ref|XP_004169747.1| PREDICTED: chlorophyll a-b binding protein, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|133917261|emb|CAJ77390.1| major chlorophyll a/b binding protein LHCb1.2 [Spinacia oleracea] Back     alignment and taxonomy information
>gi|556367|gb|AAA50310.1| light-harvesting chlorophyll a/b-binding protein [Prunus persica] Back     alignment and taxonomy information
>gi|3036949|dbj|BAA25393.1| light harvesting chlorophyll a/b-binding protein [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|3036948|dbj|BAA25392.1| light harvesting chlorophyll a/b-binding protein [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|3036955|dbj|BAA25396.1| light harvesting chlorophyll a/b-binding protein [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|283549609|emb|CAX64458.1| major chlorophyll a/b binding protein LHCb1.4 precursor [Spinacia oleracea] Back     alignment and taxonomy information
>gi|115781|sp|P27492.1|CB21_TOBAC RecName: Full=Chlorophyll a-b binding protein 16, chloroplastic; AltName: Full=LHCII type I CAB-16; Short=LHCP; Flags: Precursor gi|19819|emb|CAA36955.1| unnamed protein product [Nicotiana tabacum] 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 ?
Query159
TAIR|locus:2162540265 LHCB3 "light-harvesting chloro 0.471 0.283 0.706 4.6e-40
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.578 0.352 0.75 2.2e-34
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.584 0.348 0.734 6.7e-33
TAIR|locus:2019372267 CAB2 "chlorophyll A/B-binding 0.584 0.348 0.734 6.7e-33
TAIR|locus:2019322267 CAB1 "chlorophyll A/B binding 0.584 0.348 0.734 6.7e-33
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.572 0.343 0.75 8.5e-33
TAIR|locus:2040934265 LHB1B2 "photosystem II light h 0.572 0.343 0.728 2.9e-32
TAIR|locus:2040944266 LHB1B1 "light-harvesting chlor 0.578 0.345 0.734 3.3e-31
TAIR|locus:2042148265 LHCB2.1 "photosystem II light 0.622 0.373 0.6 1.3e-27
TAIR|locus:2044988265 LHCB2.2 "photosystem II light 0.610 0.366 0.611 2.2e-27
TAIR|locus:2162540 LHCB3 "light-harvesting chlorophyll B-binding protein 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 288 (106.4 bits), Expect = 4.6e-40, Sum P(2) = 4.6e-40
 Identities = 53/75 (70%), Positives = 54/75 (72%)

Query:    20 GKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNREL 79
             G PK       WYGPDRVKYL P S   P YLTGEFPGDYGWDTA LSADPE FAKNR L
Sbjct:    36 GSPKYTMGNDLWYGPDRVKYLGPFSVQTPSYLTGEFPGDYGWDTAGLSADPEAFAKNRAL 95

Query:    80 KVIHARWAMLGVLCC 94
             +VIH RWAMLG   C
Sbjct:    96 EVIHGRWAMLGAFGC 110
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0015979 "photosynthesis" evidence=ISS;IMP
GO:0016020 "membrane" evidence=IEA
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0005198 "structural molecule activity" evidence=IDA
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0009579 "thylakoid" evidence=IDA
GO:0009534 "chloroplast thylakoid" evidence=IDA
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
TAIR|locus:2040934 LHB1B2 "photosystem II light harvesting complex gene B1B2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2040944 LHB1B1 "light-harvesting chlorophyll-protein complex II subunit B1" [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:2044988 LHCB2.2 "photosystem II light harvesting complex gene 2.2" [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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P12331CB22_ORYSJNo assigned EC number0.70230.94330.5747yesno
P12471CB21_SOYBNNo assigned EC number0.70980.89300.5795yesno

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 ?
Query159
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 3e-87
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 3e-19
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 4e-09
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 1e-08
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 1e-07
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 4e-07
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 4e-06
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 5e-06
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 9e-06
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 3e-05
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 7e-05
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 7e-04
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 0.002
>gnl|CDD|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
 Score =  255 bits (653), Expect = 3e-87
 Identities = 111/168 (66%), Positives = 117/168 (69%), Gaps = 20/168 (11%)

Query: 3   AASEIHGKGCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWD 62
             S   G G +TMRKT  K     SGS WYGPDR KYL P SG  P YLTGEFPGDYGWD
Sbjct: 20  ELSRKVGNGRVTMRKTVAKAAG--SGSIWYGPDRPKYLGPFSGETPSYLTGEFPGDYGWD 77

Query: 63  TACLSADPEIFAKNRELKVIHARWAMLGVLCC------------------FKAGAQIFSE 104
           TA LSADPE FA+NREL+VIHARWAMLG L C                  FKAGAQIFSE
Sbjct: 78  TAGLSADPETFARNRELEVIHARWAMLGALGCVTPELLAKNGVKFGEAVWFKAGAQIFSE 137

Query: 105 GGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPL 152
           GGLDYL NPSL+HAQSILA+WA QV+LMGAV GY   GGPLGE  DPL
Sbjct: 138 GGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRVNGGPLGEGLDPL 185

Length = 262
>gnl|CDD|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; 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|165670 PLN00097, PLN00097, photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; 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|177716 PLN00098, PLN00098, light-harvesting complex I chlorophyll a/b-binding protein (Lhac); 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|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; 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|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|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 159
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00171324 photosystem light-harvesting complex -chlorophyll 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.98
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.98
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.97
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.97
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.96
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.96
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.96
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.96
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.9
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.8
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.61
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.49
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.44
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.41
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.38
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.37
PLN00187286 photosystem II light-harvesting complex II protein 99.37
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.35
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.3
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.25
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.22
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.21
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.11
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.1
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.03
PHA0233735 putative high light inducible protein 96.82
PLN00014250 light-harvesting-like protein 3; Provisional 95.13
PLN00084214 photosystem II subunit S (PsbS); Provisional 89.84
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
Probab=100.00  E-value=8.9e-42  Score=289.33  Aligned_cols=145  Identities=70%  Similarity=1.164  Sum_probs=124.3

Q ss_pred             cccccccccCCCCCCCCCCCccCCCCccccCCCCCCCCCCCCCCCCCCCCCCccccCCCHHHHHHHHHHHHhhhchhhhh
Q 040587           11 GCITMRKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLG   90 (159)
Q Consensus        11 ~r~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~p~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~El~hGR~AMla   90 (159)
                      +|+++|+++++++  .+.+.||++||++|++|++.++|+||||++||||||||+||++|+++++|||++||+||||||||
T Consensus        28 ~~~~~~~~~~~~~--~~~~~~~g~~R~~~l~p~~~~~P~~Ldg~~pGD~GfDPlGls~dp~~~~~~re~El~hGR~AMLa  105 (262)
T PLN00025         28 GRVTMRKTVAKAA--GSGSIWYGPDRPKYLGPFSGETPSYLTGEFPGDYGWDTAGLSADPETFARNRELEVIHARWAMLG  105 (262)
T ss_pred             cchhhchhhcccc--cccccccCCCCccccCCcccCCcccccCcCCCCCCCCccccccCHHHHHHHHHHHHhccHHHHHH
Confidence            5777777533332  24678999999999998877899999999999999999999999999999999999999999999


Q ss_pred             hhhhhhcCc-----------ccc-------cCCCcCcCCCCchhhhhHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCC
Q 040587           91 VLCCFKAGA-----------QIF-------SEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPL  152 (159)
Q Consensus        91 ~~G~~~~g~-----------~~f-------~~g~l~ylg~p~~~~a~~i~~l~~~qv~lmG~~E~~R~~~gp~g~~~D~~  152 (159)
                      ++|+++++.           .||       ..++++|++++.++|+|++.+++++|+++||++|.+|++++|.++..|+.
T Consensus       106 ~~G~i~~e~l~~~g~~~~~~~W~~ag~~~~~~gg~~y~~~p~~~~~~~~~a~~~~qv~lmg~~E~~r~~~~~~~~~~d~~  185 (262)
T PLN00025        106 ALGCVTPELLAKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRVNGGPLGEGLDPL  185 (262)
T ss_pred             HhhhhhHHHhhcCCcCcCcccccccccccccccccccccCcccchhhhHHHHHHHHHHHHHHHHHhcccCCcccccccCc
Confidence            999975431           133       34457899999888989999999999999999999999988888888999


Q ss_pred             CCCCc
Q 040587          153 SLSWW  157 (159)
Q Consensus       153 YPGg~  157 (159)
                      |||+.
T Consensus       186 yPG~~  190 (262)
T PLN00025        186 YPGGS  190 (262)
T ss_pred             CCccc
Confidence            99975

>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; 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
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); 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
>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
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; 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
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; 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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00120 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
>PLN00101 Photosystem I light-harvesting complex type 4 protein; 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 ?
Query159
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 8e-51
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 5e-49
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 4e-48
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 4e-07
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 1e-06
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 1e-05
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 4e-05
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 4e-05
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 Back     alignment and structure 
Iteration: 1

 Score =  195 bits (496), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 102/155 (65%), Positives = 107/155 (69%), Gaps = 18/155 (11%)
Query: 16  RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAK 75
           RKTAGKPK V S S WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE FAK
Sbjct: 1   RKTAGKPKTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAK 60
Query: 76  NRELKVIHARWAMLGVLCC------------------FKAGAQIFSEGGLDYLENPSLIH 117
           NREL+VIH RWAMLG L C                  FKAG+QIFSEGGLDYL NPSL+H
Sbjct: 61  NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 118 AQSILAVWAIQVILMXXXXXXXXXXXXXXEVTDPL 152
           AQSILA+WA QVILM              EV DPL
Sbjct: 121 AQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPL 155
>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|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 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|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|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I Length = 241 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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query159
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 3e-35
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 2e-18
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 2e-16
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 5e-16
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 6e-14
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 4e-11
>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 =  121 bits (304), Expect = 3e-35
 Identities = 108/155 (69%), Positives = 116/155 (74%), Gaps = 18/155 (11%)

Query: 16  RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAK 75
           RK+A   K  SSGS WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE F+K
Sbjct: 1   RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSK 60

Query: 76  NRELKVIHARWAMLGVLCC------------------FKAGAQIFSEGGLDYLENPSLIH 117
           NREL+VIH+RWAMLG L                    FKAG+QIFSEGGLDYL NPSL+H
Sbjct: 61  NRELEVIHSRWAMLGALGSVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120

Query: 118 AQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPL 152
           AQSILA+WA QVILMGAV GY  AGGPLGEV DPL
Sbjct: 121 AQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPL 155
>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
>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_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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query159
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 99.97
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.96
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.96
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.95
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.3
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.29
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.28
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.18
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.16
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 98.76
>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=3.4e-43  Score=291.91  Aligned_cols=142  Identities=72%  Similarity=1.158  Sum_probs=117.1

Q ss_pred             ccccCCCCCCCCCCCccCCCCccccCCCCCCCCCCCCCCCCCCCCCCccccCCCHHHHHHHHHHHHhhhchhhhhhhhhh
Q 040587           16 RKTAGKPKPVSSGSQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCF   95 (159)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~p~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~El~hGR~AMla~~G~~   95 (159)
                      ||+++++++++++++||++||++|+++++.+.|+||||++||||||||+||++|+|+++|||++|||||||||||++|++
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~r~~~l~~~~~~~P~~LdG~~pGD~GFDPLGLs~d~e~~~r~ReaELkHGR~AMLA~~G~l   80 (232)
T 2bhw_A            1 RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSV   80 (232)
T ss_dssp             ---------CCTTCTTSSTTCCCTTGGGCCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccCCCCcccCCcccCCCcccccCccccCCccccCCcCCCCCCCCCCcCCCCHHHHHHHHHHHHhccchHHHhhhhhh
Confidence            57778888888899999999999999887789999999999999999999999999999999999999999999999997


Q ss_pred             hcCc-----------ccc-------cCCCcCcCCCCchhhhhHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCCCCc
Q 040587           96 KAGA-----------QIF-------SEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWW  157 (159)
Q Consensus        96 ~~g~-----------~~f-------~~g~l~ylg~p~~~~a~~i~~l~~~qv~lmG~~E~~R~~~gp~g~~~D~~YPGg~  157 (159)
                      +++.           .|+       ..++++|+++|...++|.+.+++++|+++||++|.+|++++|.++..|+.|||+.
T Consensus        81 v~E~l~~~G~~~~~~~w~~ag~~~~~~~~~~~~~~P~~~~~q~i~~~~~~q~~~~g~~E~~r~~~g~~g~~~d~~~Pg~~  160 (232)
T 2bhw_A           81 FPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGS  160 (232)
T ss_dssp             HHHHHHTTTCCCSCCSGGGSGGGGGSTTCEEGGGCTTSEEECCHHHHHHHHHHHHHHHHHHHHHEETTEECSSSSCCCTT
T ss_pred             hHHHhccCCcCCcccccccccchhccccchhcccCcchhhHHHHHHHHHHHHHHHHHHHHHhhccCcccccccccCCCcc
Confidence            6442           122       2334567777877778888899999999999999999998888777899999974
>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_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
>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
>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_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
>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
>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_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

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 159
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 2e-42
>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 =  138 bits (349), Expect = 2e-42
 Identities = 102/142 (71%), Positives = 107/142 (75%), Gaps = 18/142 (12%)

Query: 29  SQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAM 88
           S WYGPDRVKYL P SG +P YLTGEFPGDYGWDTA LSADPE FAKNREL+VIH RWAM
Sbjct: 1   SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAM 60

Query: 89  LGVL------------------CCFKAGAQIFSEGGLDYLENPSLIHAQSILAVWAIQVI 130
           LG L                    FKAG+QIFSEGGLDYL NPSL+HAQSILA+WA QVI
Sbjct: 61  LGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVI 120

Query: 131 LMGAVGGYGTAGGPLGEVTDPL 152
           LMGAV GY  AGGPLGEV DPL
Sbjct: 121 LMGAVEGYRIAGGPLGEVVDPL 142

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query159
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.22
>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=2.5e-38  Score=256.67  Aligned_cols=129  Identities=76%  Similarity=1.261  Sum_probs=108.2

Q ss_pred             CCccCCCCccccCCCCCCCCCCCCCCCCCCCCCCccccCCCHHHHHHHHHHHHhhhchhhhhhhhhhhcCcc--------
Q 040587           29 SQWYGPDRVKYLDPLSGGAPFYLTGEFPGDYGWDTACLSADPEIFAKNRELKVIHARWAMLGVLCCFKAGAQ--------  100 (159)
Q Consensus        29 ~~~~~~~r~~~~~~~~~~~p~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~El~hGR~AMla~~G~~~~g~~--------  100 (159)
                      ++||||||++|++|++.++|+||||++|||||||||||++|+++++||||+|||||||||||++|+++++..        
T Consensus         1 ~~~~~~~r~~~~~~~~~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~   80 (218)
T d1rwta_           1 SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFG   80 (218)
T ss_dssp             CTTSSTTCCCTTGGGGCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCS
T ss_pred             CCCCCCCCcccCCccccCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCCCCC
Confidence            579999999999998778999999999999999999999999999999999999999999999999875431        


Q ss_pred             ----------cccCCCcCcCCCCchhhhhHHHHHHHHHHHHHHHHHhhccCCCCCCCCCCCCCCCCc
Q 040587          101 ----------IFSEGGLDYLENPSLIHAQSILAVWAIQVILMGAVGGYGTAGGPLGEVTDPLSLSWW  157 (159)
Q Consensus       101 ----------~f~~g~l~ylg~p~~~~a~~i~~l~~~qv~lmG~~E~~R~~~gp~g~~~D~~YPGg~  157 (159)
                                ....+.++++..+....+|.+..++++++++++.+|.+|..+++.+...|+.||||-
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~g~  147 (218)
T d1rwta_          81 EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGS  147 (218)
T ss_dssp             CCSHHHHGGGGGSTTCBCGGGCTTSCCBCCHHHHHHHHHHHHHHHHHHHHHCBTTBCCSSSSCCCGG
T ss_pred             CcccccccccccCcchhhhhcCchHHHHHHHHHHHHHHHHHHhhhhhhcccCCCcccccCCCCCCCC
Confidence                      112233344445544455667778888999999999999988887778899999873
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure