Citrus Sinensis ID: 028743

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----
MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFNQ
cccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHccccccccccHHHHcccccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcc
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEcccEEEccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHcc
mvgdrgfdplglgkpteylqydfdsLDQNLAKNDVGELLGVitdsgelqptplqpytevfglqrfrecELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVegssylgqplpfsltTLIWIEVIVIGYIEYqrnaeldpvkrlypggyfdplglasdpgklenLQLAEIKHARLAMVAFLIFGIQaaftgkgpiSFVATFNQ
mvgdrgfdplglgkPTEYLQYDFDSLDQNLAKNDVGELLGVITdsgelqptpLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFNQ
MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFNQ
************GKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVAT***
MVGDRGFDPLGLGKPTEY**************NDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFN*
MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFNQ
MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFN*
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooo
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MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPISFVATFNQ
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 ?
Query204 2.2.26 [Sep-21-2011]
Q9S7W1276 Chlorophyll a-b binding p yes no 1.0 0.739 0.828 1e-100
Q9XF88287 Chlorophyll a-b binding p no no 0.985 0.700 0.767 2e-85
Q07473290 Chlorophyll a-b binding p no no 0.985 0.693 0.752 3e-85
Q93WD2280 Chlorophyll a-b binding p N/A no 0.946 0.689 0.569 2e-59
Q01667241 Chlorophyll a-b binding p no no 0.686 0.580 0.465 4e-29
P12360246 Chlorophyll a-b binding p N/A no 0.686 0.569 0.458 3e-28
Q9SDM1245 Chlorophyll a-b binding p N/A no 0.686 0.571 0.465 2e-27
P13851266 Chlorophyll a-b binding p N/A no 0.681 0.522 0.435 3e-20
P27517253 Chlorophyll a-b binding p N/A no 0.651 0.525 0.42 3e-20
Q8VZ87267 Chlorophyll a-b binding p no no 0.681 0.520 0.428 4e-20
>sp|Q9S7W1|CB4C_ARATH Chlorophyll a-b binding protein CP29.3, chloroplastic OS=Arabidopsis thaliana GN=LHCB4.3 PE=1 SV=1 Back     alignment and function desciption
 Score =  362 bits (930), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 169/204 (82%), Positives = 191/204 (93%)

Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
           M+GDRGFDP GLGKP EYLQYDFD LDQNLAKN  G+++G+I +S E++PTP QPYTEVF
Sbjct: 73  MIGDRGFDPFGLGKPAEYLQYDFDGLDQNLAKNVAGDIIGIIQESSEIKPTPFQPYTEVF 132

Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
           G+QRFRECELIHGRWAMLGTLGAIAVEALTG+AWQDAGKVELVEGSSYLGQPLPFSLTTL
Sbjct: 133 GIQRFRECELIHGRWAMLGTLGAIAVEALTGIAWQDAGKVELVEGSSYLGQPLPFSLTTL 192

Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
           IWIEV+V+GYIE+QRN+ELDP KR+YPGGYFDPLGLA+DP KL+ L+LAEIKH+RLAMVA
Sbjct: 193 IWIEVLVVGYIEFQRNSELDPEKRIYPGGYFDPLGLAADPEKLDTLKLAEIKHSRLAMVA 252

Query: 181 FLIFGIQAAFTGKGPISFVATFNQ 204
           FLIF +QAAFTGKGP+SF+ATFN 
Sbjct: 253 FLIFALQAAFTGKGPVSFLATFNN 276
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|Q9XF88|CB4B_ARATH Chlorophyll a-b binding protein CP29.2, chloroplastic OS=Arabidopsis thaliana GN=LHCB4.2 PE=1 SV=1 Back     alignment and function description
>sp|Q07473|CB4A_ARATH Chlorophyll a-b binding protein CP29.1, chloroplastic OS=Arabidopsis thaliana GN=LHCB4.1 PE=1 SV=1 Back     alignment and function description
>sp|Q93WD2|CB29_CHLRE Chlorophyll a-b binding protein CP29 OS=Chlamydomonas reinhardtii GN=Lhcb4 PE=1 SV=3 Back     alignment and function description
>sp|Q01667|CAB6_ARATH Chlorophyll a-b binding protein 6, chloroplastic OS=Arabidopsis thaliana GN=LHCA1 PE=1 SV=1 Back     alignment and function description
>sp|P12360|CB11_SOLLC Chlorophyll a-b binding protein 6A, chloroplastic OS=Solanum lycopersicum GN=CAB6A PE=2 SV=1 Back     alignment and function description
>sp|Q9SDM1|CB121_HORVU Chlorophyll a-b binding protein 1B-21, chloroplastic OS=Hordeum vulgare GN=LHC Ib-21 PE=1 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|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|Q8VZ87|CB1B_ARATH Chlorophyll a-b binding protein 3, chloroplastic OS=Arabidopsis thaliana GN=LHCB1.2 PE=1 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 ?
Query204
118489878275 unknown [Populus trichocarpa x Populus d 1.0 0.741 0.882 1e-101
224101127275 light-harvesting complex II protein Lhcb 1.0 0.741 0.877 1e-101
312281687276 unnamed protein product [Thellungiella h 1.0 0.739 0.852 1e-100
255571917282 chlorophyll A/B binding protein, putativ 1.0 0.723 0.857 2e-99
297823921276 LHCB4.3 [Arabidopsis lyrata subsp. lyrat 1.0 0.739 0.838 9e-99
15225630276 chlorophyll a-b binding protein CP29.3 [ 1.0 0.739 0.828 4e-98
21594018276 putative chlorophyll a/b binding protein 1.0 0.739 0.818 2e-96
380504948169 LHCB, partial [Citrus sinensis] 0.828 1.0 1.0 1e-91
356539957282 PREDICTED: chlorophyll a-b binding prote 1.0 0.723 0.795 5e-91
357461189278 Chlorophyll a-b binding protein CP29.3 [ 1.0 0.733 0.785 3e-90
>gi|118489878|gb|ABK96737.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 180/204 (88%), Positives = 191/204 (93%)

Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
           MVGDRGFDP  LGKP EYLQ+D DSLDQNLAKN  G+++GV  D+ E++PTP QPY+EVF
Sbjct: 72  MVGDRGFDPFALGKPAEYLQFDLDSLDQNLAKNLAGDVIGVRVDATEVKPTPFQPYSEVF 131

Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
           GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVEL+EGSSYLGQPLPFSLTTL
Sbjct: 132 GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELIEGSSYLGQPLPFSLTTL 191

Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
           IWIEVIVIGYIE+QRNAELDP KRLYPGGYFDPLGLASDP K+ENLQLAEIKHARLAMVA
Sbjct: 192 IWIEVIVIGYIEFQRNAELDPEKRLYPGGYFDPLGLASDPEKIENLQLAEIKHARLAMVA 251

Query: 181 FLIFGIQAAFTGKGPISFVATFNQ 204
           FLIFGIQAAFTGKGPISFVATFN 
Sbjct: 252 FLIFGIQAAFTGKGPISFVATFNN 275

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224101127|ref|XP_002312153.1| light-harvesting complex II protein Lhcb8 [Populus trichocarpa] gi|222851973|gb|EEE89520.1| light-harvesting complex II protein Lhcb8 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|312281687|dbj|BAJ33709.1| unnamed protein product [Thellungiella halophila] Back     alignment and taxonomy information
>gi|255571917|ref|XP_002526901.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223533800|gb|EEF35532.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297823921|ref|XP_002879843.1| LHCB4.3 [Arabidopsis lyrata subsp. lyrata] gi|297325682|gb|EFH56102.1| LHCB4.3 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|15225630|ref|NP_181539.1| chlorophyll a-b binding protein CP29.3 [Arabidopsis thaliana] gi|38503231|sp|Q9S7W1.1|CB4C_ARATH RecName: Full=Chlorophyll a-b binding protein CP29.3, chloroplastic; AltName: Full=LHCB4.3; AltName: Full=LHCII protein 4.3; Flags: Precursor gi|4741956|gb|AAD28775.1|AF134128_1 Lhcb4:3 protein [Arabidopsis thaliana] gi|17979325|gb|AAL49888.1| putative chlorophyll a/b binding protein [Arabidopsis thaliana] gi|20465761|gb|AAM20369.1| putative chlorophyll a/b binding protein [Arabidopsis thaliana] gi|330254684|gb|AEC09778.1| chlorophyll a-b binding protein CP29.3 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|21594018|gb|AAM65936.1| putative chlorophyll a/b binding protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|380504948|gb|AFD62761.1| LHCB, partial [Citrus sinensis] Back     alignment and taxonomy information
>gi|356539957|ref|XP_003538459.1| PREDICTED: chlorophyll a-b binding protein CP29.3, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|357461189|ref|XP_003600876.1| Chlorophyll a-b binding protein CP29.3 [Medicago truncatula] gi|355489924|gb|AES71127.1| Chlorophyll a-b binding protein CP29.3 [Medicago truncatula] 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 ?
Query204
TAIR|locus:2047751276 LHCB4.3 "light harvesting comp 0.995 0.735 0.832 4.8e-94
TAIR|locus:2149765290 LHCB4.1 "light harvesting comp 0.985 0.693 0.752 4.7e-80
TAIR|locus:2097608287 LHCB4.2 "light harvesting comp 0.985 0.700 0.767 9.7e-80
UNIPROTKB|Q93WD2280 Lhcb4 "Chlorophyll a-b binding 0.975 0.710 0.576 2.5e-56
TAIR|locus:2082717241 LHCA1 "photosystem I light har 0.686 0.580 0.465 2.4e-33
TAIR|locus:2122794280 LHCB5 "light harvesting comple 0.838 0.610 0.392 1.3e-22
TAIR|locus:2036209258 LHCB6 "light harvesting comple 0.245 0.193 0.573 3.5e-22
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.661 0.509 0.456 9e-22
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.661 0.517 0.456 9e-22
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.671 0.513 0.447 1.1e-21
TAIR|locus:2047751 LHCB4.3 "light harvesting complex photosystem II" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 936 (334.5 bits), Expect = 4.8e-94, P = 4.8e-94
 Identities = 169/203 (83%), Positives = 191/203 (94%)

Query:     1 MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
             M+GDRGFDP GLGKP EYLQYDFD LDQNLAKN  G+++G+I +S E++PTP QPYTEVF
Sbjct:    73 MIGDRGFDPFGLGKPAEYLQYDFDGLDQNLAKNVAGDIIGIIQESSEIKPTPFQPYTEVF 132

Query:    61 GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
             G+QRFRECELIHGRWAMLGTLGAIAVEALTG+AWQDAGKVELVEGSSYLGQPLPFSLTTL
Sbjct:   133 GIQRFRECELIHGRWAMLGTLGAIAVEALTGIAWQDAGKVELVEGSSYLGQPLPFSLTTL 192

Query:   121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
             IWIEV+V+GYIE+QRN+ELDP KR+YPGGYFDPLGLA+DP KL+ L+LAEIKH+RLAMVA
Sbjct:   193 IWIEVLVVGYIEFQRNSELDPEKRIYPGGYFDPLGLAADPEKLDTLKLAEIKHSRLAMVA 252

Query:   181 FLIFGIQAAFTGKGPISFVATFN 203
             FLIF +QAAFTGKGP+SF+ATFN
Sbjct:   253 FLIFALQAAFTGKGPVSFLATFN 275
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0015979 "photosynthesis" evidence=ISS
GO:0016020 "membrane" evidence=IEA;IDA
GO:0016168 "chlorophyll binding" evidence=ISS
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
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
TAIR|locus:2149765 LHCB4.1 "light harvesting complex photosystem II" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2097608 LHCB4.2 "light harvesting complex photosystem II" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q93WD2 Lhcb4 "Chlorophyll a-b binding protein CP29" [Chlamydomonas reinhardtii (taxid:3055)] Back     alignment and assigned GO terms
TAIR|locus:2082717 LHCA1 "photosystem I light harvesting complex gene 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2122794 LHCB5 "light harvesting complex of photosystem II 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2036209 LHCB6 "light harvesting complex photosystem II subunit 6" [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:2019287 CAB3 "chlorophyll A/B binding protein 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) ?
Q9S7W1CB4C_ARATHNo assigned EC number0.82841.00.7391yesno

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 ?
Query204
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 1e-143
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 2e-40
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 1e-36
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 3e-29
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 9e-26
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 4e-23
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 3e-22
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 3e-20
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 1e-19
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 5e-19
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 2e-18
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 3e-18
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 4e-10
PLN00120202 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c bi 6e-06
PLN00014250 PLN00014, PLN00014, light-harvesting-like protein 2e-04
PLN00098 267 PLN00098, PLN00098, light-harvesting complex I chl 7e-04
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 8e-04
PLN00170 255 PLN00170, PLN00170, photosystem II light-harvestin 0.001
PLN00171 324 PLN00171, PLN00171, photosystem light-harvesting c 0.003
>gnl|CDD|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information 
 Score =  401 bits (1031), Expect = e-143
 Identities = 158/202 (78%), Positives = 179/202 (88%), Gaps = 1/202 (0%)

Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
           +VGD GFDP GLGKP EYLQ+D DSLDQNLAKN  G+++G  T++ E++ TP QPY+EVF
Sbjct: 69  LVGDYGFDPFGLGKPAEYLQFDLDSLDQNLAKNLAGDVIGTRTEASEIKSTPFQPYSEVF 128

Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
           GLQRFRECELIHGRWAML TLGA++VEALTGV WQDAGKVELV+GSSYLGQPLPFS+TTL
Sbjct: 129 GLQRFRECELIHGRWAMLATLGALSVEALTGVTWQDAGKVELVDGSSYLGQPLPFSITTL 188

Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGG-YFDPLGLASDPGKLENLQLAEIKHARLAMV 179
           IWIEV+VIGYIE+QRNAELDP KRLYPGG +FDPLGLA+DP K E LQLAEIKHARLAMV
Sbjct: 189 IWIEVLVIGYIEFQRNAELDPEKRLYPGGKFFDPLGLAADPEKKETLQLAEIKHARLAMV 248

Query: 180 AFLIFGIQAAFTGKGPISFVAT 201
           AFL F +QAA TGKGP++  AT
Sbjct: 249 AFLGFAVQAAATGKGPLNNWAT 270

Length = 286
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein 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|215033 PLN00025, PLN00025, photosystem II light harvesting chlorophyll a/b binding protein; 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|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; 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|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; 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|177716 PLN00098, PLN00098, light-harvesting complex I chlorophyll a/b-binding protein (Lhac); 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|177710 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>gnl|CDD|215063 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>gnl|CDD|177653 PLN00014, PLN00014, light-harvesting-like protein 3; 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|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein 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|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 204
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 100.0
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00171324 photosystem light-harvesting complex -chlorophyll 100.0
PLN00101250 Photosystem I light-harvesting complex type 4 prot 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
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 100.0
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 100.0
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 100.0
PLN00101 250 Photosystem I light-harvesting complex type 4 prot 99.6
PLN00098 267 light-harvesting complex I chlorophyll a/b-binding 99.59
PLN00147 252 light-harvesting complex I chlorophyll-a/b binding 99.56
PLN00097 244 photosystem I light harvesting complex Lhca2/4, ch 99.51
PLN00171 324 photosystem light-harvesting complex -chlorophyll 99.51
PLN00170 255 photosystem II light-harvesting-Chl-binding protei 99.51
PLN00025 262 photosystem II light harvesting chlorophyll a/b bi 99.5
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.47
PLN00099 243 light-harvesting complex IChlorophyll A-B binding 99.44
PLN00187 286 photosystem II light-harvesting complex II protein 99.43
PLN00048 262 photosystem I light harvesting chlorophyll a/b bin 99.41
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.4
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.38
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.17
PHA0233735 putative high light inducible protein 98.33
PLN00084214 photosystem II subunit S (PsbS); Provisional 98.06
PLN00014250 light-harvesting-like protein 3; Provisional 97.78
PHA0233735 putative high light inducible protein 97.58
PLN00014250 light-harvesting-like protein 3; Provisional 95.98
PLN00084214 photosystem II subunit S (PsbS); Provisional 94.12
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information 
Probab=100.00  E-value=4.8e-65  Score=446.07  Aligned_cols=204  Identities=76%  Similarity=1.293  Sum_probs=190.1

Q ss_pred             CCCCCCCCCCCCCCCccccccccchhhhhhhccccccccccccCCCCCCCCCCCCCcchhhHHHHHHhHhhccchhhhhh
Q 028743            1 MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVFGLQRFRECELIHGRWAMLGT   80 (204)
Q Consensus         1 ~~gd~gfdp~g~~~~~~~~~~~~~~~~~n~~~~~~g~~~G~~~p~g~~dP~gl~~~~~~~~~~~~r~aELkHGR~AMLA~   80 (204)
                      ||||||||||||+|++|++|+++|++|+|+|+|.+|++||...+.....|..++|+++.++++||||+|||||||||||+
T Consensus        69 lpGD~GfDplgL~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~l~r~REaELiHGRwAMLAv  148 (286)
T PLN00187         69 LVGDYGFDPFGLGKPAEYLQFDLDSLDQNLAKNLAGDVIGTRTEASEIKSTPFQPYSEVFGLQRFRECELIHGRWAMLAT  148 (286)
T ss_pred             CCCcCCCCcccccCChHhhhhcccchhhhhhhcccccccccccccccccccccCcchhhhHHHHHHHHHhhhhHHHHHHh
Confidence            79999999999999999999999999999999999999999887788999999999999999999999999999999999


Q ss_pred             hhhhHHHhhhcccccCCCccccccCCcccCCCCcchhhHHHHHHHHHHHHHhhhhccccCCCCcCCCCC-CCCCCCCCCC
Q 028743           81 LGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTLIWIEVIVIGYIEYQRNAELDPVKRLYPGG-YFDPLGLASD  159 (204)
Q Consensus        81 ~G~lv~E~~~g~~w~~ag~~~~~~g~~~~~~~~~~~~~~~~~~~v~~~g~~E~~~~~~~~~~~~~~PGd-~FDPlgl~~d  159 (204)
                      +||++||+++|..|+++|.+...++.+|++.+.++++++++|+|+++||++|.+|+.+.+..++.|||| .||||||.+|
T Consensus       149 aG~lvpEll~G~~W~~aG~~~~~~g~~y~g~~~p~~~~~l~~iqvllmG~~E~~R~~~~~~~~~~yPGg~~FDPlGl~~d  228 (286)
T PLN00187        149 LGALSVEALTGVTWQDAGKVELVDGSSYLGQPLPFSITTLIWIEVLVIGYIEFQRNAELDPEKRLYPGGKFFDPLGLAAD  228 (286)
T ss_pred             hchhhHHhccCCcccccccccccccccccccccchhHHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccccCCC
Confidence            999999999999999999876666667888777777788999999999999999987665556789999 7999999999


Q ss_pred             cchhhhhHHHHHhhhHHHHHHHHHHHHHHhhcCCchh-hhhhhccC
Q 028743          160 PGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGKGPI-SFVATFNQ  204 (204)
Q Consensus       160 ~e~~~~~k~kELkNGRLAMlA~~G~~~q~~vtG~gpl-~~~~~~~~  204 (204)
                      +++++++|++|||||||||+|++||++|+++||+||+ |+.+|++.
T Consensus       229 ~e~~~~~k~kEIkNGRLAMlA~lG~~vq~~vtg~GPi~nL~~Hlad  274 (286)
T PLN00187        229 PEKKETLQLAEIKHARLAMVAFLGFAVQAAATGKGPLNNWATHLSD  274 (286)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhcCCChHHHHHHHhcC
Confidence            9999999999999999999999999999999999999 88899863

>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b binding 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
>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
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; 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
>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
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PF00504 Chloroa_b-bind: Chlorophyll A-B binding protein; InterPro: IPR022796 The light-harvesting complex (LHC) consists of chlorophylls A and B and the chlorophyll A-B binding protein Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; 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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b 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
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>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 ?
Query204
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 3e-87
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 3e-30
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 3e-30
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 3e-30
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 2e-20
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 3e-20
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 3e-20
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 2e-15
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 2e-14
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 2e-14
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 7e-14
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 6e-12
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 6e-12
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 8e-12
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 1e-11
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 1e-10
>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 
Iteration: 1

 Score =  317 bits (811), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 152/197 (77%), Positives = 171/197 (86%)
Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
           +VGD GFDP GLGKP EYLQYD+D LDQNLAKN  G+++G  T+S +++ T LQPY+EVF
Sbjct: 28  LVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTRTESADVKSTSLQPYSEVF 87
Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
           GLQRFRECELIHGRWAML TLGA+ VE LTG+ WQDAGKVEL+EGSSYLGQPLPFS+TTL
Sbjct: 88  GLQRFRECELIHGRWAMLATLGALTVEGLTGITWQDAGKVELIEGSSYLGQPLPFSMTTL 147
Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
           IWIEV+VIGYIE+QRNAELD  KRLYPGG FDPLGLASDP K   LQLAEIKHARLAMV 
Sbjct: 148 IWIEVLVIGYIEFQRNAELDTEKRLYPGGTFDPLGLASDPEKKPILQLAEIKHARLAMVG 207
Query: 181 FLIFGIQAAFTGKGPIS 197
           FL F +QAA TGKGP++
Sbjct: 208 FLGFAVQAAVTGKGPLN 224
>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|1 Chain 1, Improved Model Of Plant Photosystem I Length = 241 Back     alignment and structure
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 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|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|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 Back     alignment and structure
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I Length = 166 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 Back     alignment and structure
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I Length = 172 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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query204
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 4e-56
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 3e-33
2wsc_1 241 AT3G54890, LHCA1; photosynthesis, electron transfe 3e-05
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 1e-29
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 2e-27
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 4e-25
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 9e-08
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 1e-22
2wsc_2 269 LHCA2, type II chlorophyll A/B binding protein fro 3e-06
>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
 Score =  177 bits (448), Expect = 4e-56
 Identities = 153/202 (75%), Positives = 172/202 (85%)

Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
           +VGD GFDP GLGKP EYLQYD+D LDQNLAKN  G+++G  T+S +++ T LQPY+EVF
Sbjct: 28  LVGDYGFDPFGLGKPAEYLQYDYDGLDQNLAKNLAGDIIGTRTESADVKSTSLQPYSEVF 87

Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALTGVAWQDAGKVELVEGSSYLGQPLPFSLTTL 120
           GLQRFRECELIHGRWAML TLGA+ VE LTG+ WQDAGKVEL+EGSSYLGQPLPFS+TTL
Sbjct: 88  GLQRFRECELIHGRWAMLATLGALTVEGLTGITWQDAGKVELIEGSSYLGQPLPFSMTTL 147

Query: 121 IWIEVIVIGYIEYQRNAELDPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVA 180
           IWIEV+VIGYIE+QRNAELD  KRLYPGG FDPLGLASDP K   LQLAEIKHARLAMV 
Sbjct: 148 IWIEVLVIGYIEFQRNAELDTEKRLYPGGTFDPLGLASDPEKKPILQLAEIKHARLAMVG 207

Query: 181 FLIFGIQAAFTGKGPISFVATF 202
           FL F +QAA TGKGP++   T 
Sbjct: 208 FLGFAVQAAVTGKGPLNNWVTH 229
>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_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
>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_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_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_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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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 204
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 5e-33
>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 =  115 bits (290), Expect = 5e-33
 Identities = 69/210 (32%), Positives = 86/210 (40%), Gaps = 57/210 (27%)

Query: 1   MVGDRGFDPLGLGKPTEYLQYDFDSLDQNLAKNDVGELLGVITDSGELQPTPLQPYTEVF 60
             GD G+D  GL    E                                           
Sbjct: 27  FPGDYGWDTAGLSADPE------------------------------------------- 43

Query: 61  GLQRFRECELIHGRWAMLGTLGAIAVEALT-------GVAWQDAGKVELVEGS-SYLGQP 112
              + RE E+IH RWAMLG LG +  E L           W  AG     EG   YLG P
Sbjct: 44  TFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNP 103

Query: 113 LPF---SLTTLIWIEVIVIGYIEYQRNAE---LDPVKRLYPGGYFDPLGLASDPGKLENL 166
                 S+  +   +VI++G +E  R A     + V  LYPGG FDPLGLA DP     L
Sbjct: 104 SLVHAQSILAIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAEL 163

Query: 167 QLAEIKHARLAMVAFLIFGIQAAFTGKGPI 196
           ++ EIK+ RLAM +   F +QA  TGKGP+
Sbjct: 164 KVKEIKNGRLAMFSMFGFFVQAIVTGKGPL 193

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query204
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.71
>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=0  Score=300.94  Aligned_cols=154  Identities=42%  Similarity=0.669  Sum_probs=110.5

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCC-------CCCCCCCCCCC-CCCCCCCCC--CCHH
Q ss_conf             7899999885045678889867503522664323446787641445-------34787300124-776669997--5114
Q 028743           48 LQPTPLQPYTEVFGLQRFRECELIHGRWAMLGTLGAIAVEALTGVA-------WQDAGKVELVE-GSSYLGQPL--PFSL  117 (204)
Q Consensus        48 ~dP~gl~~~~~~~~~~~~r~aElkhgR~AMla~~G~~~~e~~~g~~-------w~~~g~~~~~~-g~~~~~~p~--~~~~  117 (204)
                      |||+||+.  +++.++||||+|||||||||||++|++++|+++...       |+.++...... ...+...+.  .++.
T Consensus        33 FDPLgls~--d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (218)
T d1rwta_          33 WDTAGLSA--DPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQS  110 (218)
T ss_dssp             CCTTCTTC--SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSCCSHHHHGGGGGSTTCBCGGGCTTSCCBCC
T ss_pred             CCCCCCCC--CHHHHHHHHHHHHHHCEEHHHHHCCEEEHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCHHHHHHH
T ss_conf             57743478--9899999999987512116764220110565336787778754334443036764255533723899999


Q ss_pred             HHHHHHH-HHHHHHHHHHHCCCC---CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             6899999-999998765320246---998767988888878998894303466798975557899998899987740477
Q 028743          118 TTLIWIE-VIVIGYIEYQRNAEL---DPVKRLYPGGYFDPLGLASDPGKLENLQLAEIKHARLAMVAFLIFGIQAAFTGK  193 (204)
Q Consensus       118 ~~l~~~q-i~l~g~~E~~r~~~~---~~~~~~~PGd~FDPlgl~~d~e~~~~~k~kEikNGRLAMiAi~G~~~q~~vtG~  193 (204)
                      ...+|++ +.+++.+|..|....   ...+..|||++|||+++.+++|+++++|+|||||||||||||+||++|+.+||+
T Consensus       111 ~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~g~fdPlg~~~~~e~~~~~k~kElkNGRLAMlAi~G~~~qe~vtG~  190 (218)
T d1rwta_         111 ILAIWACQVILMGAVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGK  190 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCBTTBCCSSSSCCCGGGCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf             99999999998755421013577766666787899876622127998999999999997728999999999985561398


Q ss_pred             CHH-HHHHHCC
Q ss_conf             502-4442004
Q 028743          194 GPI-SFVATFN  203 (204)
Q Consensus       194 gPl-~~~~~~~  203 (204)
                      +|+ ++.+|++
T Consensus       191 gp~~nl~~h~~  201 (218)
T d1rwta_         191 GPLENLADHLA  201 (218)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHC
T ss_conf             87999999842
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure