Citrus Sinensis ID: 024482

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-------
MSAVLLGLQLQVHQTLLLSSPLLSSPRRKPPLLPSLSPSPSPPLTKSSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL
cHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHccccccccccccccccccccHHHHHHHHHHHHHHccccccEEccccccccccccccccccccccccHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHcccHHHHHHHHHHHccccccccc
cHHHHHHHHcccccccccccccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEcccEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccccHHHHHHHHccccccccc
MSAVLLGLQLQVHQTLllsspllssprrkppllpslspspsppltksspsgpdrriflpeglldrseipeyltgevpgdygydpfglskkpddfskYQAYELIHARWAMLGaagfiipeafnkfgancgpeavwFKTGAllldgntlnyfgknipiNLVFAVIAEIVLVGGAeyyritngldledklhpggpfdplglakdpdQFALLKVKEIKNGRLAMFAMLGFFLQAYvtgegpvenlakhlsdpfannLLTVISgnaeraptl
MSAVLLGLQLQVHQTLLLSSPLLSSPRRKPPllpslspspsppltksspsgpdRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLltvisgnaeraptl
MSAVLLGLQLQVHQtlllsspllssprrkppllpslspspsppltksspsGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL
*******************************************************IFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVI**********
********QLQ***********************************************PEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL
MSAVLLGLQLQVHQTLLLSSPLLSSPRRKPPLLPS****************PDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL
************************************************PSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAER****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
SSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MSAVLLGLQLQVHQTLLLSSPLLSSPRRKPPLLPSLSPSPSPPLTKSSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVGGAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL
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 ?
Query267 2.2.26 [Sep-21-2011]
Q9XF89280 Chlorophyll a-b binding p yes no 0.812 0.775 0.903 1e-108
P27517253 Chlorophyll a-b binding p N/A no 0.749 0.790 0.540 6e-55
P12330265 Chlorophyll a-b binding p no no 0.876 0.883 0.486 1e-52
P07370265 Chlorophyll a-b binding p N/A no 0.853 0.860 0.482 2e-52
P27493265 Chlorophyll a-b binding p N/A no 0.876 0.883 0.478 2e-52
P04781267 Chlorophyll a-b binding p N/A no 0.797 0.797 0.511 2e-52
P04782266 Chlorophyll a-b binding p N/A no 0.786 0.789 0.513 2e-52
P15194274 Chlorophyll a-b binding p N/A no 0.801 0.781 0.493 3e-52
P27492266 Chlorophyll a-b binding p N/A no 0.805 0.808 0.502 4e-52
P12331261 Chlorophyll a-b binding p no no 0.876 0.896 0.485 5e-52
>sp|Q9XF89|CB5_ARATH Chlorophyll a-b binding protein CP26, chloroplastic OS=Arabidopsis thaliana GN=LHCB5 PE=2 SV=1 Back     alignment and function desciption
 Score =  389 bits (1000), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 196/217 (90%), Positives = 208/217 (95%)

Query: 51  GPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAML 110
           GPDRRIFLP+GLLDRSEIPEYL GEV GDYGYDPFGL KKP++F+KYQA+ELIHARWAML
Sbjct: 64  GPDRRIFLPDGLLDRSEIPEYLNGEVAGDYGYDPFGLGKKPENFAKYQAFELIHARWAML 123

Query: 111 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVG 170
           GAAGFIIPEA NK+GANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLV AV+AE+VL+G
Sbjct: 124 GAAGFIIPEALNKYGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVLAVVAEVVLLG 183

Query: 171 GAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQA 230
           GAEYYRITNGLD EDKLHPGGPFDPLGLAKDP+Q ALLKVKEIKNGRLAMFAMLGFF+QA
Sbjct: 184 GAEYYRITNGLDFEDKLHPGGPFDPLGLAKDPEQGALLKVKEIKNGRLAMFAMLGFFIQA 243

Query: 231 YVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL 267
           YVTGEGPVENLAKHLSDPF NNLLTVI+G AERAPTL
Sbjct: 244 YVTGEGPVENLAKHLSDPFGNNLLTVIAGTAERAPTL 280
The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.
Arabidopsis thaliana (taxid: 3702)
>sp|P27517|CB2_DUNTE Chlorophyll a-b binding protein of LHCII type I, chloroplastic OS=Dunaliella tertiolecta PE=2 SV=1 Back     alignment and function description
>sp|P12330|CB21_ORYSJ Chlorophyll a-b binding protein 1, chloroplastic OS=Oryza sativa subsp. japonica GN=CAB1R PE=2 SV=2 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|P27493|CB22_TOBAC Chlorophyll a-b binding protein 21, chloroplastic OS=Nicotiana tabacum GN=CAB21 PE=2 SV=1 Back     alignment and function description
>sp|P04781|CB23_PETSP Chlorophyll a-b binding protein 22R, chloroplastic OS=Petunia sp. GN=CAB22R PE=3 SV=1 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
>sp|P15194|CB2B_PINSY Chlorophyll a-b binding protein type 2 member 1B, chloroplastic OS=Pinus sylvestris PE=2 SV=1 Back     alignment and function description
>sp|P27492|CB21_TOBAC Chlorophyll a-b binding protein 16, chloroplastic OS=Nicotiana tabacum GN=CAB16 PE=2 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

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 ?
Query267
225459918290 PREDICTED: chlorophyll a-b binding prote 0.812 0.748 0.935 1e-116
356535308287 PREDICTED: chlorophyll a-b binding prote 0.812 0.756 0.926 1e-114
224127848290 light-harvesting complex II protein Lhcb 0.812 0.748 0.921 1e-114
255557841292 chlorophyll A/B binding protein, putativ 0.812 0.743 0.917 1e-114
255638437287 unknown [Glycine max] 0.812 0.756 0.921 1e-114
356576567288 PREDICTED: chlorophyll a-b binding prote 0.812 0.753 0.921 1e-114
449447521288 PREDICTED: chlorophyll a-b binding prote 0.812 0.753 0.912 1e-113
356559931289 PREDICTED: chlorophyll a-b binding prote 0.812 0.750 0.926 1e-113
162461137283 chlorophyll a/b-binding apoprotein CP26 0.887 0.837 0.841 1e-113
261351266287 chloroplast pigment-binding protein CP26 0.812 0.756 0.912 1e-113
>gi|225459918|ref|XP_002264295.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic [Vitis vinifera] gi|147770824|emb|CAN76428.1| hypothetical protein VITISV_023565 [Vitis vinifera] gi|297734735|emb|CBI16969.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  423 bits (1087), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 203/217 (93%), Positives = 210/217 (96%)

Query: 51  GPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAML 110
           GPDRRIFLPEGLLDRSEIP YLTGEVPGDYGYDPFGLSKKP+DF+KYQAYELIHARWAML
Sbjct: 74  GPDRRIFLPEGLLDRSEIPAYLTGEVPGDYGYDPFGLSKKPEDFAKYQAYELIHARWAML 133

Query: 111 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVG 170
           GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINL+FAV+AE+VLVG
Sbjct: 134 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLIFAVVAEVVLVG 193

Query: 171 GAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQA 230
           GAEYYRI NGLDLEDKLHPGGPFDPLGLA DPDQ ALLKVKEIKNGRLAMFAMLGFF+QA
Sbjct: 194 GAEYYRIINGLDLEDKLHPGGPFDPLGLANDPDQAALLKVKEIKNGRLAMFAMLGFFIQA 253

Query: 231 YVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL 267
           YVTGEGPVENLA HLSDPF NNLLTVI+G AERAPTL
Sbjct: 254 YVTGEGPVENLAAHLSDPFGNNLLTVIAGTAERAPTL 290

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356535308|ref|XP_003536189.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|224127848|ref|XP_002329192.1| light-harvesting complex II protein Lhcb5 [Populus trichocarpa] gi|118487642|gb|ABK95646.1| unknown [Populus trichocarpa] gi|222870973|gb|EEF08104.1| light-harvesting complex II protein Lhcb5 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255557841|ref|XP_002519950.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223540996|gb|EEF42554.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|255638437|gb|ACU19528.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356576567|ref|XP_003556402.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|449447521|ref|XP_004141516.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic-like [Cucumis sativus] gi|449510691|ref|XP_004163735.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356559931|ref|XP_003548249.1| PREDICTED: chlorophyll a-b binding protein CP26, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|162461137|ref|NP_001105374.1| chlorophyll a/b-binding apoprotein CP26 precursor [Zea mays] gi|733456|gb|AAA64415.1| chlorophyll a/b-binding apoprotein CP26 precursor [Zea mays] Back     alignment and taxonomy information
>gi|261351266|gb|ACX71300.1| chloroplast pigment-binding protein CP26 [Capsicum annuum] 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 ?
Query267
TAIR|locus:2122794280 LHCB5 "light harvesting comple 0.812 0.775 0.903 3.5e-107
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.741 0.747 0.541 8.3e-51
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.741 0.758 0.541 8.3e-51
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.692 0.692 0.536 1.5e-49
TAIR|locus:2019372267 CAB2 "chlorophyll A/B-binding 0.692 0.692 0.536 1.5e-49
TAIR|locus:2019322267 CAB1 "chlorophyll A/B binding 0.692 0.692 0.536 1.5e-49
TAIR|locus:2044988265 LHCB2.2 "photosystem II light 0.741 0.747 0.536 4.1e-49
TAIR|locus:2042148265 LHCB2.1 "photosystem II light 0.741 0.747 0.536 4.1e-49
TAIR|locus:2089139266 LHCB2.3 "photosystem II light 0.741 0.744 0.531 6.7e-49
TAIR|locus:2040934265 LHB1B2 "photosystem II light h 0.692 0.698 0.531 1.1e-48
TAIR|locus:2122794 LHCB5 "light harvesting complex of photosystem II 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1060 (378.2 bits), Expect = 3.5e-107, P = 3.5e-107
 Identities = 196/217 (90%), Positives = 208/217 (95%)

Query:    51 GPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAML 110
             GPDRRIFLP+GLLDRSEIPEYL GEV GDYGYDPFGL KKP++F+KYQA+ELIHARWAML
Sbjct:    64 GPDRRIFLPDGLLDRSEIPEYLNGEVAGDYGYDPFGLGKKPENFAKYQAFELIHARWAML 123

Query:   111 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFAVIAEIVLVG 170
             GAAGFIIPEA NK+GANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLV AV+AE+VL+G
Sbjct:   124 GAAGFIIPEALNKYGANCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVLAVVAEVVLLG 183

Query:   171 GAEYYRITNGLDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQA 230
             GAEYYRITNGLD EDKLHPGGPFDPLGLAKDP+Q ALLKVKEIKNGRLAMFAMLGFF+QA
Sbjct:   184 GAEYYRITNGLDFEDKLHPGGPFDPLGLAKDPEQGALLKVKEIKNGRLAMFAMLGFFIQA 243

Query:   231 YVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL 267
             YVTGEGPVENLAKHLSDPF NNLLTVI+G AERAPTL
Sbjct:   244 YVTGEGPVENLAKHLSDPFGNNLLTVIAGTAERAPTL 280
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009533 "chloroplast stromal thylakoid" evidence=IDA
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0015979 "photosynthesis" evidence=ISS;IMP
GO:0016020 "membrane" evidence=IEA;IDA
GO:0016168 "chlorophyll binding" evidence=ISS
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0009783 "photosystem II antenna complex" evidence=IMP
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0010287 "plastoglobule" evidence=IDA
GO:0010196 "nonphotochemical quenching" evidence=IMP
GO:0009579 "thylakoid" evidence=IDA
GO:0009637 "response to blue light" evidence=IEP;RCA
GO:0010114 "response to red light" evidence=IEP;RCA
GO:0010218 "response to far red light" evidence=IEP;RCA
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0006364 "rRNA processing" evidence=RCA
GO:0009644 "response to high light intensity" evidence=RCA
GO:0009744 "response to sucrose stimulus" evidence=RCA
GO:0010155 "regulation of proton transport" evidence=RCA
GO:0019344 "cysteine biosynthetic process" evidence=RCA
GO:0009517 "PSII associated light-harvesting complex II" evidence=IDA
UNIPROTKB|P12330 CAB1R "Chlorophyll a-b binding protein 1, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)] 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
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:2089139 LHCB2.3 "photosystem II light harvesting complex gene 2.3" [Arabidopsis thaliana (taxid:3702)] 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

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) ?
P27492CB21_TOBACNo assigned EC number0.50220.80520.8082N/Ano
Q9XF89CB5_ARATHNo assigned EC number0.90320.81270.775yesno

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 ?
Query267
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 5e-79
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 3e-63
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 2e-45
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 4e-45
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 5e-45
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 1e-44
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 2e-41
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 2e-37
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 9e-35
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 2e-33
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 1e-27
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 7e-21
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 5e-09
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 6e-09
PLN00120202 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c bi 2e-05
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 4e-04
>gnl|CDD|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
 Score =  239 bits (611), Expect = 5e-79
 Identities = 122/254 (48%), Positives = 152/254 (59%), Gaps = 20/254 (7%)

Query: 12  VHQTLLLSSPLLSSPRRKPPLLPSLSPSPSPPLTKSSPS-----GPDRRIFLPEGLLDRS 66
           +  T       L  P      + +   +    + K++ S     GPDR  +L  G     
Sbjct: 4   LSSTAFAGQAALKPPNELSRKVGNGRVTMRKTVAKAAGSGSIWYGPDRPKYL--GPFS-G 60

Query: 67  EIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGA 126
           E P YLTGE PGDYG+D  GLS  P+ F++ +  E+IHARWAMLGA G + PE   K G 
Sbjct: 61  ETPSYLTGEFPGDYGWDTAGLSADPETFARNRELEVIHARWAMLGALGCVTPELLAKNGV 120

Query: 127 NCGPEAVWFKTGALLLDGNTLNYFGKNIPINLVFA--VIA----EIVLVGGAEYYRITNG 180
             G EAVWFK GA +     L+Y G     +LV A  ++A    ++VL+G  E YR+  G
Sbjct: 121 KFG-EAVWFKAGAQIFSEGGLDYLGNP---SLVHAQSILAIWACQVVLMGAVEGYRVNGG 176

Query: 181 LDLE--DKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPV 238
              E  D L+PGG FDPLGLA DPD FA LKVKEIKNGRLAMF+M GFF+QA VTG+GP+
Sbjct: 177 PLGEGLDPLYPGGSFDPLGLADDPDTFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPL 236

Query: 239 ENLAKHLSDPFANN 252
           ENLA HL+DP ANN
Sbjct: 237 ENLADHLADPVANN 250

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|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|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B binding protein Lhca1; 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|165670 PLN00097, PLN00097, photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; 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|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|215063 PLN00120, PLN00120, 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 267
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
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 100.0
PLN00101250 Photosystem I light-harvesting complex type 4 prot 100.0
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 100.0
PLN00147252 light-harvesting complex I chlorophyll-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
PLN00098 267 light-harvesting complex I chlorophyll a/b-binding 99.58
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.56
PLN00147 252 light-harvesting complex I chlorophyll-a/b binding 99.5
PLN00170 255 photosystem II light-harvesting-Chl-binding protei 99.45
PLN00097 244 photosystem I light harvesting complex Lhca2/4, ch 99.44
PLN00171 324 photosystem light-harvesting complex -chlorophyll 99.43
PLN00025 262 photosystem II light harvesting chlorophyll a/b bi 99.41
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.41
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.39
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.39
PLN00187286 photosystem II light-harvesting complex II protein 99.36
PLN00099 243 light-harvesting complex IChlorophyll A-B binding 99.34
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.27
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.01
PHA0233735 putative high light inducible protein 98.17
PLN00084214 photosystem II subunit S (PsbS); Provisional 98.06
PLN00014250 light-harvesting-like protein 3; Provisional 97.49
PHA0233735 putative high light inducible protein 97.05
PLN00014250 light-harvesting-like protein 3; Provisional 95.59
PLN00084214 photosystem II subunit S (PsbS); Provisional 92.46
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
Probab=100.00  E-value=1.8e-64  Score=460.37  Aligned_cols=215  Identities=53%  Similarity=0.916  Sum_probs=187.8

Q ss_pred             CCCCCCCCCcccccCcCcCCCCCCCCCCCCCCCCCCCcccCCCCCChhhHHHHHHhhhhhhhhhhhhcccchhhhhhccC
Q 024482           45 TKSSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKF  124 (267)
Q Consensus        45 ~~~~~~~~~r~~~lp~g~~~~~~~P~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~ElkHGR~AMLa~~G~~~~e~~~~~  124 (267)
                      +.+.||+++|++||  |+++ .++|+||||++||||||||+||++||++++|||++|||||||||||++||++||++++.
T Consensus        42 ~~~~~~g~~R~~~l--~p~~-~~~P~~Ldg~~pGD~GfDPlGls~dp~~~~~~re~El~hGR~AMLa~~G~i~~e~l~~~  118 (262)
T PLN00025         42 SGSIWYGPDRPKYL--GPFS-GETPSYLTGEFPGDYGWDTAGLSADPETFARNRELEVIHARWAMLGALGCVTPELLAKN  118 (262)
T ss_pred             ccccccCCCCcccc--CCcc-cCCcccccCcCCCCCCCCccccccCHHHHHHHHHHHHhccHHHHHHHhhhhhHHHhhcC
Confidence            46789999999999  4555 68999999999999999999999999999999999999999999999999999999876


Q ss_pred             CCCCCCCchhhhccccccCCCcccccCCCchh---HHHHHHHHHHHHHhhhhheeeeccc--CCCCCCCCCCCCCCCCCC
Q 024482          125 GANCGPEAVWFKTGALLLDGNTLNYFGKNIPI---NLVFAVIAEIVLVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLA  199 (267)
Q Consensus       125 G~~~~p~~~w~~aG~~~~~~~~l~~~g~~~pi---~~~~~~~~qv~l~g~~E~~r~~~g~--~~~d~~~PGd~FDPLgl~  199 (267)
                      |..+. +..||++|..++++++++|++++..+   .+...+++|+++||++|.+|+.++.  ...|++||||+||||||.
T Consensus       119 g~~~~-~~~W~~ag~~~~~~gg~~y~~~p~~~~~~~~~a~~~~qv~lmg~~E~~r~~~~~~~~~~d~~yPG~~FDPlGl~  197 (262)
T PLN00025        119 GVKFG-EAVWFKAGAQIFSEGGLDYLGNPSLVHAQSILAIWACQVVLMGAVEGYRVNGGPLGEGLDPLYPGGSFDPLGLA  197 (262)
T ss_pred             CcCcC-cccccccccccccccccccccCcccchhhhHHHHHHHHHHHHHHHHHhcccCCcccccccCcCCcccCCccccC
Confidence            66543 45899999888888889999987543   2233457799999999999987632  123568999999999999


Q ss_pred             CChhHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcCCcchhhhHhhhCCCcchhHHHhhhcccccCCC
Q 024482          200 KDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPT  266 (267)
Q Consensus       200 ~dpe~~~~~k~kELKNGRLAMlAi~G~~~Q~~vtG~gPl~nL~~~ladP~~~n~~~~~~~~~~~~~~  266 (267)
                      +|+++++++|+||||||||||+||+||++|+++||++|++||.+|++||+|||++++..   .++|.
T Consensus       198 ~d~~~~~~~k~kEikNGRLAMlA~~G~~~q~~vTG~GPlenL~~hladP~~~n~~~~~~---~~~~~  261 (262)
T PLN00025        198 DDPDTFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVANNAWAYAT---NFVPG  261 (262)
T ss_pred             CCHHHHHHHHHHHHhhhhHHHHHHHHHhhhhhhcCCChHHHHHHHhcCccccchhhhhh---hcCCC
Confidence            99999999999999999999999999999999999999999999999999999998743   35553

>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
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; 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
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; 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
>PLN00101 Photosystem I light-harvesting complex type 4 protein; 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
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional 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
>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 ?
Query267
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 8e-52
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 9e-52
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 5e-51
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 1e-35
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 3e-35
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 1e-31
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 1e-31
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 2e-30
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 2e-29
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 2e-29
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 3e-26
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 2e-21
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 1e-20
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 3e-19
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 2e-18
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 5e-17
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 Back     alignment and structure 
Iteration: 1

 Score =  200 bits (508), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 109/210 (51%), Positives = 139/210 (66%), Gaps = 9/210 (4%)
Query: 51  GPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAML 110
           GPDR  +L        E P YLTGE PGDYG+D  GLS  P+ FSK +  E+IH+RWAML
Sbjct: 18  GPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAML 74
Query: 111 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKN--IPINLVFAVIA-EIV 167
           GA G + PE  ++ G   G EAVWFK G+ +     L+Y G    +    + A+ A +++
Sbjct: 75  GALGSVFPELLSRNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVI 133
Query: 168 LVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLG 225
           L+G  E YRI  G   ++ D L+PGG FDPLGLA DP+ FA LKVKE+KNGRLAMF+M G
Sbjct: 134 LMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKELKNGRLAMFSMFG 193
Query: 226 FFLQAYVTGEGPVENLAKHLSDPFANNLLT 255
           FF+QA VTG+GP+ENLA HL+DP  NN  +
Sbjct: 194 FFVQAIVTGKGPLENLADHLADPVNNNAWS 223
>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|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 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
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 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|2WSC|2 Chain 2, Improved Model Of Plant Photosystem I Length = 269 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|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 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|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I Length = 172 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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query267
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 4e-61
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 2e-53
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 6e-53
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 8e-52
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 4e-51
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 4e-48
>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 =  192 bits (487), Expect = 4e-61
 Identities = 106/224 (47%), Positives = 140/224 (62%), Gaps = 9/224 (4%)

Query: 37  SPSPSPPLTKSSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSK 96
           + +     + S   GPDR  +L        E P YLTGE PGDYG+D  GLS  P+ FSK
Sbjct: 4   ATTKKVASSGSPWYGPDRVKYLGPF---SGESPSYLTGEFPGDYGWDTAGLSADPETFSK 60

Query: 97  YQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPI 156
            +  E+IH+RWAMLGA G + PE  ++ G     EAVWFK G+ +     L+Y G    +
Sbjct: 61  NRELEVIHSRWAMLGALGSVFPELLSRNGVKF-GEAVWFKAGSQIFSEGGLDYLGNPSLV 119

Query: 157 N---LVFAVIAEIVLVGGAEYYRITN--GLDLEDKLHPGGPFDPLGLAKDPDQFALLKVK 211
           +   ++     +++L+G  E YRI      ++ D L+PGG FDPLGLA DP+ FA LKVK
Sbjct: 120 HAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVK 179

Query: 212 EIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLT 255
           E+KNGRLAMF+M GFF+QA VTG+GP+ENLA HL+DP  NN  +
Sbjct: 180 ELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWS 223
>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_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
>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 ?
Query267
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_3276 LHCA3, type II chlorophyll A/B binding protein fro 100.0
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 100.0
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 100.0
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 100.0
2bhw_A 232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.4
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 99.38
2wsc_2 269 LHCA2, type II chlorophyll A/B binding protein fro 99.35
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.35
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.3
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.23
>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=9.9e-65  Score=455.30  Aligned_cols=220  Identities=50%  Similarity=0.877  Sum_probs=190.6

Q ss_pred             CCCCCCCCCCCCCcccccCcCcCCCCCCCCCCCCCCCCCCCcccCCCCCChhhHHHHHHhhhhhhhhhhhhcccchhhhh
Q 024482           41 SPPLTKSSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEA  120 (267)
Q Consensus        41 ~~~~~~~~~~~~~r~~~lp~g~~~~~~~P~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~ElkHGR~AMLa~~G~~~~e~  120 (267)
                      +++++.|+||+++|++|+|  +++ .++|+||||++|||+|||||||++|+++++||||+|||||||||||++|+++||+
T Consensus         8 ~~~~~~~~~~~~~r~~~l~--~~~-~~~P~~LdG~~pGD~GFDPLGLs~d~e~~~r~ReaELkHGR~AMLA~~G~lv~E~   84 (232)
T 2bhw_A            8 KVASSGSPWYGPDRVKYLG--PFS-GESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPEL   84 (232)
T ss_dssp             --CCTTCTTSSTTCCCTTG--GGC-CSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccCCcccCCCcccccC--ccc-cCCccccCCcCCCCCCCCCCcCCCCHHHHHHHHHHHHhccchHHHhhhhhhhHHH
Confidence            3445689999999999994  454 6899999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCCCCCCCchhhhccccccCCCcccccCCCchh--H-HHHHHHHHHHHHhhhhheeeeccc--CCCCCCCCCCCCCC
Q 024482          121 FNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPI--N-LVFAVIAEIVLVGGAEYYRITNGL--DLEDKLHPGGPFDP  195 (267)
Q Consensus       121 ~~~~G~~~~p~~~w~~aG~~~~~~~~l~~~g~~~pi--~-~~~~~~~qv~l~g~~E~~r~~~g~--~~~d~~~PGd~FDP  195 (267)
                      +++.|..+. +..|+++|...+++..++|++++...  + +...+++|+++||++|.+|+.++.  ...|+.||||+|||
T Consensus        85 l~~~G~~~~-~~~w~~ag~~~~~~~~~~~~~~P~~~~~q~i~~~~~~q~~~~g~~E~~r~~~g~~g~~~d~~~Pg~~fdP  163 (232)
T 2bhw_A           85 LSRNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDP  163 (232)
T ss_dssp             HHTTTCCCS-CCSGGGSGGGGGSTTCEEGGGCTTSEEECCHHHHHHHHHHHHHHHHHHHHHEETTEECSSSSCCCTTSCT
T ss_pred             hccCCcCCc-ccccccccchhccccchhcccCcchhhHHHHHHHHHHHHHHHHHHHHHhhccCcccccccccCCCccccc
Confidence            988776543 56899999877777778888876422  2 334457899999999999877532  22467899999999


Q ss_pred             CCCCCChhHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcCCcchhhhHhhhCCCcchhHHHhhhcccccCCCC
Q 024482          196 LGLAKDPDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPTL  267 (267)
Q Consensus       196 Lgl~~dpe~~~~~k~kELKNGRLAMlAi~G~~~Q~~vtG~gPl~nL~~~ladP~~~n~~~~~~~~~~~~~~~  267 (267)
                      ||+.+|+++++++|++|||||||||+||+|+++|+.+||++|++||.+|++||++||++++   +++++|++
T Consensus       164 lgl~~~~~~~~~~~~~E~~nGRlAM~~~~g~~~~~~~tg~g~~~~l~~~~adP~~~n~~~~---~~~~~~~~  232 (232)
T 2bhw_A          164 LGLADDPEAFAELKVKELKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWSY---ATNFVPGK  232 (232)
T ss_dssp             TCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCSHHHHHHHHHCTTTSSGGGG---TTTTCSCC
T ss_pred             chhccchHHHHHHHHhhhhccchHHHHHHHHHHHHHhcCCChHHHHHHHhcChHHhHHHHH---HHhhcCCC
Confidence            9999999999999999999999999999999999999999999999999999999999887   56789874
>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
>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_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
>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_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_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
>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
>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

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 267
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 1e-66
>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 =  204 bits (520), Expect = 1e-66
 Identities = 107/210 (50%), Positives = 135/210 (64%), Gaps = 9/210 (4%)

Query: 51  GPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAML 110
           GPDR  +L        E P YLTGE PGDYG+D  GLS  P+ F+K +  E+IH RWAML
Sbjct: 5   GPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAML 61

Query: 111 GAAGFIIPEAFNKFGANCGPEAVWFKTGALLLDGNTLNYFGKNIPIN---LVFAVIAEIV 167
           GA G + PE   + G   G EAVWFK G+ +     L+Y G    ++   ++     +++
Sbjct: 62  GALGCVFPELLARNGVKFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVI 120

Query: 168 LVGGAEYYRITNG--LDLEDKLHPGGPFDPLGLAKDPDQFALLKVKEIKNGRLAMFAMLG 225
           L+G  E YRI  G   ++ D L+PGG FDPLGLA DP+ FA LKVKEIKNGRLAMF+M G
Sbjct: 121 LMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMFG 180

Query: 226 FFLQAYVTGEGPVENLAKHLSDPFANNLLT 255
           FF+QA VTG+GP+ENLA HL+DP  NN   
Sbjct: 181 FFVQAIVTGKGPLENLADHLADPVNNNAWN 210

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query267
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_ 218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.47
>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=2.6e-64  Score=445.90  Aligned_cols=213  Identities=51%  Similarity=0.914  Sum_probs=177.2

Q ss_pred             CCCCCCCcccccCcCcCCCCCCCCCCCCCCCCCCCcccCCCCCChhhHHHHHHhhhhhhhhhhhhcccchhhhhhccCCC
Q 024482           47 SSPSGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGA  126 (267)
Q Consensus        47 ~~~~~~~r~~~lp~g~~~~~~~P~~l~G~~pGd~gfDPlgl~~~~~~~~~~r~~ElkHGR~AMLa~~G~~~~e~~~~~G~  126 (267)
                      |+|||+||++|+|  ++. .+.|+||||++|||||||||||++|+++++||||+|||||||||||++|++++|++++.+.
T Consensus         1 ~~~~~~~r~~~~~--~~~-~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~   77 (218)
T d1rwta_           1 SPWYGPDRVKYLG--PFS-GESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGV   77 (218)
T ss_dssp             CTTSSTTCCCTTG--GGG-CSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCCCCCCcccCC--ccc-cCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCC
Confidence            5799999999996  344 6789999999999999999999999999999999999999999999999999999988765


Q ss_pred             CCCCCchhhhccccccCCCcccccCCCchh--H-HHHHHHHHHHHHhhhhheeeeccc--CCCCCCCCCCCCCCCCCCCC
Q 024482          127 NCGPEAVWFKTGALLLDGNTLNYFGKNIPI--N-LVFAVIAEIVLVGGAEYYRITNGL--DLEDKLHPGGPFDPLGLAKD  201 (267)
Q Consensus       127 ~~~p~~~w~~aG~~~~~~~~l~~~g~~~pi--~-~~~~~~~qv~l~g~~E~~r~~~g~--~~~d~~~PGd~FDPLgl~~d  201 (267)
                      ... ...|+.++........+.+++.+...  + ++...++++.+++.+|.+|...+.  ...+..|||+.|||+++.+|
T Consensus        78 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~g~fdPlg~~~~  156 (218)
T d1rwta_          78 KFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADD  156 (218)
T ss_dssp             CCS-CCSHHHHGGGGGSTTCBCGGGCTTSCCBCCHHHHHHHHHHHHHHHHHHHHHCBTTBCCSSSSCCCGGGCTTCTTCS
T ss_pred             CCC-CcccccccccccCcchhhhhcCchHHHHHHHHHHHHHHHHHHhhhhhhcccCCCcccccCCCCCCCCccccccCCC
Confidence            433 45788877766555556665544321  2 222334556678899988765431  23466788888999999999


Q ss_pred             hhHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcCCcchhhhHhhhCCCcchhHHHhhhcccccCCC
Q 024482          202 PDQFALLKVKEIKNGRLAMFAMLGFFLQAYVTGEGPVENLAKHLSDPFANNLLTVISGNAERAPT  266 (267)
Q Consensus       202 pe~~~~~k~kELKNGRLAMlAi~G~~~Q~~vtG~gPl~nL~~~ladP~~~n~~~~~~~~~~~~~~  266 (267)
                      +++++++|+|||||||||||||+||++|+++||++|++||.+|++||+|||++++   ++++||.
T Consensus       157 ~e~~~~~k~kElkNGRLAMlAi~G~~~qe~vtG~gp~~nl~~h~~~P~~~n~~~~---~~~~~~~  218 (218)
T d1rwta_         157 PEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNF---ATNFVPG  218 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHCTTTSSGGGG---TTSSCCC
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhcCCCHHHHHHHHhcCchhhhHHHH---HhccCCC
Confidence            9999999999999999999999999999999999999999999999999999855   5678774
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure