Citrus Sinensis ID: 029083

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-------20
MASLAASSTPAASIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKKAAPPAKSKPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
cccccccccHHHHHHHHHHHcccHHHHHHHHHcccccccccccccHHHHHcccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
cccccccccHHHHHHHHHHHHHHHHHHHHHHHHcHccccccHcccccccccccccccHccccHccccccccccccccccccHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEHcHHHHccccccHcccHHHHHHHHHHHHHHHHHHHHcc
maslaasstpaasigakemlgnplnvssavrtsapgasnpstfkpvalfskkkaappakskpvavspvneelakwygpdrriflpeglldrseipeyltgevpgdygydpfglskkpddfskYQAYELIHARWAMLGaagfiipeafnkfgancgpeAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
maslaasstpaasigakemlGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKkaappakskpvavspvneelakwygpdrRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
MaslaasstpaasIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFskkkaappakskpvavspvNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSlllyvvyllmvllmSCFCRLELYFLMETH
**********************************************************************ELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLM***
********************************************************************************RIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
************SIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSK***************PVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
************************************************************************AKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiii
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiii
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MASLAASSTPAASIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKKAAPPAKSKPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELYFLMETH
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 ?
Query199 2.2.26 [Sep-21-2011]
Q9XF89280 Chlorophyll a-b binding p yes no 0.748 0.532 0.763 5e-54
P27517253 Chlorophyll a-b binding p N/A no 0.557 0.438 0.442 3e-20
P27490268 Chlorophyll a-b binding p N/A no 0.703 0.522 0.436 4e-20
P12330265 Chlorophyll a-b binding p no no 0.728 0.547 0.417 8e-20
P07371269 Chlorophyll a-b binding p N/A no 0.628 0.464 0.453 1e-19
P04782266 Chlorophyll a-b binding p N/A no 0.537 0.402 0.474 1e-19
P22686256 Chlorophyll a-b binding p N/A no 0.623 0.484 0.419 2e-19
P15194274 Chlorophyll a-b binding p N/A no 0.487 0.354 0.5 3e-19
P27518265 Chlorophyll a-b binding p N/A no 0.487 0.366 0.509 3e-19
P27497265 Chlorophyll a-b binding p N/A no 0.487 0.366 0.519 3e-19
>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 =  210 bits (535), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 116/152 (76%), Positives = 129/152 (84%), Gaps = 3/152 (1%)

Query: 12  ASIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKKAAPPAKSKPVAVSPVNEE 71
           AS+G  EMLG PLN  +  R+SAP AS+PSTFK VALFSKKK A    +K  AVS  ++E
Sbjct: 2   ASLGVSEMLGTPLNFRAVSRSSAPLASSPSTFKTVALFSKKKPA---PAKSKAVSETSDE 58

Query: 72  LAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHA 131
           LAKWYGPDRRIFLP+GLLDRSEIPEYL GEV GDYGYDPFGL KKP++F+KYQA+ELIHA
Sbjct: 59  LAKWYGPDRRIFLPDGLLDRSEIPEYLNGEVAGDYGYDPFGLGKKPENFAKYQAFELIHA 118

Query: 132 RWAMLGAAGFIIPEAFNKFGANCGPEAVWFKV 163
           RWAMLGAAGFIIPEA NK+GANCGPEAVWFK 
Sbjct: 119 RWAMLGAAGFIIPEALNKYGANCGPEAVWFKT 150
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|P27490|CB28_PEA Chlorophyll a-b binding protein 8, chloroplastic OS=Pisum sativum GN=CAB8 PE=1 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|P07371|CB22_PEA Chlorophyll a-b binding protein AB80, chloroplastic OS=Pisum sativum GN=AB80 PE=1 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|P22686|CB2_CHLMO Chlorophyll a-b binding protein of LHCII type I, chloroplastic OS=Chlamydomonas moewusii PE=2 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|P27518|CB21_GOSHI Chlorophyll a-b binding protein 151, chloroplastic OS=Gossypium hirsutum GN=CAB-151 PE=2 SV=2 Back     alignment and function description
>sp|P27497|CB29_MAIZE Chlorophyll a-b binding protein M9, chloroplastic OS=Zea mays GN=CAB-M9 PE=2 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query199
255557841292 chlorophyll A/B binding protein, putativ 0.814 0.554 0.840 6e-67
356535308287 PREDICTED: chlorophyll a-b binding prote 0.788 0.547 0.797 1e-61
255638437287 unknown [Glycine max] 0.788 0.547 0.797 1e-61
224127848290 light-harvesting complex II protein Lhcb 0.738 0.506 0.832 3e-61
225459918290 PREDICTED: chlorophyll a-b binding prote 0.738 0.506 0.838 3e-61
118489770 302 unknown [Populus trichocarpa x Populus d 0.738 0.486 0.832 3e-61
356576567288 PREDICTED: chlorophyll a-b binding prote 0.793 0.548 0.787 3e-60
226358407240 chloroplast chlorophyll A-B binding prot 0.743 0.616 0.812 2e-58
261351266287 chloroplast pigment-binding protein CP26 0.773 0.536 0.767 1e-56
297809249280 hypothetical protein ARALYDRAFT_489877 [ 0.748 0.532 0.756 2e-56
>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
 Score =  259 bits (661), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 137/163 (84%), Positives = 147/163 (90%), Gaps = 1/163 (0%)

Query: 1   MASLAASSTPAASIGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKKAAPPAKS 60
           MASLAAS   A S+G  EMLGNPLN S A R++AP +S PST K VALFSKKKAAPP K+
Sbjct: 1   MASLAASRA-AGSLGVSEMLGNPLNFSGATRSAAPTSSTPSTLKTVALFSKKKAAPPPKA 59

Query: 61  KPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDF 120
           KP AVSPV++ELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKP+DF
Sbjct: 60  KPAAVSPVDDELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPEDF 119

Query: 121 SKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFKV 163
           +KYQAYELIHARWAMLGAAGFI+PEAFNKFGANCGPEAVWFK 
Sbjct: 120 AKYQAYELIHARWAMLGAAGFIVPEAFNKFGANCGPEAVWFKT 162

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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|255638437|gb|ACU19528.1| unknown [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|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
>gi|118489770|gb|ABK96685.1| unknown [Populus trichocarpa x Populus deltoides] 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|226358407|gb|ACO51066.1| chloroplast chlorophyll A-B binding protein [Gossypium hirsutum] Back     alignment and taxonomy information
>gi|261351266|gb|ACX71300.1| chloroplast pigment-binding protein CP26 [Capsicum annuum] Back     alignment and taxonomy information
>gi|297809249|ref|XP_002872508.1| hypothetical protein ARALYDRAFT_489877 [Arabidopsis lyrata subsp. lyrata] gi|297318345|gb|EFH48767.1| hypothetical protein ARALYDRAFT_489877 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query199
TAIR|locus:2122794280 LHCB5 "light harvesting comple 0.733 0.521 0.704 7e-54
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.422 0.316 0.545 7.2e-20
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.422 0.321 0.545 7.2e-20
TAIR|locus:2044988265 LHCB2.2 "photosystem II light 0.422 0.316 0.545 7.2e-20
TAIR|locus:2042148265 LHCB2.1 "photosystem II light 0.422 0.316 0.545 7.2e-20
TAIR|locus:2089139266 LHCB2.3 "photosystem II light 0.422 0.315 0.545 7.2e-20
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.422 0.314 0.522 1.1e-18
TAIR|locus:2019372267 CAB2 "chlorophyll A/B-binding 0.422 0.314 0.522 1.1e-18
TAIR|locus:2019322267 CAB1 "chlorophyll A/B binding 0.422 0.314 0.522 1.1e-18
TAIR|locus:2040934265 LHB1B2 "photosystem II light h 0.422 0.316 0.522 1.4e-18
TAIR|locus:2122794 LHCB5 "light harvesting complex of photosystem II 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 557 (201.1 bits), Expect = 7.0e-54, P = 7.0e-54
 Identities = 105/149 (70%), Positives = 117/149 (78%)

Query:    14 IGAKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFXXXXXXXXXXXXXXXXXXXNEELA 73
             +G  EMLG PLN  +  R+SAP AS+PSTFK VALF                   ++ELA
Sbjct:     4 LGVSEMLGTPLNFRAVSRSSAPLASSPSTFKTVALFSKKKPAPAKSKAVSET---SDELA 60

Query:    74 KWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARW 133
             KWYGPDRRIFLP+GLLDRSEIPEYL GEV GDYGYDPFGL KKP++F+KYQA+ELIHARW
Sbjct:    61 KWYGPDRRIFLPDGLLDRSEIPEYLNGEVAGDYGYDPFGLGKKPENFAKYQAFELIHARW 120

Query:   134 AMLGAAGFIIPEAFNKFGANCGPEAVWFK 162
             AMLGAAGFIIPEA NK+GANCGPEAVWFK
Sbjct:   121 AMLGAAGFIIPEALNKYGANCGPEAVWFK 149
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: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: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: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) ?
Q9XF89CB5_ARATHNo assigned EC number0.76310.74870.5321yesno

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

Your Input:
GSVIVG00031964001
SubName- Full=Putative uncharacterized protein (Chromosome chr18 scaffold_61, whole genome shotgun sequence); (290 aa)
(Vitis vinifera)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query199
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 1e-29
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 1e-24
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 7e-17
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 2e-16
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 2e-15
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 6e-15
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 1e-14
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 2e-13
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 3e-12
PLN00048 262 PLN00048, PLN00048, photosystem I light harvesting 9e-12
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 1e-11
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 3e-09
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 2e-08
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 0.001
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 0.004
>gnl|CDD|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
 Score =  109 bits (274), Expect = 1e-29
 Identities = 51/111 (45%), Positives = 63/111 (56%), Gaps = 4/111 (3%)

Query: 52  KKAAPPAKSKPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPF 111
           +K      +    V+      + WYGPDR  +L  G     E P YLTGE PGDYG+D  
Sbjct: 23  RKVGNGRVTMRKTVAKAAGSGSIWYGPDRPKYL--GPFS-GETPSYLTGEFPGDYGWDTA 79

Query: 112 GLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFK 162
           GLS  P+ F++ +  E+IHARWAMLGA G + PE   K G   G EAVWFK
Sbjct: 80  GLSADPETFARNRELEVIHARWAMLGALGCVTPELLAKNGVKFG-EAVWFK 129

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|177716 PLN00098, PLN00098, light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|215076 PLN00147, PLN00147, light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>gnl|CDD|165670 PLN00097, PLN00097, photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>gnl|CDD|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>gnl|CDD|215087 PLN00170, PLN00170, photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); 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
>gnl|CDD|215054 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); 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|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 199
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.97
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.96
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.96
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.95
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.95
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.94
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.93
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.92
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.92
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.91
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.79
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.61
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.58
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.56
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.52
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.47
PLN00187286 photosystem II light-harvesting complex II protein 99.45
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.43
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.41
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.39
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.36
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.35
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.26
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.25
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.23
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.19
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.19
PHA0233735 putative high light inducible protein 97.98
PLN00014250 light-harvesting-like protein 3; Provisional 97.14
PLN00084214 photosystem II subunit S (PsbS); Provisional 96.08
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information 
Probab=100.00  E-value=2.4e-34  Score=255.66  Aligned_cols=145  Identities=28%  Similarity=0.498  Sum_probs=107.4

Q ss_pred             cccccCCccccccccccCCCCCCCCCCCcceEeeecccCCCCCCCCCCcCCCchhhhhhhcCCCCccccccCccCCCCCC
Q 029083           16 AKEMLGNPLNVSSAVRTSAPGASNPSTFKPVALFSKKKAAPPAKSKPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIP   95 (199)
Q Consensus        16 ~s~~lg~~~~~~~~~~~~~~~~~~~~~~~~~a~f~~~k~a~~~~~k~~~~~~~~~~~~~wyg~~R~~~lp~G~le~~~~P   95 (199)
                      +|.|.|.++.           .+.++..+++++|+..++..++ ++++  +     ...||++||++|+|+     .++|
T Consensus         7 ~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~-~~~~--~-----~~~~~~~~r~~w~p~-----~~~P   62 (286)
T PLN00187          7 ASSFMGTRVP-----------DVASNSGRIVARFGFGKKKKAA-KKAK--K-----KSSKVGADRPLWFPG-----AKAP   62 (286)
T ss_pred             chhhhhhhhc-----------ccccCccchhhhhccCcccccC-Cccc--c-----CccCCCCCccccCCC-----CCCc
Confidence            3668887776           2334677889998753322111 1111  1     126899999999997     8899


Q ss_pred             CCCCCCCCCCCCCCCCCCCCChhh-------------------------------------------HHHHHHHHHhhcc
Q 029083           96 EYLTGEVPGDYGYDPFGLSKKPDD-------------------------------------------FSKYQAYELIHAR  132 (199)
Q Consensus        96 ~yL~G~~PGD~GfDPlGL~kdpe~-------------------------------------------~~~~r~aEL~hGR  132 (199)
                      +||||++||||||||+||+++||.                                           ++|||++||+|||
T Consensus        63 ~~LdGslpGD~GfDplgL~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~l~r~REaELiHGR  142 (286)
T PLN00187         63 EWLDGSLVGDYGFDPFGLGKPAEYLQFDLDSLDQNLAKNLAGDVIGTRTEASEIKSTPFQPYSEVFGLQRFRECELIHGR  142 (286)
T ss_pred             ccccCCCCCcCCCCcccccCChHhhhhcccchhhhhhhcccccccccccccccccccccCcchhhhHHHHHHHHHhhhhH
Confidence            999999999999999999999986                                           5999999999999


Q ss_pred             hhhhhhhhhhhhhhhccCCCCCCCCccccccchhhcccchhHHHHHHHHHHHHHHHHHHhh
Q 029083          133 WAMLGAAGFIIPEAFNKFGANCGPEAVWFKVNLHFSRSLLLYVVYLLMVLLMSCFCRLELY  193 (199)
Q Consensus       133 ~AMLa~~G~lv~ell~g~G~~~~~~~~W~~aG~~~~~~~l~y~g~~~~p~~~~~~~~~e~~  193 (199)
                      |||||++||+++|++++        ..|+++|.+....+..|+++ ..|+.+..+.|+|++
T Consensus       143 wAMLAvaG~lvpEll~G--------~~W~~aG~~~~~~g~~y~g~-~~p~~~~~l~~iqvl  194 (286)
T PLN00187        143 WAMLATLGALSVEALTG--------VTWQDAGKVELVDGSSYLGQ-PLPFSITTLIWIEVL  194 (286)
T ss_pred             HHHHHhhchhhHHhccC--------Cccccccccccccccccccc-ccchhHHHHHHHHHH
Confidence            99999999999999863        35999998744334468773 344444445555533

>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; 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
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>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
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c 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
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>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
>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
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00120 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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); 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 ?
Query199
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 2e-19
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 2e-19
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 2e-18
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 3e-13
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 4e-13
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 2e-12
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 7e-12
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 1e-11
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 2e-09
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 1e-07
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 3e-04
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 5e-04
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 9e-04
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 Back     alignment and structure 
Iteration: 1

 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 48/88 (54%), Positives = 57/88 (64%), Gaps = 4/88 (4%)
Query: 75  WYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWA 134
           WYGPDR  +L        E P YLTGE PGDYG+D  GLS  P+ FSK +  E+IH+RWA
Sbjct: 16  WYGPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWA 72
Query: 135 MLGAAGFIIPEAFNKFGANCGPEAVWFK 162
           MLGA G + PE  ++ G   G EAVWFK
Sbjct: 73  MLGALGSVFPELLSRNGVKFG-EAVWFK 99
>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|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|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|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I Length = 166 Back     alignment and structure
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting Complex Cp29 At 2.80 Angstrom Resolution Length = 243 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query199
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 2e-24
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 5e-04
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 6e-24
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 1e-04
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 4e-21
2wsc_3 276 LHCA3, type II chlorophyll A/B binding protein fro 1e-17
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 7e-05
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 1e-16
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 2e-15
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 5e-04
>2bhw_A Chlorophyll A-B binding protein AB80; LHC-II, photosynthesis, light-harvesting, membrane protein, chloroplast, chromophore, membrane; HET: LUX NEX XAT CLA CHL LHG DGD; 2.50A {Pisum sativum} PDB: 1vcr_A* 1rwt_A* Length = 232 Back     alignment and structure
 Score = 95.1 bits (235), Expect = 2e-24
 Identities = 49/102 (48%), Positives = 59/102 (57%), Gaps = 4/102 (3%)

Query: 61  KPVAVSPVNEELAKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDF 120
           K      V    + WYGPDR  +L        E P YLTGE PGDYG+D  GLS  P+ F
Sbjct: 2   KSATTKKVASSGSPWYGPDRVKYLGPF---SGESPSYLTGEFPGDYGWDTAGLSADPETF 58

Query: 121 SKYQAYELIHARWAMLGAAGFIIPEAFNKFGANCGPEAVWFK 162
           SK +  E+IH+RWAMLGA G + PE  ++ G     EAVWFK
Sbjct: 59  SKNRELEVIHSRWAMLGALGSVFPELLSRNGVKF-GEAVWFK 99
>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
>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_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
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Length = 276 Back     alignment and structure
>2wsc_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
>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
>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 ?
Query199
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.98
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.95
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.95
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.94
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.93
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.88
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.43
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.42
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.41
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.37
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.28
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.07
>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=99.98  E-value=1.3e-32  Score=236.66  Aligned_cols=117  Identities=46%  Similarity=0.841  Sum_probs=97.6

Q ss_pred             hhhcCCCCccccccCccCCCCCCCCCCCCCCCCCCCCCCCCCCChhhHHHHHHHHHhhcchhhhhhhhhhhhhhhccCCC
Q 029083           73 AKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGA  152 (199)
Q Consensus        73 ~~wyg~~R~~~lp~G~le~~~~P~yL~G~~PGD~GfDPlGL~kdpe~~~~~r~aEL~hGR~AMLa~~G~lv~ell~g~G~  152 (199)
                      ++|||+||++||+  +++ .+.|+||||++||||||||+||++|+|+++|||++||+||||||||++|++++|+++..|.
T Consensus        14 ~~~~~~~r~~~l~--~~~-~~~P~~LdG~~pGD~GFDPLGLs~d~e~~~r~ReaELkHGR~AMLA~~G~lv~E~l~~~G~   90 (232)
T 2bhw_A           14 SPWYGPDRVKYLG--PFS-GESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPELLSRNGV   90 (232)
T ss_dssp             CTTSSTTCCCTTG--GGC-CSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CcccCCCcccccC--ccc-cCCccccCCcCCCCCCCCCCcCCCCHHHHHHHHHHHHhccchHHHhhhhhhhHHHhccCCc
Confidence            3899999999994  454 6899999999999999999999999999999999999999999999999999999998777


Q ss_pred             CCCCCccccccchh-hcccchhHHHH----------HHHHHHHHHHHHHHhh
Q 029083          153 NCGPEAVWFKVNLH-FSRSLLLYVVY----------LLMVLLMSCFCRLELY  193 (199)
Q Consensus       153 ~~~~~~~W~~aG~~-~~~~~l~y~g~----------~~~p~~~~~~~~~e~~  193 (199)
                      ... ++.|+++|.. +.+.+++|+++          ....++++++.++|.+
T Consensus        91 ~~~-~~~w~~ag~~~~~~~~~~~~~~P~~~~~q~i~~~~~~q~~~~g~~E~~  141 (232)
T 2bhw_A           91 KFG-EAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWATQVILMGAVEGY  141 (232)
T ss_dssp             CCS-CCSGGGSGGGGGSTTCEEGGGCTTSEEECCHHHHHHHHHHHHHHHHHH
T ss_pred             CCc-ccccccccchhccccchhcccCcchhhHHHHHHHHHHHHHHHHHHHHH
Confidence            554 6789999975 44556777763          1223366666777765
>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 199
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 3e-29
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 2e-04
>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 =  105 bits (264), Expect = 3e-29
 Identities = 47/90 (52%), Positives = 56/90 (62%), Gaps = 4/90 (4%)

Query: 73  AKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHAR 132
           + WYGPDR  +L        E P YLTGE PGDYG+D  GLS  P+ F+K +  E+IH R
Sbjct: 1   SPWYGPDRVKYLGP---FSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCR 57

Query: 133 WAMLGAAGFIIPEAFNKFGANCGPEAVWFK 162
           WAMLGA G + PE   + G   G EAVWFK
Sbjct: 58  WAMLGALGCVFPELLARNGVKFG-EAVWFK 86
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 218 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query199
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.97
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.42
>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=99.97  E-value=2.1e-32  Score=229.34  Aligned_cols=100  Identities=49%  Similarity=0.936  Sum_probs=84.9

Q ss_pred             hhhcCCCCccccccCccCCCCCCCCCCCCCCCCCCCCCCCCCCChhhHHHHHHHHHhhcchhhhhhhhhhhhhhhccCCC
Q 029083           73 AKWYGPDRRIFLPEGLLDRSEIPEYLTGEVPGDYGYDPFGLSKKPDDFSKYQAYELIHARWAMLGAAGFIIPEAFNKFGA  152 (199)
Q Consensus        73 ~~wyg~~R~~~lp~G~le~~~~P~yL~G~~PGD~GfDPlGL~kdpe~~~~~r~aEL~hGR~AMLa~~G~lv~ell~g~G~  152 (199)
                      ++||||||++|+|  ++. ++.|+||||++||||||||+||++|+++++|+|++|||||||||||++|++++|+++..+.
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            3799999999996  343 6789999999999999999999999999999999999999999999999999999988766


Q ss_pred             CCCCCccccccchhhc-ccchhHHH
Q 029083          153 NCGPEAVWFKVNLHFS-RSLLLYVV  176 (199)
Q Consensus       153 ~~~~~~~W~~aG~~~~-~~~l~y~g  176 (199)
                      ... ...|++++.... .+.+.+++
T Consensus        78 ~~~-~~~~~~~~~~~~~~~~~~~~~  101 (218)
T d1rwta_          78 KFG-EAVWFKAGSQIFSEGGLDYLG  101 (218)
T ss_dssp             CCS-CCSHHHHGGGGGSTTCBCGGG
T ss_pred             CCC-CcccccccccccCcchhhhhc
Confidence            543 578888777633 33444444
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure