Citrus Sinensis ID: 025674

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------25
MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSGN
cHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHccccHHHccccccccccccccccHHccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccccccccccccccc
cHHHHHHccHHccccccccccHHccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEccccHHHcccccccHcccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHcccccHHHHHHHccc
MATVTTQAsaavfrpcasksrfltgssgklnrevalkpvsssasfkveakgewlpglasptylngslpgdngfdplglaedpenLKWYVQAELVNSRWAMLGVVGMLLPEVftkigiinapqwydagkaeyfassSTLFVIEFILFHYVEIRRwqdiknpgsvnqdpifkqyslppnevgypggifnplnfaptdeaKEKELANGRLAMLAFLGFIVQhnvtgkgpfenllqhisdpwhnTIVQTLSGN
matvttqasaavfrpcasksrfltgssgklnrevalkpvsssasfKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSGN
MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSGN
*************************************************KGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPT*****KELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQ*****
*A***************************************************LPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTL***
*********AAVFRPCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSGN
********************************************FKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLS**
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooo
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MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSASFKVEAKGEWLPGLASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSGN
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 ?
Query249 2.2.26 [Sep-21-2011]
P27521251 Chlorophyll a-b binding p yes no 0.991 0.984 0.860 1e-125
Q9SQL2252 Chlorophyll a-b binding p N/A no 1.0 0.988 0.876 1e-125
Q36718231 Chlorophyll a-b binding p N/A no 0.843 0.909 0.723 6e-87
P13869270 Chlorophyll a-b binding p N/A no 0.927 0.855 0.504 2e-61
P10708270 Chlorophyll a-b binding p N/A no 0.923 0.851 0.485 7e-61
Q32904275 Chlorophyll a-b binding p N/A no 0.755 0.683 0.434 9e-38
P27522273 Chlorophyll a-b binding p N/A no 0.867 0.791 0.397 1e-37
Q01667241 Chlorophyll a-b binding p no no 0.722 0.746 0.414 5e-37
Q9SDM1245 Chlorophyll a-b binding p N/A no 0.742 0.755 0.409 4e-36
P12360246 Chlorophyll a-b binding p N/A no 0.871 0.882 0.364 6e-35
>sp|P27521|CA4_ARATH Chlorophyll a-b binding protein 4, chloroplastic OS=Arabidopsis thaliana GN=LHCA4 PE=1 SV=1 Back     alignment and function desciption
 Score =  447 bits (1149), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 216/251 (86%), Positives = 229/251 (91%), Gaps = 4/251 (1%)

Query: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSA---SFKVEAK-GEWLPG 56
           MATVTT ASA++FRPC SK RFLTGSSG+LNR+++   + SSA   SFKVEAK GEWLPG
Sbjct: 1   MATVTTHASASIFRPCTSKPRFLTGSSGRLNRDLSFTSIGSSAKTSSFKVEAKKGEWLPG 60

Query: 57  LASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
           LASP YL GSL GDNGFDPLGLAEDPENLKW+VQAELVN RWAMLGV GMLLPEVFTKIG
Sbjct: 61  LASPDYLTGSLAGDNGFDPLGLAEDPENLKWFVQAELVNGRWAMLGVAGMLLPEVFTKIG 120

Query: 117 IINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPP 176
           IIN P+WYDAGK +YFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLP 
Sbjct: 121 IINVPEWYDAGKEQYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPK 180

Query: 177 NEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISD 236
            EVGYPGGIFNPLNFAPT EAKEKELANGRLAMLAFLGF+VQHNVTGKGPFENLLQH+SD
Sbjct: 181 GEVGYPGGIFNPLNFAPTQEAKEKELANGRLAMLAFLGFVVQHNVTGKGPFENLLQHLSD 240

Query: 237 PWHNTIVQTLS 247
           PWHNTIVQT +
Sbjct: 241 PWHNTIVQTFN 251
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|Q9SQL2|CB24_PEA Chlorophyll a-b binding protein P4, chloroplastic OS=Pisum sativum GN=lhcA-P4 PE=1 SV=1 Back     alignment and function description
>sp|Q36718|CB120_HORVU Chlorophyll a-b binding protein 1B-20, chloroplastic (Fragment) OS=Hordeum vulgare GN=LHC Ib-20 PE=1 SV=1 Back     alignment and function description
>sp|P13869|CB12_PETHY Chlorophyll a-b binding protein, chloroplastic OS=Petunia hybrida PE=2 SV=1 Back     alignment and function description
>sp|P10708|CB12_SOLLC Chlorophyll a-b binding protein 7, chloroplastic OS=Solanum lycopersicum GN=CAB7 PE=3 SV=1 Back     alignment and function description
>sp|Q32904|CB23_PEA Chlorophyll a-b binding protein 3, chloroplastic OS=Pisum sativum GN=lhca3 PE=1 SV=1 Back     alignment and function description
>sp|P27522|CB13_SOLLC Chlorophyll a-b binding protein 8, chloroplastic OS=Solanum lycopersicum GN=CAB8 PE=3 SV=1 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|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|P12360|CB11_SOLLC Chlorophyll a-b binding protein 6A, chloroplastic OS=Solanum lycopersicum GN=CAB6A 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 ?
Query249
225457389252 PREDICTED: chlorophyll a-b binding prote 0.995 0.984 0.928 1e-133
297733963249 unnamed protein product [Vitis vinifera] 0.991 0.991 0.935 1e-133
255547367251 chlorophyll A/B binding protein, putativ 1.0 0.992 0.912 1e-130
388498024252 unknown [Lotus japonicus] 1.0 0.988 0.896 1e-129
356516812252 PREDICTED: chlorophyll a-b binding prote 0.995 0.984 0.896 1e-129
224124190251 light-harvesting complex I protein Lhca4 1.0 0.992 0.900 1e-129
118489040251 unknown [Populus trichocarpa x Populus d 1.0 0.992 0.896 1e-128
356508545252 PREDICTED: chlorophyll a-b binding prote 0.995 0.984 0.888 1e-128
312281571251 unnamed protein product [Thellungiella h 0.991 0.984 0.888 1e-127
217073418253 unknown [Medicago truncatula] gi|3885078 1.0 0.984 0.892 1e-127
>gi|225457389|ref|XP_002284856.1| PREDICTED: chlorophyll a-b binding protein 4, chloroplastic [Vitis vinifera] gi|147843386|emb|CAN79984.1| hypothetical protein VITISV_038035 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  478 bits (1231), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 233/251 (92%), Positives = 244/251 (97%), Gaps = 3/251 (1%)

Query: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSA--SFKVEAK-GEWLPGL 57
           MATVTTQASAAVFRPCASKSRFLTGSSGKL REV++KP++SS+  SFKVEAK GEWLPGL
Sbjct: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLGREVSVKPMTSSSYRSFKVEAKKGEWLPGL 60

Query: 58  ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI 117
           +SP+YL+GSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGV GMLLPEVFTKIGI
Sbjct: 61  SSPSYLDGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVAGMLLPEVFTKIGI 120

Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
           INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFK YSLPPN
Sbjct: 121 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKNYSLPPN 180

Query: 178 EVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP 237
           EVGYPGGIFNPLNFAPT+EAKEKELANGRLAMLAFLGFIVQHNVTGKGPF+NLLQHISDP
Sbjct: 181 EVGYPGGIFNPLNFAPTEEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFDNLLQHISDP 240

Query: 238 WHNTIVQTLSG 248
           WHNTI+QTL G
Sbjct: 241 WHNTIIQTLRG 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297733963|emb|CBI15210.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255547367|ref|XP_002514741.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223546345|gb|EEF47847.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|388498024|gb|AFK37078.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|356516812|ref|XP_003527087.1| PREDICTED: chlorophyll a-b binding protein P4, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|224124190|ref|XP_002330127.1| light-harvesting complex I protein Lhca4 [Populus trichocarpa] gi|222871261|gb|EEF08392.1| light-harvesting complex I protein Lhca4 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|118489040|gb|ABK96327.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
>gi|356508545|ref|XP_003523016.1| PREDICTED: chlorophyll a-b binding protein P4, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|312281571|dbj|BAJ33651.1| unnamed protein product [Thellungiella halophila] Back     alignment and taxonomy information
>gi|217073418|gb|ACJ85068.1| unknown [Medicago truncatula] gi|388507876|gb|AFK42004.1| unknown [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 ?
Query249
TAIR|locus:2079117251 LHCA4 "light-harvesting chloro 0.991 0.984 0.860 1.3e-116
TAIR|locus:2082767257 LHCA2 "photosystem I light har 0.935 0.906 0.495 6.6e-58
TAIR|locus:2825741256 Lhca5 "photosystem I light har 0.791 0.769 0.519 4.4e-52
TAIR|locus:2202150270 Lhca6 "photosystem I light har 1.0 0.922 0.423 1.7e-50
TAIR|locus:2082717241 LHCA1 "photosystem I light har 0.803 0.829 0.402 7.2e-36
UNIPROTKB|P12330265 CAB1R "Chlorophyll a-b binding 0.947 0.890 0.363 1.3e-29
TAIR|locus:2019287267 CAB3 "chlorophyll A/B binding 0.919 0.857 0.367 9.1e-29
TAIR|locus:2019372267 CAB2 "chlorophyll A/B-binding 0.919 0.857 0.367 9.1e-29
TAIR|locus:2019322267 CAB1 "chlorophyll A/B binding 0.911 0.850 0.363 9.1e-29
TAIR|locus:2200868273 LHCA3 "photosystem I light har 0.951 0.868 0.357 1.2e-28
TAIR|locus:2079117 LHCA4 "light-harvesting chlorophyll-protein complex I subunit A4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1149 (409.5 bits), Expect = 1.3e-116, P = 1.3e-116
 Identities = 216/251 (86%), Positives = 229/251 (91%)

Query:     1 MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSA---SFKVEAK-GEWLPG 56
             MATVTT ASA++FRPC SK RFLTGSSG+LNR+++   + SSA   SFKVEAK GEWLPG
Sbjct:     1 MATVTTHASASIFRPCTSKPRFLTGSSGRLNRDLSFTSIGSSAKTSSFKVEAKKGEWLPG 60

Query:    57 LASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIG 116
             LASP YL GSL GDNGFDPLGLAEDPENLKW+VQAELVN RWAMLGV GMLLPEVFTKIG
Sbjct:    61 LASPDYLTGSLAGDNGFDPLGLAEDPENLKWFVQAELVNGRWAMLGVAGMLLPEVFTKIG 120

Query:   117 IINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPP 176
             IIN P+WYDAGK +YFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLP 
Sbjct:   121 IINVPEWYDAGKEQYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPK 180

Query:   177 NEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISD 236
              EVGYPGGIFNPLNFAPT EAKEKELANGRLAMLAFLGF+VQHNVTGKGPFENLLQH+SD
Sbjct:   181 GEVGYPGGIFNPLNFAPTQEAKEKELANGRLAMLAFLGFVVQHNVTGKGPFENLLQHLSD 240

Query:   237 PWHNTIVQTLS 247
             PWHNTIVQT +
Sbjct:   241 PWHNTIVQTFN 251
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;NAS
GO:0030076 "light-harvesting complex" evidence=ISS
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0010287 "plastoglobule" evidence=IDA
GO:0009579 "thylakoid" evidence=IDA
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0080167 "response to karrikin" evidence=IEP
GO:0019344 "cysteine biosynthetic process" evidence=RCA
GO:0030003 "cellular cation homeostasis" evidence=RCA
GO:0070838 "divalent metal ion transport" evidence=RCA
TAIR|locus:2082767 LHCA2 "photosystem I light harvesting complex gene 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2825741 Lhca5 "photosystem I light harvesting complex gene 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2202150 Lhca6 "photosystem I light harvesting complex gene 6" [Arabidopsis thaliana (taxid:3702)] 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
UNIPROTKB|P12330 CAB1R "Chlorophyll a-b binding protein 1, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms
TAIR|locus:2019287 CAB3 "chlorophyll A/B binding protein 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2019372 CAB2 "chlorophyll A/B-binding protein 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2019322 CAB1 "chlorophyll A/B binding protein 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2200868 LHCA3 "photosystem I light harvesting complex gene 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) ?
Q36718CB120_HORVUNo assigned EC number0.72300.84330.9090N/Ano
P13869CB12_PETHYNo assigned EC number0.50410.92770.8555N/Ano
Q9SQL2CB24_PEANo assigned EC number0.87691.00.9880N/Ano
P27521CA4_ARATHNo assigned EC number0.86050.99190.9840yesno

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 ?
Query249
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 0.0
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 3e-82
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 3e-76
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 1e-72
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 5e-58
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 1e-47
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 8e-47
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 1e-45
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 6e-40
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 1e-39
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 1e-36
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 1e-29
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 2e-13
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 3e-10
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 3e-04
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information 
 Score =  502 bits (1295), Expect = 0.0
 Identities = 232/250 (92%), Positives = 241/250 (96%), Gaps = 3/250 (1%)

Query: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSA--SFKVEA-KGEWLPGL 57
           MATVTTQASAAVFRPC+SKSRFL+GSS KLNRE++ KP+ SSA  SFKVEA KGEWLPGL
Sbjct: 1   MATVTTQASAAVFRPCSSKSRFLSGSSSKLNRELSFKPMPSSATRSFKVEAKKGEWLPGL 60

Query: 58  ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI 117
           ASP YLNGSLPGDNGFDPLGLAEDPENLKW+VQAELVN RWAMLGV GMLLPEVFTKIGI
Sbjct: 61  ASPGYLNGSLPGDNGFDPLGLAEDPENLKWFVQAELVNGRWAMLGVAGMLLPEVFTKIGI 120

Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
           INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN
Sbjct: 121 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 180

Query: 178 EVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP 237
           EVGYPGGIFNPLNFAPT+EAKEKELANGRLAMLAFLGF+VQHNVTGKGPFENLLQH+SDP
Sbjct: 181 EVGYPGGIFNPLNFAPTEEAKEKELANGRLAMLAFLGFVVQHNVTGKGPFENLLQHLSDP 240

Query: 238 WHNTIVQTLS 247
           WHNTIVQTLS
Sbjct: 241 WHNTIVQTLS 250

Length = 250
>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|177716 PLN00098, PLN00098, light-harvesting complex I chlorophyll a/b-binding protein (Lhac); 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|177717 PLN00099, PLN00099, light-harvesting complex IChlorophyll A-B binding protein Lhca1; 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|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; 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|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|177710 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|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 249
PLN00101250 Photosystem I light-harvesting complex type 4 prot 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 100.0
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 100.0
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 100.0
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 100.0
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00171324 photosystem light-harvesting complex -chlorophyll 100.0
PLN00170255 photosystem II light-harvesting-Chl-binding protei 100.0
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 100.0
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 100.0
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 100.0
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.56
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.53
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.51
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.46
PLN00187286 photosystem II light-harvesting complex II protein 99.45
PLN00101 250 Photosystem I light-harvesting complex type 4 prot 99.44
PLN00170 255 photosystem II light-harvesting-Chl-binding protei 99.43
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.41
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.4
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.38
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.36
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.33
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.26
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.14
PHA0233735 putative high light inducible protein 98.24
PLN00084214 photosystem II subunit S (PsbS); Provisional 97.94
PLN00014250 light-harvesting-like protein 3; Provisional 97.71
PHA0233735 putative high light inducible protein 97.57
PLN00014250 light-harvesting-like protein 3; Provisional 95.63
PLN00084214 photosystem II subunit S (PsbS); Provisional 94.77
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information 
Probab=100.00  E-value=6.1e-74  Score=513.39  Aligned_cols=247  Identities=93%  Similarity=1.482  Sum_probs=218.0

Q ss_pred             CcchhhhhhhccccccccccccccCCCCcccccccccCCCC--CCcceee-ccccCCCCCCCCCCCCCCCCCCCCccccC
Q 025674            1 MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSS--SASFKVE-AKGEWLPGLASPTYLNGSLPGDNGFDPLG   77 (249)
Q Consensus         1 ma~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~Pg~~~p~~l~g~~pGd~gfDPlg   77 (249)
                      ||++++.+..+++.+++.+++|+.+.+.+..+.++.+++++  ++++++. +|++|+||.++|+||||++|||+||||||
T Consensus         1 ma~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~W~P~~~~P~~LdG~~PGD~GFDPlG   80 (250)
T PLN00101          1 MATVTTQASAAVFRPCSSKSRFLSGSSSKLNRELSFKPMPSSATRSFKVEAKKGEWLPGLASPGYLNGSLPGDNGFDPLG   80 (250)
T ss_pred             CchhhhhhhhccccccccccccccccccccccccccccccccccccccccccccccCCCCCCCcccCCCCCCccCCCccc
Confidence            89888888888777777778887655544443333222222  2344444 58999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHhhHhcCCchhhhhhHhhhhhhhhccCcCCCcccccccchhhccchhhHHHHHHHHHHHHHHHhhhcc
Q 025674           78 LAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDI  157 (249)
Q Consensus        78 l~~~~~~l~~~reaElkHGR~AMlA~~G~~~~e~~~~~G~~~~p~w~~a~~~~~~~~~~~l~~~qi~l~g~vE~~~~~~~  157 (249)
                      |++|+++++|||++||+||||||||++|+++||++++.|++..|.|+++++..|+....+++++|+++|+++|++||+++
T Consensus        81 l~~d~~~~~~~r~aEl~hGRlAMla~~G~l~~e~l~~~g~~~~p~w~~ag~~~~~~~~~~l~~ie~~~mg~~E~~R~~~~  160 (250)
T PLN00101         81 LAEDPENLKWFVQAELVNGRWAMLGVAGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDI  160 (250)
T ss_pred             cCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCCCCcCCCccccccchhhcccchHHHHHHHHHHHHHHHHHhhcc
Confidence            99999999999999999999999999999999999998888788999999888888778899999999999999999999


Q ss_pred             cCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCCCcchHHHHHHHhhhhHHHHHHHHHHHHhhccCCcchhhhhhhhcCC
Q 025674          158 KNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP  237 (249)
Q Consensus       158 ~~pG~~~~~~~f~~~~~~~~e~gyPGd~FDPLgl~~~~e~k~kELkNGRLAMlAi~G~~~Qe~vtG~gPl~~L~~hl~~P  237 (249)
                      ++||+.+.++.|.+..+.++|.+||||.||||||++++++|+||||||||||+|++||++|+++||++|++||.+||+||
T Consensus       161 ~~pG~~~~~~~~~~~~~~~gd~~YPGG~FDPLgl~~~~~~k~kEIKNGRLAM~A~lGf~~Q~~vTG~gPi~nL~~hladP  240 (250)
T PLN00101        161 KNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTEEAKEKELANGRLAMLAFLGFVVQHNVTGKGPFENLLQHLSDP  240 (250)
T ss_pred             cCCCcccccccccccccCCccccCCCCccCccCCCccHHHHHHHHhhcchHHHHHhhHhheehccCCChHHHHHHHhcCC
Confidence            99999888888887777788999999999999999888999999999999999999999999999999999999999999


Q ss_pred             cccccccccc
Q 025674          238 WHNTIVQTLS  247 (249)
Q Consensus       238 ~~~ni~~~~~  247 (249)
                      |||||+++|+
T Consensus       241 ~~~ni~~~~~  250 (250)
T PLN00101        241 WHNTIVQTLS  250 (250)
T ss_pred             cccchhhhcC
Confidence            9999999975

>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); 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
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); 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
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00025 photosystem II light harvesting chlorophyll a/b binding protein; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; 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
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; 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
>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
>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
>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 ?
Query249
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 1e-124
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 5e-86
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 3e-85
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 4e-58
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 2e-56
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 3e-48
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 6e-41
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 4e-38
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 2e-36
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 3e-31
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 2e-27
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 2e-27
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 1e-26
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 2e-26
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 7e-26
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 4e-24
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure 
Iteration: 1

 Score =  440 bits (1132), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/252 (87%), Positives = 228/252 (90%), Gaps = 4/252 (1%)
Query: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPV--SSSASFKVEAK-GEWLPGL 57
           MATVTTQASAA+F PC  KSRFL GSSGKLNR VA +PV  S SASFKVEAK GEWLPGL
Sbjct: 1   MATVTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGL 60
Query: 58  ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI 117
           ASP YL GSLPGDNGFDPLGLAEDPENL+W+VQAELVN RWAMLGV GMLLPEVFT IGI
Sbjct: 61  ASPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI 120
Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
           IN P+WY AGK EYFASSSTLFVIEFIL HYVEIRRWQDIKNPGSVNQDPIFKQYSLP  
Sbjct: 121 INVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAG 180
Query: 178 EVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP 237
           EVGYPGGIFNPLNFAPT EAKEKE+ANGRL MLAFLGFI+QHNVTGKGPF+NLLQHISDP
Sbjct: 181 EVGYPGGIFNPLNFAPTLEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDP 239
Query: 238 WHNTIVQTLSGN 249
           WHNTIVQTL GN
Sbjct: 240 WHNTIVQTLGGN 251
>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|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|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 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|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|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 Back     alignment and structure
>pdb|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting Complex Cp29 At 2.80 Angstrom Resolution Length = 243 Back     alignment and structure
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 Back     alignment and structure
>pdb|3LW5|3 Chain 3, Improved Model Of Plant Photosystem I Length = 172 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 ?
Query249
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 2e-86
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 1e-66
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 3e-63
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 1e-55
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 7e-55
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 2e-48
>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
 Score =  256 bits (654), Expect = 2e-86
 Identities = 213/252 (84%), Positives = 221/252 (87%), Gaps = 4/252 (1%)

Query: 1   MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVALKPVSSSAS---FKVEAKGEWLPGL 57
           MATVTTQASAA+F PC  KSRFL GSSGKLNR VA +PV  S S        KGEWLPGL
Sbjct: 1   MATVTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGL 60

Query: 58  ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI 117
           ASP YL GSLPGDNGFDPLGLAEDPENL+W+VQAELVN RWAMLGV GMLLPEVFT IGI
Sbjct: 61  ASPGYLTGSLPGDNGFDPLGLAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGI 120

Query: 118 INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPN 177
           IN P+WY AGK EYFASSSTLFVIEFIL HYVEIRRWQDIKNPGSVNQDPIFKQYSLP  
Sbjct: 121 INVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDIKNPGSVNQDPIFKQYSLPAG 180

Query: 178 EVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP 237
           EVGYPGGIFNPLNFAPT EAKEKE+ANGRL MLAFLGFI+QHNVTGKGPF+NLLQHISDP
Sbjct: 181 EVGYPGGIFNPLNFAPTLEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDP 239

Query: 238 WHNTIVQTLSGN 249
           WHNTIVQTL GN
Sbjct: 240 WHNTIVQTLGGN 251
>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_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
>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 ?
Query249
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 100.0
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 100.0
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 100.0
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 100.0
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.46
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.43
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.41
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.38
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.28
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 99.27
>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
Probab=100.00  E-value=1.9e-67  Score=471.88  Aligned_cols=247  Identities=87%  Similarity=1.390  Sum_probs=152.8

Q ss_pred             CcchhhhhhhccccccccccccccCCCCcccccccc-cCCC-CCCcceee-ccccCCCCCCCCCCCCCCCCCCCCccccC
Q 025674            1 MATVTTQASAAVFRPCASKSRFLTGSSGKLNREVAL-KPVS-SSASFKVE-AKGEWLPGLASPTYLNGSLPGDNGFDPLG   77 (249)
Q Consensus         1 ma~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~~~~~~-~~~~~~Pg~~~p~~l~g~~pGd~gfDPlg   77 (249)
                      ||++++.++.++.+++..++++++.++..+.+.+.. .+.+ ..++.... +|++|+||.+.|.||||++|||+||||||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~pg~~~p~~l~g~~pGd~gfDPlG   80 (251)
T 2wsc_4            1 MATVTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGLASPGYLTGSLPGDNGFDPLG   80 (251)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CchhhccccccccCccccccchhhccccccccccccccccccccccccCcchhhhccCCCCCccccCCCcCCCCCCCccc
Confidence            888888888777766655667777666444322221 2122 22333334 58999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHhhHhcCCchhhhhhHhhhhhhhhccCcCCCcccccccchhhccchhhHHHHHHHHHHHHHHHhhhcc
Q 025674           78 LAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGIINAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRWQDI  157 (249)
Q Consensus        78 l~~~~~~l~~~reaElkHGR~AMlA~~G~~~~e~~~~~G~~~~p~w~~a~~~~~~~~~~~l~~~qi~l~g~vE~~~~~~~  157 (249)
                      |++|+|+++|+|++|||||||||||++|++++|++++.|++..|.|++++...|+...+.++++|+++||++|..|++++
T Consensus        81 l~~d~e~~~~~r~aEl~hGR~AMla~~G~~~~e~~~~~g~~~~p~w~~aG~~~~~~~~~~l~~~qi~liG~~E~~r~~~~  160 (251)
T 2wsc_4           81 LAEDPENLRWFVQAELVNGRWAMLGVAGMLLPEVFTSIGIINVPKWYAAGKEEYFASSSTLFVIEFILSHYVEIRRWQDI  160 (251)
T ss_dssp             CCCSCCCTTTTHHHHHHHTHHHHHHHTTSSTTSSSCCSCSSCCCCCSCCCSSSCSSCSSCTTTTHHHHHHTTTHHHHHHH
T ss_pred             cCCChHHHHHHHHHHHhccchHHHHHHHHHHHHHhcCCCccCCccccccchHhhhccchHHHHHHHHHHHHHHHHHhhcc
Confidence            99999999999999999999999999999999999998887778899988777777777788899999999999999999


Q ss_pred             cCCCCCCCCcccccCCCCCCCCCCCCCCCCCCCCCcchHHHHHHHhhhhHHHHHHHHHHHHhhccCCcchhhhhhhhcCC
Q 025674          158 KNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLNFAPTDEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDP  237 (249)
Q Consensus       158 ~~pG~~~~~~~f~~~~~~~~e~gyPGd~FDPLgl~~~~e~k~kELkNGRLAMlAi~G~~~Qe~vtG~gPl~~L~~hl~~P  237 (249)
                      ++||+++.+|.|.+...+..|.+||||.||||++.+.+++|+|||||||| ||||+||++|+.+||++|++||.+||+||
T Consensus       161 ~~pG~~g~~p~f~~~~~~~~d~~yPGg~FDPLgl~~~~~~k~kELkNGRL-MlAilGf~vQe~vTG~gPl~nL~~hladP  239 (251)
T 2wsc_4          161 KNPGSVNQDPIFKQYSLPAGEVGYPGGIFNPLNFAPTLEAKEKEIANGRL-MLAFLGFIIQHNVTGKGPFDNLLQHISDP  239 (251)
T ss_dssp             SSCCCTTCCSSSCSSSSCCHHHHSSCCTTCCCCCCSSSSCTTHHHHHHHT-TTTHHHHHHHHTTSCCCCCCCTTTTTTCC
T ss_pred             cCCCcccccccccccccccccccCCCCccCccchhHHHHHHHHHHhcchh-HHHHHHHHHHHHhcCccHHHHHHHHccCh
Confidence            99999888888876555455668999999999998878899999999999 99999999999999999999999999999


Q ss_pred             ccccccccccC
Q 025674          238 WHNTIVQTLSG  248 (249)
Q Consensus       238 ~~~ni~~~~~~  248 (249)
                      |||||++++++
T Consensus       240 ~~~n~~~~~~~  250 (251)
T 2wsc_4          240 WHNTIVQTLGG  250 (251)
T ss_dssp             CCCCSCC----
T ss_pred             hhhhhhhhhcC
Confidence            99999999875
>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
>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
>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_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 249
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 2e-58
>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 =  182 bits (464), Expect = 2e-58
 Identities = 68/198 (34%), Positives = 96/198 (48%), Gaps = 8/198 (4%)

Query: 53  WLPGLAS--PTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPE 110
           +L   +   P+YL G  PGD G+D  GL+ DPE      + E+++ RWAMLG +G + PE
Sbjct: 11  YLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPE 70

Query: 111 VFTKIGI-INAPQWYDAGKAEYFASSSTLFVIEFILFHYVEIRRW-QDIKNPGSVNQDPI 168
           +  + G+      W+ AG   +            ++     +  W   +   G+V    I
Sbjct: 71  LLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRI 130

Query: 169 FKQYSLPPNEVGYPGGIFNPLNFAPTDEAKE----KELANGRLAMLAFLGFIVQHNVTGK 224
                    +  YPGG F+PL  A   EA      KE+ NGRLAM +  GF VQ  VTGK
Sbjct: 131 AGGPLGEVVDPLYPGGSFDPLGLADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGK 190

Query: 225 GPFENLLQHISDPWHNTI 242
           GP ENL  H++DP +N  
Sbjct: 191 GPLENLADHLADPVNNNA 208

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query249
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_ 218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.39
>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=5.1e-58  Score=400.85  Aligned_cols=186  Identities=39%  Similarity=0.727  Sum_probs=147.0

Q ss_pred             ccccCCCCC--CCCCCCCCCCCCCCCccccCCCCChHHHHHHHHhhHhcCCchhhhhhHhhhhhhhhccCc-CCCccccc
Q 025674           49 AKGEWLPGL--ASPTYLNGSLPGDNGFDPLGLAEDPENLKWYVQAELVNSRWAMLGVVGMLLPEVFTKIGI-INAPQWYD  125 (249)
Q Consensus        49 ~~~~~~Pg~--~~p~~l~g~~pGd~gfDPlgl~~~~~~l~~~reaElkHGR~AMlA~~G~~~~e~~~~~G~-~~~p~w~~  125 (249)
                      +|++|+|..  ++|+||||++|||+|||||||++|+++++||||+|||||||||||++|++++|++++.+. ...+.|++
T Consensus         7 ~r~~~~~~~~~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~~~~~~~   86 (218)
T d1rwta_           7 DRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEAVWFK   86 (218)
T ss_dssp             TCCCTTGGGGCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSCCSHHH
T ss_pred             CCcccCCccccCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCCCCCCccccc
Confidence            689999743  589999999999999999999999999999999999999999999999999999887644 33345554


Q ss_pred             ccch-------hhcc--------chhhHHHHHHHHHHHHHHHhhhcccCCCCCCCCcccccCCCCCCCCCCCCCCCCCCC
Q 025674          126 AGKA-------EYFA--------SSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYSLPPNEVGYPGGIFNPLN  190 (249)
Q Consensus       126 a~~~-------~~~~--------~~~~l~~~qi~l~g~vE~~~~~~~~~pG~~~~~~~f~~~~~~~~e~gyPGd~FDPLg  190 (249)
                      +...       .+..        .......+++.+++.+|..+....         +.     ....+..|||++||||+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~---------~~-----~~~~~~~~~~g~fdPlg  152 (218)
T d1rwta_          87 AGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAGG---------PL-----GEVVDPLYPGGSFDPLG  152 (218)
T ss_dssp             HGGGGGSTTCBCGGGCTTSCCBCCHHHHHHHHHHHHHHHHHHHHHCB---------TT-----BCCSSSSCCCGGGCTTC
T ss_pred             ccccccCcchhhhhcCchHHHHHHHHHHHHHHHHHHhhhhhhcccCC---------Cc-----ccccCCCCCCCCccccc
Confidence            3321       1110        111122234445688888765421         11     01235568888999999


Q ss_pred             CCcc----hHHHHHHHhhhhHHHHHHHHHHHHhhccCCcchhhhhhhhcCCccccccccccC
Q 025674          191 FAPT----DEAKEKELANGRLAMLAFLGFIVQHNVTGKGPFENLLQHISDPWHNTIVQTLSG  248 (249)
Q Consensus       191 l~~~----~e~k~kELkNGRLAMlAi~G~~~Qe~vtG~gPl~~L~~hl~~P~~~ni~~~~~~  248 (249)
                      +.++    +++|+|||||||||||||+||++||++||++|++||.+|++||+|+||++.++.
T Consensus       153 ~~~~~e~~~~~k~kElkNGRLAMlAi~G~~~qe~vtG~gp~~nl~~h~~~P~~~n~~~~~~~  214 (218)
T d1rwta_         153 LADDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLADHLADPVNNNAWNFATN  214 (218)
T ss_dssp             TTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCHHHHHHHHHHCTTTSSGGGGTTS
T ss_pred             cCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhcCCCHHHHHHHHhcCchhhhHHHHHhc
Confidence            9886    467999999999999999999999999999999999999999999999987753
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure