Citrus Sinensis ID: 044971

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---
MATSTMALSSSFVGKAVNLAPSGNELSNGGRISMRKTASKSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
ccHHHHHHHHHccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccHHHHHcccccHHHHHHccccccccccccccccccccccccccccccccccc
ccHHHHHHccHHccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccEEEHcHHHHHcccccccccccccccc
matstmalsssfvgkavnlapsgnelsnggrismrktasksvssgspwygldrvkylgpfsgeppsyltgefpgdygwdtaglsadpetfaKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFseggldylgnpsliha
matstmalsssfvgkavnlapsgnelsnggrismrktasksvssgspwygLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSeggldylgnpsliha
MATSTMALSSSFVGKAVNLAPSGNELSNGGRISMRKTASKSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
***********************************************WYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLG*******
*AT****************************************************YLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
*********SSFVGKAVNLAPSGNELSNGGRISM***********SPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
**********************************************PWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLI**
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MATSTMALSSSFVGKAVNLAPSGNELSNGGRISMRKTASKSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
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 ?
Query153 2.2.26 [Sep-21-2011]
P07369 267 Chlorophyll a-b binding p N/A no 1.0 0.573 0.865 1e-73
P27495 267 Chlorophyll a-b binding p N/A no 1.0 0.573 0.865 1e-73
P27492 266 Chlorophyll a-b binding p N/A no 1.0 0.575 0.858 1e-73
P12470 266 Chlorophyll a-b binding p N/A no 1.0 0.575 0.851 4e-73
P27493 265 Chlorophyll a-b binding p N/A no 1.0 0.577 0.850 8e-73
P07370 265 Chlorophyll a-b binding p N/A no 1.0 0.577 0.850 1e-72
P27496 267 Chlorophyll a-b binding p N/A no 1.0 0.573 0.839 4e-72
P13851 266 Chlorophyll a-b binding p N/A no 1.0 0.575 0.837 1e-71
P12469 267 Chlorophyll a-b binding p N/A no 1.0 0.573 0.839 1e-71
P04780 267 Chlorophyll a-b binding p N/A no 1.0 0.573 0.833 5e-71
>sp|P07369|CB2G_SOLLC Chlorophyll a-b binding protein 3C, chloroplastic OS=Solanum lycopersicum GN=CAB3C PE=3 SV=1 Back     alignment and function desciption
 Score =  275 bits (702), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 135/156 (86%), Positives = 145/156 (92%), Gaps = 3/156 (1%)

Query: 1   MATSTMALSSS-FVGKAVNLAPSGNELSNGGRISMRKTASKS--VSSGSPWYGLDRVKYL 57
           MATSTMALSSS F GKAV L+PS +E++  GR++MRKTA+K+   SSGSPWYG DRVKYL
Sbjct: 1   MATSTMALSSSTFAGKAVKLSPSSSEITGNGRVTMRKTATKAKPASSGSPWYGPDRVKYL 60

Query: 58  GPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELL 117
           GPFSGE PSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELL
Sbjct: 61  GPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELL 120

Query: 118 ARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153
           ARNGVKFGEAVWFKAG+QIFSEGGLDYLGNPSL+HA
Sbjct: 121 ARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA 156
The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.
Solanum lycopersicum (taxid: 4081)
>sp|P27495|CB24_TOBAC Chlorophyll a-b binding protein 40, chloroplastic OS=Nicotiana tabacum GN=CAB40 PE=2 SV=1 Back     alignment and function description
>sp|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|P12470|CB25_NICPL Chlorophyll a-b binding protein E, chloroplastic OS=Nicotiana plumbaginifolia GN=CABE PE=3 SV=1 Back     alignment and function description
>sp|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|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|P27496|CB25_TOBAC Chlorophyll a-b binding protein 50, chloroplastic OS=Nicotiana tabacum GN=CAB50 PE=2 SV=1 Back     alignment and function description
>sp|P13851|CB21_SINAL Chlorophyll a-b binding protein 1, chloroplastic OS=Sinapis alba GN=CAB1 PE=3 SV=1 Back     alignment and function description
>sp|P12469|CB23_NICPL Chlorophyll a-b binding protein C, chloroplastic OS=Nicotiana plumbaginifolia GN=CABC PE=3 SV=1 Back     alignment and function description
>sp|P04780|CB22_PETSP Chlorophyll a-b binding protein 22L, chloroplastic OS=Petunia sp. GN=CAB22L PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query153
28630973216 chlorophyll a/b-binding protein precurso 1.0 0.708 0.980 2e-81
255557387 265 chlorophyll A/B binding protein, putativ 1.0 0.577 0.915 3e-75
255567270 265 chlorophyll A/B binding protein, putativ 1.0 0.577 0.909 5e-75
346987809 263 chloroplast chlorophyll A/B binding prot 0.993 0.577 0.895 1e-74
379069812 265 chloroplast chlorophyll A/B binding prot 1.0 0.577 0.889 2e-72
2804572 264 chlorophyll a/b-binding protein [Fagus c 0.993 0.575 0.902 3e-72
3036949 266 light harvesting chlorophyll a/b-binding 1.0 0.575 0.864 3e-72
3036955 267 light harvesting chlorophyll a/b-binding 1.0 0.573 0.865 5e-72
115825 267 RecName: Full=Chlorophyll a-b binding pr 1.0 0.573 0.865 6e-72
170404 267 chlorophyll a/b-binding protein Cab-3C [ 1.0 0.573 0.865 6e-72
>gi|28630973|gb|AAO45885.1| chlorophyll a/b-binding protein precursor [Citrus limon] Back     alignment and taxonomy information
 Score =  306 bits (785), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 150/153 (98%), Positives = 151/153 (98%)

Query: 1   MATSTMALSSSFVGKAVNLAPSGNELSNGGRISMRKTASKSVSSGSPWYGLDRVKYLGPF 60
           MAT+TMALSSSFVGKAVNLAPSGNELSNGGRISMRKT SKSVSSGSPWYG DRVKYLGPF
Sbjct: 1   MATATMALSSSFVGKAVNLAPSGNELSNGGRISMRKTGSKSVSSGSPWYGPDRVKYLGPF 60

Query: 61  SGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARN 120
           SGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARN
Sbjct: 61  SGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARN 120

Query: 121 GVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153
           GVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA
Sbjct: 121 GVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153

Source: Citrus limon

Species: Citrus limon

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255557387|ref|XP_002519724.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223541141|gb|EEF42697.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|255567270|ref|XP_002524616.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223536169|gb|EEF37824.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|346987809|gb|AEO51755.1| chloroplast chlorophyll A/B binding protein [Dimocarpus longan] Back     alignment and taxonomy information
>gi|379069812|gb|AFC91647.1| chloroplast chlorophyll A/B binding protein [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|2804572|dbj|BAA24493.1| chlorophyll a/b-binding protein [Fagus crenata] Back     alignment and taxonomy information
>gi|3036949|dbj|BAA25393.1| light harvesting chlorophyll a/b-binding protein [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|3036955|dbj|BAA25396.1| light harvesting chlorophyll a/b-binding protein [Nicotiana sylvestris] Back     alignment and taxonomy information
>gi|115825|sp|P07369.1|CB2G_SOLLC RecName: Full=Chlorophyll a-b binding protein 3C, chloroplastic; AltName: Full=LHCII type I CAB-3C; Short=LHCP; Flags: Precursor gi|224932|prf||1204205G protein 3C,chlorophyll binding Back     alignment and taxonomy information
>gi|170404|gb|AAA34148.1| chlorophyll a/b-binding protein Cab-3C [Solanum lycopersicum] 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 ?
Query153
TAIR|locus:2019287 267 CAB3 "chlorophyll A/B binding 1.0 0.573 0.825 3.1e-67
TAIR|locus:2019372 267 CAB2 "chlorophyll A/B-binding 1.0 0.573 0.825 3.1e-67
TAIR|locus:2019322 267 CAB1 "chlorophyll A/B binding 1.0 0.573 0.819 1.3e-66
TAIR|locus:2040944 266 LHB1B1 "light-harvesting chlor 1.0 0.575 0.818 1.7e-66
TAIR|locus:2040934 265 LHB1B2 "photosystem II light h 0.986 0.569 0.812 1.5e-65
UNIPROTKB|P12330 265 CAB1R "Chlorophyll a-b binding 0.980 0.566 0.808 5.4e-63
UNIPROTKB|P12331 261 CAB2R "Chlorophyll a-b binding 0.960 0.563 0.794 2.1e-61
TAIR|locus:2042148 265 LHCB2.1 "photosystem II light 0.967 0.558 0.735 5.3e-56
TAIR|locus:2044988 265 LHCB2.2 "photosystem II light 0.973 0.562 0.715 3.7e-55
TAIR|locus:2089139 266 LHCB2.3 "photosystem II light 0.973 0.560 0.735 3.7e-55
TAIR|locus:2019287 CAB3 "chlorophyll A/B binding protein 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 683 (245.5 bits), Expect = 3.1e-67, P = 3.1e-67
 Identities = 128/155 (82%), Positives = 140/155 (90%)

Query:     1 MATSTMALSS-SFVGKAVNLAPSGNELSNGGRISMRKTASKSVS-SGSPWYGLDRVKYLG 58
             MA STMALSS +F GKAVNL+P+ +E+   GR++MRKT +K    SGSPWYG DRVKYLG
Sbjct:     1 MAASTMALSSPAFAGKAVNLSPAASEVLGSGRVTMRKTVAKPKGPSGSPWYGSDRVKYLG 60

Query:    59 PFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLA 118
             PFSGE PSYLTGEFPGDYGWDTAGLSADPETFA+NRELEVIH RWAMLGALGCVFPELLA
Sbjct:    61 PFSGESPSYLTGEFPGDYGWDTAGLSADPETFARNRELEVIHSRWAMLGALGCVFPELLA 120

Query:   119 RNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153
             RNGVKFGEAVWFKAG+QIFS+GGLDYLGNPSL+HA
Sbjct:   121 RNGVKFGEAVWFKAGSQIFSDGGLDYLGNPSLVHA 155
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0015979 "photosynthesis" evidence=ISS
GO:0016020 "membrane" evidence=IEA
GO:0016168 "chlorophyll binding" evidence=ISS;TAS
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0005739 "mitochondrion" evidence=IDA
GO:0010287 "plastoglobule" evidence=IDA
GO:0009579 "thylakoid" evidence=IDA
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0005794 "Golgi apparatus" evidence=RCA
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:2040944 LHB1B1 "light-harvesting chlorophyll-protein complex II subunit B1" [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
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:2042148 LHCB2.1 "photosystem II light harvesting complex gene 2.1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2044988 LHCB2.2 "photosystem II light harvesting complex gene 2.2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2089139 LHCB2.3 "photosystem II light harvesting complex gene 2.3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P0CJ48CB1A_ARATHNo assigned EC number0.82581.00.5730yesno
P04778CB1C_ARATHNo assigned EC number0.81931.00.5730yesno
Q8VZ87CB1B_ARATHNo assigned EC number0.82581.00.5730yesno
P12332CB21_SILPRNo assigned EC number0.74680.96730.7219N/Ano
P12330CB21_ORYSJNo assigned EC number0.80890.98030.5660yesno
P12471CB21_SOYBNNo assigned EC number0.94350.81040.5061yesno

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:
Lhcb1-1
light-harvesting complex II protein Lhcb1 (265 aa)
(Populus trichocarpa)
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 ?
Query153
PLN00025 262 PLN00025, PLN00025, photosystem II light harvestin 3e-98
PLN00171 324 PLN00171, PLN00171, photosystem light-harvesting c 5e-36
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 2e-21
PLN00098 267 PLN00098, PLN00098, light-harvesting complex I chl 1e-15
PLN00097 244 PLN00097, PLN00097, photosystem I light harvesting 2e-15
PLN00048 262 PLN00048, PLN00048, photosystem I light harvesting 9e-15
PLN00147 252 PLN00147, PLN00147, light-harvesting complex I chl 2e-14
PLN00099 243 PLN00099, PLN00099, light-harvesting complex IChlo 8e-14
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 5e-12
PLN00100 246 PLN00100, PLN00100, light-harvesting complex chlor 6e-11
PLN00170 255 PLN00170, PLN00170, photosystem II light-harvestin 1e-10
PLN00187 286 PLN00187, PLN00187, photosystem II light-harvestin 2e-10
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 2e-09
>gnl|CDD|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
 Score =  283 bits (725), Expect = 3e-98
 Identities = 114/151 (75%), Positives = 126/151 (83%), Gaps = 1/151 (0%)

Query: 4   STMALSSSFVGKAVNLAPSGNELSNG-GRISMRKTASKSVSSGSPWYGLDRVKYLGPFSG 62
           +    S++F G+A    P+      G GR++MRKT +K+  SGS WYG DR KYLGPFSG
Sbjct: 1   AMALSSTAFAGQAALKPPNELSRKVGNGRVTMRKTVAKAAGSGSIWYGPDRPKYLGPFSG 60

Query: 63  EPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGV 122
           E PSYLTGEFPGDYGWDTAGLSADPETFA+NRELEVIH RWAMLGALGCV PELLA+NGV
Sbjct: 61  ETPSYLTGEFPGDYGWDTAGLSADPETFARNRELEVIHARWAMLGALGCVTPELLAKNGV 120

Query: 123 KFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153
           KFGEAVWFKAGAQIFSEGGLDYLGNPSL+HA
Sbjct: 121 KFGEAVWFKAGAQIFSEGGLDYLGNPSLVHA 151

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|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|177680 PLN00048, PLN00048, photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>gnl|CDD|215076 PLN00147, PLN00147, light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>gnl|CDD|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>gnl|CDD|215054 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>gnl|CDD|215087 PLN00170, PLN00170, photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>gnl|CDD|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 153
PLN00025 262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00171 324 photosystem light-harvesting complex -chlorophyll 100.0
PLN00187 286 photosystem II light-harvesting complex II protein 99.98
PLN00098 267 light-harvesting complex I chlorophyll a/b-binding 99.96
PLN00048 262 photosystem I light harvesting chlorophyll a/b bin 99.96
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.95
PLN00097 244 photosystem I light harvesting complex Lhca2/4, ch 99.95
PLN00147 252 light-harvesting complex I chlorophyll-a/b binding 99.93
PLN00099 243 light-harvesting complex IChlorophyll A-B binding 99.93
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.92
PLN00170 255 photosystem II light-harvesting-Chl-binding protei 99.91
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.81
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.66
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.66
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.65
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.62
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.58
PLN00187286 photosystem II light-harvesting complex II protein 99.55
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.53
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.53
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.49
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.49
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.46
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.39
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.39
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.34
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.32
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.3
PHA0233735 putative high light inducible protein 98.15
PLN00014250 light-harvesting-like protein 3; Provisional 97.09
PLN00084214 photosystem II subunit S (PsbS); Provisional 96.32
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information 
Probab=100.00  E-value=8.2e-43  Score=293.96  Aligned_cols=145  Identities=78%  Similarity=1.323  Sum_probs=125.9

Q ss_pred             hhhccccccccCC-CCCccccccceeeecccCcccCCCCCCccCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCH
Q 044971            9 SSSFVGKAVNLAP-SGNELSNGGRISMRKTASKSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADP   87 (153)
Q Consensus         9 ~s~f~g~~~~~~~-~~~~~~~~~r~~~~~~~~~~~~~~~~w~g~dr~~~lgp~~~~~p~~L~G~~PGD~GfDPlGL~~dp   87 (153)
                      .++|+|+...... ...+..+.+|+++|+..++...+.+.||++||++|||||+.++|+||||++||||||||+||++||
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~R~~~l~p~~~~~P~~Ldg~~pGD~GfDPlGls~dp   85 (262)
T PLN00025          6 STAFAGQAALKPPNELSRKVGNGRVTMRKTVAKAAGSGSIWYGPDRPKYLGPFSGETPSYLTGEFPGDYGWDTAGLSADP   85 (262)
T ss_pred             hhhhhccccccCCcccchhccccchhhchhhcccccccccccCCCCccccCCcccCCcccccCcCCCCCCCCccccccCH
Confidence            4689999864332 233334557888887533333356789999999999999989999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhcchhhhhhchhhhhhhhhcCCcccCCccccccceecccCCCcCCCCCCcccCC
Q 044971           88 ETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA  153 (153)
Q Consensus        88 e~~~~~r~~El~hGRlAMLa~~G~i~~e~l~~~G~~~~~~~W~~aG~~~~~~~~~~ylg~~~l~~~  153 (153)
                      ++++++|++||+||||||||++||++||++++.|+++++++||++|++++++++++|+++|.++|+
T Consensus        86 ~~~~~~re~El~hGR~AMLa~~G~i~~e~l~~~g~~~~~~~W~~ag~~~~~~gg~~y~~~p~~~~~  151 (262)
T PLN00025         86 ETFARNRELEVIHARWAMLGALGCVTPELLAKNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLVHA  151 (262)
T ss_pred             HHHHHHHHHHHhccHHHHHHHhhhhhHHHhhcCCcCcCcccccccccccccccccccccCcccchh
Confidence            999999999999999999999999999999999998888999999999999999999999998873

>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; 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
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>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
>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
>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
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; 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
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional 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
>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 ?
Query153
1rwt_A 232 Crystal Structure Of Spinach Major Light-harvesting 2e-61
1vcr_A 232 An Icosahedral Assembly Of Light-Harvesting Chlorop 7e-60
2bhw_A 232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 7e-59
2wsc_2 269 Improved Model Of Plant Photosystem I Length = 269 6e-14
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 2e-13
2wsc_1 241 Improved Model Of Plant Photosystem I Length = 241 1e-11
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 2e-11
2wsc_4 251 Improved Model Of Plant Photosystem I Length = 251 5e-10
2wsc_3 276 Improved Model Of Plant Photosystem I Length = 276 5e-09
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 1e-08
3lw5_2 176 Improved Model Of Plant Photosystem I Length = 176 1e-06
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 Back     alignment and structure 
Iteration: 1

 Score =  230 bits (587), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 111/121 (91%), Positives = 114/121 (94%), Gaps = 2/121 (1%)
Query: 35  RKTASK--SVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAK 92
           RKTA K  +V S SPWYG DRVKYLGPFSGE PSYLTGEFPGDYGWDTAGLSADPETFAK
Sbjct: 1   RKTAGKPKTVQSSSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAK 60
Query: 93  NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIH 152
           NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAG+QIFSEGGLDYLGNPSL+H
Sbjct: 61  NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120
Query: 153 A 153
           A
Sbjct: 121 A 121
>pdb|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB Protein Complex From Pea Thylakoid Membranes Length = 232 Back     alignment and structure
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 Back     alignment and structure
>pdb|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|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|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 Back     alignment and structure
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 Back     alignment and structure
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query153
2bhw_A 232 Chlorophyll A-B binding protein AB80; LHC-II, phot 4e-40
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 8e-05
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 8e-28
2wsc_2 269 LHCA2, type II chlorophyll A/B binding protein fro 7e-25
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 6e-04
2wsc_3 276 LHCA3, type II chlorophyll A/B binding protein fro 8e-25
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 8e-06
2wsc_1 241 AT3G54890, LHCA1; photosynthesis, electron transfe 5e-22
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 6e-18
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 3e-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 =  133 bits (336), Expect = 4e-40
 Identities = 107/121 (88%), Positives = 113/121 (93%), Gaps = 2/121 (1%)

Query: 35  RKTAS--KSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAK 92
           RK+A+  K  SSGSPWYG DRVKYLGPFSGE PSYLTGEFPGDYGWDTAGLSADPETF+K
Sbjct: 1   RKSATTKKVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSK 60

Query: 93  NRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIH 152
           NRELEVIH RWAMLGALG VFPELL+RNGVKFGEAVWFKAG+QIFSEGGLDYLGNPSL+H
Sbjct: 61  NRELEVIHSRWAMLGALGSVFPELLSRNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH 120

Query: 153 A 153
           A
Sbjct: 121 A 121
>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_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Length = 251 Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Length = 269 Back     alignment and structure
>2wsc_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_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 ?
Query153
2bhw_A 232 Chlorophyll A-B binding protein AB80; LHC-II, phot 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.95
2wsc_2 269 LHCA2, type II chlorophyll A/B binding protein fro 99.95
2wsc_3 276 LHCA3, type II chlorophyll A/B binding protein fro 99.95
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 99.94
2wsc_1 241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.89
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.53
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.52
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.52
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.49
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.39
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.27
>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=2.2e-39  Score=267.40  Aligned_cols=113  Identities=91%  Similarity=1.571  Sum_probs=105.2

Q ss_pred             cccCCCCCCccCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhcchhhhhhchhhhhhhhhc
Q 044971           40 KSVSSGSPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLAR  119 (153)
Q Consensus        40 ~~~~~~~~w~g~dr~~~lgp~~~~~p~~L~G~~PGD~GfDPlGL~~dpe~~~~~r~~El~hGRlAMLa~~G~i~~e~l~~  119 (153)
                      |..+++|+||++||++|||||+.++|+||+|++||||||||+||++|+|+++|+|++|||||||||||++|+++||+++.
T Consensus         8 ~~~~~~~~~~~~~r~~~l~~~~~~~P~~LdG~~pGD~GFDPLGLs~d~e~~~r~ReaELkHGR~AMLA~~G~lv~E~l~~   87 (232)
T 2bhw_A            8 KVASSGSPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFSKNRELEVIHSRWAMLGALGSVFPELLSR   87 (232)
T ss_dssp             --CCTTCTTSSTTCCCTTGGGCCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCcccCCcccCCCcccccCccccCCccccCCcCCCCCCCCCCcCCCCHHHHHHHHHHHHhccchHHHhhhhhhhHHHhcc
Confidence            34556789999999999999888999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCcccCCccccccceecccCCCcCCCCCCcccC
Q 044971          120 NGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIH  152 (153)
Q Consensus       120 ~G~~~~~~~W~~aG~~~~~~~~~~ylg~~~l~~  152 (153)
                      .|+.+.++.|+++|.++|.+++++|+++|.++|
T Consensus        88 ~G~~~~~~~w~~ag~~~~~~~~~~~~~~P~~~~  120 (232)
T 2bhw_A           88 NGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVH  120 (232)
T ss_dssp             TTCCCSCCSGGGSGGGGGSTTCEEGGGCTTSEE
T ss_pred             CCcCCcccccccccchhccccchhcccCcchhh
Confidence            898888899999999999999999999998775
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Back     alignment and structure
>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 153
d1rwta_ 218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 7e-49
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 9e-06
>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 =  154 bits (391), Expect = 7e-49
 Identities = 104/108 (96%), Positives = 106/108 (98%)

Query: 46  SPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAM 105
           SPWYG DRVKYLGPFSGE PSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAM
Sbjct: 1   SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAM 60

Query: 106 LGALGCVFPELLARNGVKFGEAVWFKAGAQIFSEGGLDYLGNPSLIHA 153
           LGALGCVFPELLARNGVKFGEAVWFKAG+QIFSEGGLDYLGNPSL+HA
Sbjct: 61  LGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHA 108
>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 ?
Query153
d1rwta_ 218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.53
>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=5.9e-37  Score=246.94  Aligned_cols=107  Identities=96%  Similarity=1.696  Sum_probs=100.8

Q ss_pred             CCCccCCCccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHhhcchhhhhhchhhhhhhhhcCCcccC
Q 044971           46 SPWYGLDRVKYLGPFSGEPPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFG  125 (153)
Q Consensus        46 ~~w~g~dr~~~lgp~~~~~p~~L~G~~PGD~GfDPlGL~~dpe~~~~~r~~El~hGRlAMLa~~G~i~~e~l~~~G~~~~  125 (153)
                      |+||||||+||++||++++|+||||++||||||||+||++|+++++++|++|||||||||||++|+++||++++.+..+.
T Consensus         1 ~~~~~~~r~~~~~~~~~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~   80 (218)
T d1rwta_           1 SPWYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFG   80 (218)
T ss_dssp             CTTSSTTCCCTTGGGGCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCS
T ss_pred             CCCCCCCCcccCCccccCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCCCCC
Confidence            58999999999999998999999999999999999999999999999999999999999999999999999998887778


Q ss_pred             CccccccceecccCCCcCCCCCCcccC
Q 044971          126 EAVWFKAGAQIFSEGGLDYLGNPSLIH  152 (153)
Q Consensus       126 ~~~W~~aG~~~~~~~~~~ylg~~~l~~  152 (153)
                      ...|++++..++..+.++|++.|.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (218)
T d1rwta_          81 EAVWFKAGSQIFSEGGLDYLGNPSLVH  107 (218)
T ss_dssp             CCSHHHHGGGGGSTTCBCGGGCTTSCC
T ss_pred             CcccccccccccCcchhhhhcCchHHH
Confidence            899999999999889999999887654
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure