Citrus Sinensis ID: 025421

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250---
MAAATSGAVLNGLGSSFINGGKKSQALLAGTNRVTSSKKSVVVAALPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
cHHHHHHHHHHHccccccccccccHHHHHccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccHHHHHHccEEEcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccHHccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccc
cccHHHHHHHHHHccHHccccccHHHHcccccccccccccccccccccccccccccccccccccccHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHccc
maaatsgavlnglgssfinggkKSQALlagtnrvtsskKSVVVaalppkkswipavkgggnlinpewldgslpgdygfdplglgkdpafLKWYREAELIHGRWAMAAVVGIFVGqawsgipwfeagadpgaiapfsfgslLGTQLLLMGWVeskrwvdffnpesqsvewatpwsrTAENFanatgeqgypggkffdplclagtikdgvyipdteklDRLKVAEIKHARLAMVAMLIFYFEagqgktplgalgl
maaatsgavlngLGSSFINGGKKSQALLAgtnrvtsskksvvvaalppkkswipavkGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
MAAATSGAVLNGLGSSFINGGKKSQALLAGTNRVTsskksvvvaaLPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
***************************************SVVVAALPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAG***********
*A********************************************************GGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
********VLNGLGSSFINGGKKSQALLAGTNRVTSSKKSVVVAALPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
*********************************************LPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLG*L*L
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MAAATSGAVLNGLGSSFINGGKKSQALLAGTNRVTSSKKSVVVAALPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEAGQGKTPLGALGL
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 ?
Query253 2.2.26 [Sep-21-2011]
P27525256 Chlorophyll a-b binding p N/A no 1.0 0.988 0.824 1e-118
P27524256 Chlorophyll a-b binding p N/A no 0.992 0.980 0.839 1e-117
P36494261 Chlorophyll a-b binding p N/A no 1.0 0.969 0.812 1e-109
P10708270 Chlorophyll a-b binding p N/A no 0.833 0.781 0.344 3e-29
P13869270 Chlorophyll a-b binding p N/A no 0.849 0.796 0.342 1e-27
Q07473290 Chlorophyll a-b binding p no no 0.608 0.531 0.352 3e-24
Q9XF88287 Chlorophyll a-b binding p no no 0.703 0.620 0.328 1e-23
Q9S7W1276 Chlorophyll a-b binding p no no 0.608 0.557 0.347 3e-23
Q93WD2280 Chlorophyll a-b binding p N/A no 0.640 0.578 0.343 4e-23
Q9SQL2252 Chlorophyll a-b binding p N/A no 0.830 0.833 0.331 3e-22
>sp|P27525|CB4B_SOLLC Chlorophyll a-b binding protein CP24 10B, chloroplastic OS=Solanum lycopersicum GN=CAP10B PE=3 SV=1 Back     alignment and function desciption
 Score =  423 bits (1087), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 211/256 (82%), Positives = 234/256 (91%), Gaps = 3/256 (1%)

Query: 1   MAAATSGAVLNGLGSSFINGGKKSQALLAG--TNRVTSSKK-SVVVAALPPKKSWIPAVK 57
           M   ++ AVLNGL SSF+ GGKK+QALL    T RVT+ K+  V  AA+ PKKSWIPAVK
Sbjct: 1   MTTTSATAVLNGLSSSFLTGGKKTQALLGAHVTARVTTPKRFVVAAAAVAPKKSWIPAVK 60

Query: 58  GGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAW 117
            GGNL++PEWLDGSLPGD+GFDPLGLGKDPAFLKWYREAELIHGRWAMAAV+GIFVGQAW
Sbjct: 61  SGGNLVDPEWLDGSLPGDFGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVLGIFVGQAW 120

Query: 118 SGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTA 177
           SGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFF+ +SQS++WATPWS+TA
Sbjct: 121 SGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFDNDSQSIDWATPWSKTA 180

Query: 178 ENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIF 237
           ENFAN TGEQGYPGGKFFDPL LAGT+ +GVY+PDTEKL+RLK+AEIKH+RLAM+AMLIF
Sbjct: 181 ENFANFTGEQGYPGGKFFDPLALAGTLNNGVYVPDTEKLERLKLAEIKHSRLAMLAMLIF 240

Query: 238 YFEAGQGKTPLGALGL 253
           YFEAGQGKTPLGALGL
Sbjct: 241 YFEAGQGKTPLGALGL 256

Solanum lycopersicum (taxid: 4081)
>sp|P27524|CB4A_SOLLC Chlorophyll a-b binding protein CP24 10A, chloroplastic OS=Solanum lycopersicum GN=CAP10A PE=3 SV=1 Back     alignment and function description
>sp|P36494|CB4_SPIOL Chlorophyll a-b binding protein CP24, chloroplastic OS=Spinacia oleracea 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|P13869|CB12_PETHY Chlorophyll a-b binding protein, chloroplastic OS=Petunia hybrida PE=2 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|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|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 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|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

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 ?
Query253
270308992255 light-harvesting complex II protein [Cit 0.992 0.984 0.881 1e-124
255585659256 chlorophyll A/B binding protein, putativ 0.996 0.984 0.883 1e-123
356525886261 PREDICTED: chlorophyll a-b binding prote 1.0 0.969 0.846 1e-123
224054274257 light-harvesting complex II protein Lhcb 0.992 0.976 0.878 1e-123
110377772257 chloroplast pigment-binding protein CP24 0.992 0.976 0.863 1e-122
449446427255 PREDICTED: chlorophyll a-b binding prote 0.992 0.984 0.862 1e-122
8954298258 chlorophyll a/b-binding protein CP24 pre 1.0 0.980 0.841 1e-122
224070503257 light-harvesting complex II protein Lhcb 0.992 0.976 0.847 1e-119
357445799261 Chloroplast chlorophyll a/b-binding prot 1.0 0.969 0.831 1e-119
356524850258 PREDICTED: chlorophyll a-b binding prote 1.0 0.980 0.825 1e-119
>gi|270308992|dbj|BAI52949.1| light-harvesting complex II protein [Citrullus lanatus subsp. vulgaris] Back     alignment and taxonomy information
 Score =  449 bits (1155), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 224/254 (88%), Positives = 234/254 (92%), Gaps = 3/254 (1%)

Query: 3   AATSGAVLNGLGSSFINGGKKSQALLAGTN---RVTSSKKSVVVAALPPKKSWIPAVKGG 59
           AATSG VLNGLGS F+ GG ++Q LLAG      V  S+K VVVAA  PKKSWIPAVKGG
Sbjct: 2   AATSGTVLNGLGSPFLRGGSRTQTLLAGARGGVNVVGSRKLVVVAAAQPKKSWIPAVKGG 61

Query: 60  GNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSG 119
           GNLI+PEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSG
Sbjct: 62  GNLIDPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSG 121

Query: 120 IPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAEN 179
           IPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQ+VEWATPW RTAEN
Sbjct: 122 IPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQAVEWATPWLRTAEN 181

Query: 180 FANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYF 239
           FAN TGEQGYPGGKFFDPL  AGTIKDGVYIPDTEKL+RLK+AEIKHAR+AM+AMLIFYF
Sbjct: 182 FANTTGEQGYPGGKFFDPLGFAGTIKDGVYIPDTEKLERLKLAEIKHARIAMLAMLIFYF 241

Query: 240 EAGQGKTPLGALGL 253
           EAGQGKTPLGALGL
Sbjct: 242 EAGQGKTPLGALGL 255

Source: Citrullus lanatus subsp. vulgaris

Species: Citrullus lanatus

Genus: Citrullus

Family: Cucurbitaceae

Order: Cucurbitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255585659|ref|XP_002533515.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223526625|gb|EEF28871.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356525886|ref|XP_003531552.1| PREDICTED: chlorophyll a-b binding protein CP24 10A, chloroplastic [Glycine max] Back     alignment and taxonomy information
>gi|224054274|ref|XP_002298178.1| light-harvesting complex II protein Lhcb6 [Populus trichocarpa] gi|118486723|gb|ABK95197.1| unknown [Populus trichocarpa] gi|222845436|gb|EEE82983.1| light-harvesting complex II protein Lhcb6 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|110377772|gb|ABG73416.1| chloroplast pigment-binding protein CP24 [Nicotiana tabacum] Back     alignment and taxonomy information
>gi|449446427|ref|XP_004140973.1| PREDICTED: chlorophyll a-b binding protein CP24 10A, chloroplastic-like [Cucumis sativus] gi|449497079|ref|XP_004160305.1| PREDICTED: chlorophyll a-b binding protein CP24 10A, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|8954298|gb|AAD27882.2|AF139470_1 chlorophyll a/b-binding protein CP24 precursor [Vigna radiata] Back     alignment and taxonomy information
>gi|224070503|ref|XP_002303160.1| light-harvesting complex II protein Lhcb6 [Populus trichocarpa] gi|118487218|gb|ABK95437.1| unknown [Populus trichocarpa] gi|118489807|gb|ABK96703.1| unknown [Populus trichocarpa x Populus deltoides] gi|222840592|gb|EEE78139.1| light-harvesting complex II protein Lhcb6 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|357445799|ref|XP_003593177.1| Chloroplast chlorophyll a/b-binding protein CP24 [Medicago truncatula] gi|355482225|gb|AES63428.1| Chloroplast chlorophyll a/b-binding protein CP24 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356524850|ref|XP_003531041.1| PREDICTED: chlorophyll a-b binding protein CP24 10A, chloroplastic-like isoform 1 [Glycine max] gi|356524852|ref|XP_003531042.1| PREDICTED: chlorophyll a-b binding protein CP24 10A, chloroplastic-like isoform 2 [Glycine max] 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 ?
Query253
TAIR|locus:2036209258 LHCB6 "light harvesting comple 1.0 0.980 0.794 8.7e-111
TAIR|locus:2202150270 Lhca6 "photosystem I light har 0.695 0.651 0.415 2e-31
TAIR|locus:2825741256 Lhca5 "photosystem I light har 0.723 0.714 0.419 3.4e-29
TAIR|locus:2082767257 LHCA2 "photosystem I light har 0.830 0.817 0.364 5e-28
TAIR|locus:2079117251 LHCA4 "light-harvesting chloro 0.549 0.553 0.397 1.5e-26
TAIR|locus:2047751276 LHCB4.3 "light harvesting comp 0.209 0.192 0.562 8.8e-25
TAIR|locus:2082717241 LHCA1 "photosystem I light har 0.395 0.414 0.455 1e-23
UNIPROTKB|Q93WD2280 Lhcb4 "Chlorophyll a-b binding 0.284 0.257 0.412 1.2e-23
TAIR|locus:2149765290 LHCB4.1 "light harvesting comp 0.201 0.175 0.573 4.1e-17
TAIR|locus:2162540265 LHCB3 "light-harvesting chloro 0.245 0.233 0.472 1.2e-16
TAIR|locus:2036209 LHCB6 "light harvesting complex photosystem II subunit 6" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1094 (390.2 bits), Expect = 8.7e-111, P = 8.7e-111
 Identities = 205/258 (79%), Positives = 221/258 (85%)

Query:     1 MAAATSGAVLNGLGSSFINGGKKSQALLA-----GTNRVTXXXXXXXXXXLPPKKSWIPA 55
             MA A SGAVL+GLGSSF+ GGK+    LA     G  RV             PKKSWIPA
Sbjct:     1 MAMAVSGAVLSGLGSSFLTGGKRGATALASGVGTGAQRVGRKTLIVAAAAAQPKKSWIPA 60

Query:    56 VKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQ 115
             VKGGGN ++PEWLDGSLPGD+GFDPLGLGKDPAFLKWYREAELIHGRWAMAAV+GIFVGQ
Sbjct:    61 VKGGGNFLDPEWLDGSLPGDFGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVLGIFVGQ 120

Query:   116 AWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSR 175
             AWSG+ WFEAGA P AIAPFSFGSLLGTQLLLMGWVESKRWVDFFNP+SQSVEWATPWS+
Sbjct:   121 AWSGVAWFEAGAQPDAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPDSQSVEWATPWSK 180

Query:   176 TAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAML 235
             TAENFAN TG+QGYPGG+FFDPL LAG  +DGVY PD EKL+RLK+AEIKH+RLAMVAML
Sbjct:   181 TAENFANYTGDQGYPGGRFFDPLGLAGKNRDGVYEPDFEKLERLKLAEIKHSRLAMVAML 240

Query:   236 IFYFEAGQGKTPLGALGL 253
             IFYFEAGQGKTPLGALGL
Sbjct:   241 IFYFEAGQGKTPLGALGL 258
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0009765 "photosynthesis, light harvesting" evidence=IEA
GO:0016020 "membrane" evidence=IEA;IDA
GO:0016168 "chlorophyll binding" evidence=ISS
GO:0015979 "photosynthesis" evidence=IMP;NAS
GO:0009783 "photosystem II antenna complex" evidence=NAS
GO:0009941 "chloroplast envelope" evidence=IDA
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0010287 "plastoglobule" evidence=IDA
GO:0009579 "thylakoid" evidence=IDA
GO:0010196 "nonphotochemical quenching" evidence=IMP
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0006816 "calcium ion transport" evidence=RCA
GO:0007030 "Golgi organization" evidence=RCA
GO:0009651 "response to salt stress" evidence=RCA
GO:0019344 "cysteine biosynthetic process" evidence=RCA
GO:0019684 "photosynthesis, light reaction" evidence=RCA
GO:0035304 "regulation of protein dephosphorylation" evidence=RCA
TAIR|locus:2202150 Lhca6 "photosystem I light harvesting complex gene 6" [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:2082767 LHCA2 "photosystem I light harvesting complex gene 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2079117 LHCA4 "light-harvesting chlorophyll-protein complex I subunit A4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2047751 LHCB4.3 "light harvesting complex photosystem II" [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|Q93WD2 Lhcb4 "Chlorophyll a-b binding protein CP29" [Chlamydomonas reinhardtii (taxid:3055)] Back     alignment and assigned GO terms
TAIR|locus:2149765 LHCB4.1 "light harvesting complex photosystem II" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2162540 LHCB3 "light-harvesting chlorophyll 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) ?
P36494CB4_SPIOLNo assigned EC number0.81221.00.9693N/Ano
P27524CB4A_SOLLCNo assigned EC number0.83920.99200.9804N/Ano
P27525CB4B_SOLLCNo assigned EC number0.82421.00.9882N/Ano

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 ?
Query253
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 1e-164
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 4e-46
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 1e-42
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 6e-38
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 3e-37
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 6e-29
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 3e-28
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 5e-28
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 9e-28
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 3e-23
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 4e-23
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 2e-20
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 4e-12
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 4e-11
PLN00120 202 PLN00120, PLN00120, fucoxanthin-chlorophyll a-c bi 1e-05
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 2e-04
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 0.003
>gnl|CDD|215087 PLN00170, PLN00170, photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information 
 Score =  453 bits (1167), Expect = e-164
 Identities = 227/255 (89%), Positives = 237/255 (92%), Gaps = 2/255 (0%)

Query: 1   MAAATSGAVLNGLGSSFINGGKKSQALLAGTN--RVTSSKKSVVVAALPPKKSWIPAVKG 58
            AAATSGAVLNGLGSSF+ GGK+S ALL GT   +V +    VV AA  PKKSWIPAVKG
Sbjct: 1   SAAATSGAVLNGLGSSFLTGGKRSLALLVGTGAAKVGARTLLVVAAAAQPKKSWIPAVKG 60

Query: 59  GGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWS 118
           GGNL++PEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWS
Sbjct: 61  GGNLVDPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWS 120

Query: 119 GIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAE 178
           GIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNP+SQSVEWATPWSRTAE
Sbjct: 121 GIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPDSQSVEWATPWSRTAE 180

Query: 179 NFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFY 238
           NFANATG QGYPGGKFFDPL LAGT+KDGVYIPD EKL+RLK+AEIKHARLAMVAMLIFY
Sbjct: 181 NFANATGLQGYPGGKFFDPLGLAGTVKDGVYIPDFEKLERLKLAEIKHARLAMVAMLIFY 240

Query: 239 FEAGQGKTPLGALGL 253
           FEAGQGKTPLGALGL
Sbjct: 241 FEAGQGKTPLGALGL 255

Length = 255
>gnl|CDD|215076 PLN00147, PLN00147, light-harvesting complex I chlorophyll-a/b binding protein Lhca5; 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|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|165670 PLN00097, PLN00097, photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>gnl|CDD|177680 PLN00048, PLN00048, photosystem I light harvesting chlorophyll a/b binding protein 3; 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|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|215088 PLN00171, PLN00171, photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein Back     alignment and domain information
>gnl|CDD|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|177710 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c binding protein; 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

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 253
PLN00170255 photosystem II light-harvesting-Chl-binding protei 100.0
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 100.0
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 100.0
PLN00101250 Photosystem I light-harvesting complex type 4 prot 100.0
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 100.0
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00171324 photosystem light-harvesting complex -chlorophyll 100.0
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 100.0
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 100.0
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 100.0
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.54
PLN00101 250 Photosystem I light-harvesting complex type 4 prot 99.51
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.51
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.5
PLN00098 267 light-harvesting complex I chlorophyll a/b-binding 99.48
PLN00170 255 photosystem II light-harvesting-Chl-binding protei 99.48
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.44
PLN00187286 photosystem II light-harvesting complex II protein 99.42
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.41
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.38
PLN00100 246 light-harvesting complex chlorophyll-a/b protein o 99.35
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.33
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.33
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.21
PHA0233735 putative high light inducible protein 97.67
PHA0233735 putative high light inducible protein 97.67
PLN00084214 photosystem II subunit S (PsbS); Provisional 97.66
PLN00014250 light-harvesting-like protein 3; Provisional 96.76
PLN00014250 light-harvesting-like protein 3; Provisional 96.33
PLN00084214 photosystem II subunit S (PsbS); Provisional 94.11
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information 
Probab=100.00  E-value=4e-74  Score=514.09  Aligned_cols=253  Identities=89%  Similarity=1.478  Sum_probs=229.7

Q ss_pred             CcccchhhhhcccCccccCCCcchhhhhhcCcc-ccccCcceeE-ecCCCCcCCCCcccCCCCCCCCCcCCCCCCCCcCc
Q 025421            1 MAAATSGAVLNGLGSSFINGGKKSQALLAGTNR-VTSSKKSVVV-AALPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGF   78 (253)
Q Consensus         1 ma~~~~~~~l~g~~s~f~~g~~~~~~~~~~~~~-~~~~r~~~~v-~~aa~~~~w~~~~~~~G~~~~p~~l~g~~pgd~gf   78 (253)
                      ||||+|+|+|++++|+|++|++|+.+...+..+ .+++|+..++ +++++|++|+|..++++++.+|+||||++|||+||
T Consensus         1 ma~s~s~a~~~~~~ssf~~g~~~~~~~~~~~~~~~~~~~~~~v~~~a~~~~k~w~p~~~~~~~~~~P~~l~g~~PGd~GF   80 (255)
T PLN00170          1 SAAATSGAVLNGLGSSFLTGGKRSLALLVGTGAAKVGARTLLVVAAAAQPKKSWIPAVKGGGNLVDPEWLDGSLPGDYGF   80 (255)
T ss_pred             CchhhhHHHHhhccCcccccchhhhcccccccccccccceeEEEEeccCCCccccCCCCCCcccCCcccccccCCCCCCc
Confidence            999999999999999999999888655433323 3444444333 35578999999999999999999999999999999


Q ss_pred             cCCCCCCCHHHHHHHHHHHHhhcchhHhHHHHHHhhhhccCCCCcCCCCCCCCCCccchhhHHHHHHHHHHHHHHhhhhc
Q 025421           79 DPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVD  158 (253)
Q Consensus        79 DPlgl~~~~~~~~~~r~aEl~hGR~AMla~~G~~~~e~~~g~pw~~ag~~~~~~~~~~~~~l~~~ql~~~G~vE~~r~~~  158 (253)
                      ||+||++|+++++|||++||+||||||||++|++++|++++.+||++|..+..+.++++.+++++|+++||++|.+||.+
T Consensus        81 DPlgl~~d~e~~~~~r~~El~hGR~AMLa~~G~~v~e~l~g~~w~~aG~~~~~~~p~~~~~l~~~q~~lmg~~E~~R~~~  160 (255)
T PLN00170         81 DPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVD  160 (255)
T ss_pred             CccccCCCHHHHHHHHHHHhhccHHHHHHHHhhhhHHHccCCChhhCCccccccCccchHHHHHHHHHHhhhhhheeecc
Confidence            99999999999999999999999999999999999999999999999987766677777889999999999999999999


Q ss_pred             ccCCCccccccccccccccccccccCCCCCCCCCCCccccccccccCCCCCCCCHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 025421          159 FFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFY  238 (253)
Q Consensus       159 ~~~p~~~~~~~~~~~~~~~~~~~~~~g~~~yPG~~~FDPLgl~~~~~~~~~~~d~~~~~~~k~kEIkNGRLAMlA~~Gf~  238 (253)
                      +++|++++++|.+||+...++|.+.+++.+|||+.+||||||+++..+++|.+|+++++++|+||||||||||+|++||+
T Consensus       161 ~~~P~~~~~~~~~p~~~~~~~f~~~~g~~~yPGG~~FDPLGl~~~~~~~~~~~d~~~~~~lk~kEIKnGRLAMlA~lGf~  240 (255)
T PLN00170        161 FFNPDSQSVEWATPWSRTAENFANATGLQGYPGGKFFDPLGLAGTVKDGVYIPDFEKLERLKLAEIKHARLAMVAMLIFY  240 (255)
T ss_pred             ccCCcccccccccccccccccccccCCCcccCCCcccCccccccccccccccCCHHHHHHHHHHHHhhhHHHHHHHHhHh
Confidence            99999999999999998888999888999999998899999997667788888999999999999999999999999999


Q ss_pred             HhccCCCCCCccCCC
Q 025421          239 FEAGQGKTPLGALGL  253 (253)
Q Consensus       239 ~q~~tG~~Pl~~l~~  253 (253)
                      +|+.||++||+||+|
T Consensus       241 ~Qa~~g~~p~~~l~~  255 (255)
T PLN00170        241 FEAGQGKTPLGALGL  255 (255)
T ss_pred             eeeccCCCchhhhcC
Confidence            999999999999997

>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
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; 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
>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
>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
>PF00504 Chloroa_b-bind: Chlorophyll A-B binding protein; InterPro: IPR022796 The light-harvesting complex (LHC) consists of chlorophylls A and B and the chlorophyll A-B binding protein Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00089 fucoxanthin-chlorophyll a/c binding protein; Provisional Back     alignment and domain information
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional Back     alignment and domain information
>PLN00098 light-harvesting complex I chlorophyll a/b-binding protein (Lhac); 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
>PLN00187 photosystem II light-harvesting complex II protein Lhcb4; Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); 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
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PHA02337 putative high light inducible protein 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
>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 ?
Query253
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 5e-27
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 9e-27
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 1e-21
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 2e-21
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 3e-21
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 3e-21
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 8e-20
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 2e-18
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 1e-15
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 2e-15
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 3e-15
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 3e-15
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 2e-12
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 5e-12
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 7e-12
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 3e-10
>pdb|2WSC|2 Chain 2, Improved Model Of Plant Photosystem I Length = 269 Back     alignment and structure 
Iteration: 1

 Score =  117 bits (294), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 79/236 (33%), Positives = 111/236 (47%), Gaps = 30/236 (12%)
Query: 11  NGLGSSFINGGKKSQALLAGTNRVTXXXXXXXXXXLPPKKSWIPAVKGGGNLINPEWLDG 70
           +G   +F+    K  +  A  +RV            P +  W P          P WLDG
Sbjct: 27  SGTSKAFLGRKLKVNSSTASPSRVRSTSTVCTVAE-PDRPLWFPGS------TPPPWLDG 79
Query: 71  SLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGI------PWFE 124
           SLPGD+GFDPLGLG DP  L+W  +AEL+H RWAM    GIF+ +  + +       W+ 
Sbjct: 80  SLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYT 139
Query: 125 AGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANAT 184
           AG            +L   +L+ +GW E +RW D  NP   + +   P      N     
Sbjct: 140 AGEQEYFT---DTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFP------NNKLTG 190
Query: 185 GEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFE 240
            + GYPGG +FDPL        G      +KL  L+  EIK+ RLAM+A++  +F+
Sbjct: 191 TDVGYPGGLWFDPL--------GWGSASPQKLKELRTKEIKNGRLAMLAVMGAWFQ 238
>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|3PL9|A Chain A, Crystal Structure Of Spinach Minor Light-Harvesting Complex Cp29 At 2.80 Angstrom Resolution Length = 243 Back     alignment and structure
>pdb|2WSC|1 Chain 1, Improved Model Of Plant Photosystem I Length = 241 Back     alignment and structure
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure
>pdb|2O01|1 Chain 1, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 187 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 Back     alignment and structure
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 Back     alignment and structure
>pdb|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|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 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|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|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 ?
Query253
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 2e-37
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 4e-37
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 4e-35
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 4e-34
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 3e-30
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 1e-24
>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
 Score =  131 bits (330), Expect = 2e-37
 Identities = 75/264 (28%), Positives = 115/264 (43%), Gaps = 27/264 (10%)

Query: 1   MAAATSGAVLNGLGSSFINGGKKSQALLAGTNRV-------TSSKKSVVVAALPPKKSWI 53
           MA+A + + +  +  S  +  K           +       +S+     V +     +  
Sbjct: 1   MASACASSAIAAVAISTPSSQKNGSPSGTSKAFLGRKLKVNSSTASPSRVRSTSTVCTVA 60

Query: 54  PA--VKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGI 111
                        P WLDGSLPGD+GFDPLGLG DP  L+W  +AEL+H RWAM    GI
Sbjct: 61  EPDRPLWFPGSTPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGI 120

Query: 112 FVGQAWSGIPWFEAGA---DPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVE 168
           F+ +  + +      +              +L   +L+ +GW E +RW D  NP   + +
Sbjct: 121 FIPEFLTKLGILNTPSWYTAGEQEYFTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTD 180

Query: 169 WATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHAR 228
              P ++          + GYPGG +FDPL               +KL  L+  EIK+ R
Sbjct: 181 PIFPNNK------LTGTDVGYPGGLWFDPLGWGS--------ASPQKLKELRTKEIKNGR 226

Query: 229 LAMVAMLIFYFEAG-QGKTPLGAL 251
           LAM+A++  +F+    G  P+  L
Sbjct: 227 LAMLAVMGAWFQHIYTGTGPIDNL 250
>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
>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_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Length = 241 Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Length = 243 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query253
2wsc_2269 LHCA2, 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_3276 LHCA3, type II chlorophyll A/B binding protein fro 100.0
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 100.0
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.43
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.38
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.38
2wsc_4 251 Chlorophyll A-B binding protein P4, chloroplastic; 99.3
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.28
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.21
>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
Probab=100.00  E-value=2.2e-52  Score=376.73  Aligned_cols=184  Identities=40%  Similarity=0.816  Sum_probs=121.8

Q ss_pred             CCCCcCCCCcccCCCCCCCCCcCCCCCCCCcCccCCCCCCCHHHHHHHHHHHHhhcchhHhHHHHHHhhhhccCC-----
Q 025421           46 LPPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGI-----  120 (253)
Q Consensus        46 aa~~~~w~~~~~~~G~~~~p~~l~g~~pgd~gfDPlgl~~~~~~~~~~r~aEl~hGR~AMla~~G~~~~e~~~g~-----  120 (253)
                      .++|+.|+|+.      .+|.||||++|||+||||+||++|||+++|||++|||||||||||++|++++|++++.     
T Consensus        61 ~~~r~~wlpg~------~~P~~L~G~~pGD~GfDPlGL~~d~e~~~~~r~aElkHGR~AMLA~~G~l~~E~l~~~G~~~~  134 (269)
T 2wsc_2           61 EPDRPLWFPGS------TPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNT  134 (269)
T ss_dssp             ---------------------------------------CCCSCCTTTHHHHHHTHHHHTTTTHHHHHHHHHCCTTSSSC
T ss_pred             CCCcccccCCC------CCcccccCcCCCCCCCCccccCCCHHHHHHHHHHHHhcchHHHHHHHHhHhHHhhccCCcccC
Confidence            36899999976      4899999999999999999999999999999999999999999999999999998632     


Q ss_pred             -CCcCCCCCCCCCCccchhhHHHHHHHHHHHHHHhhhhcccCCCccccccccccccccccccccCCCCCCCCCCCccccc
Q 025421          121 -PWFEAGADPGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLC  199 (253)
Q Consensus       121 -pw~~ag~~~~~~~~~~~~~l~~~ql~~~G~vE~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~g~~~yPG~~~FDPLg  199 (253)
                       .|++++...+..   ...+++++|+++||++|++|+.++.+|++++.+...      ++.....++.+||||++|||||
T Consensus       135 p~w~~aG~~~~~~---~~~~l~~~qi~liG~~E~~r~~~~~~pG~~g~~p~f------~~~~~~~~d~~~PG~~~fDPlg  205 (269)
T 2wsc_2          135 PSWYTAGEQEYFT---DTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIF------PNNKLTGTDVGYPGGLWFDPLG  205 (269)
T ss_dssp             CCCCSTTSSSSCC---CTTSHHHHHTTHHHHHHHHHHTTSSCCCCCSSSCCS------SSCCSSTTSCSCTTCSSCCCSS
T ss_pred             ccccccchhhhhc---chHHHHHHHHHHHHHHHHHHHhccccCCcccccccc------ccccccccccCCCCCcccCccc
Confidence             377766432211   123456789999999999999998888876543211      1111223567899999999999


Q ss_pred             cccccCCCCCCCCHHHHHHHHHHHHhhhHHHHHHHHHHHHhc-cCCCCCCccCC
Q 025421          200 LAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEA-GQGKTPLGALG  252 (253)
Q Consensus       200 l~~~~~~~~~~~d~~~~~~~k~kEIkNGRLAMlA~~Gf~~q~-~tG~~Pl~~l~  252 (253)
                      |.+        .|+++++++|++||||||||||||+|+++|+ +||++||+||.
T Consensus       206 l~~--------~~~e~~~~~~~~Ei~nGRlAMla~~g~~~~~~~tg~g~l~~l~  251 (269)
T 2wsc_2          206 WGS--------ASPQKLKELRTKEIKNGRLAMLAVMGAWFQHIYTGTGPIDNLF  251 (269)
T ss_dssp             SSS--------SCCCSCTTSTTTTHHHHHHHHTTTSSSCHHHHHTTTCSSCCCS
T ss_pred             cCc--------ccHHHHHHHHHhhcccchHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            974        4778899999999999999999999999998 79999999985
>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_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Back     alignment and structure
>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_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Back     alignment and structure
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Back     alignment and structure

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 253
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 7e-37
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 6e-05
>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 =  127 bits (320), Expect = 7e-37
 Identities = 63/216 (29%), Positives = 84/216 (38%), Gaps = 36/216 (16%)

Query: 47  PPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMA 106
           P +  ++    G     +P +L G  PGDYG+D  GL  DP      RE E+IH RWAM 
Sbjct: 6   PDRVKYLGPFSGE----SPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAML 61

Query: 107 AVVGIFV-------GQAWSGIPWFEAGA---DPGAIAPFSFGSLLGTQLLLMGWVESKRW 156
             +G          G  +    WF+AG+     G +      SL+  Q +L  W      
Sbjct: 62  GALGCVFPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVIL 121

Query: 157 VDFFNPESQSVEWATPWSRTAENFANATGEQGYPGGKFFDPLCLAGTIKDGVYIPDTEKL 216
           +                              G P G+  DPL   G+        D E  
Sbjct: 122 MG---------------------AVEGYRIAGGPLGEVVDPLYPGGSFDPLGLADDPEAF 160

Query: 217 DRLKVAEIKHARLAMVAMLIFYFEAG-QGKTPLGAL 251
             LKV EIK+ RLAM +M  F+ +A   GK PL  L
Sbjct: 161 AELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENL 196
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 218 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query253
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_ 218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.42
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure
class: Membrane and cell surface proteins and peptides
fold: Chlorophyll a-b binding protein
superfamily: Chlorophyll a-b binding protein
family: Chlorophyll a-b binding protein
domain: Chlorophyll a-b binding protein
species: Spinach (Spinacia oleracea) [TaxId: 3562]

Probab=100.00  E-value=5e-49  Score=343.94  Aligned_cols=172  Identities=38%  Similarity=0.622  Sum_probs=131.4

Q ss_pred             CCCcCCCCcccCCCCCCCCCcCCCCCCCCcCccCCCCCCCHHHHHHHHHHHHhhcchhHhHHHHHHhhhhccCCCC----
Q 025421           47 PPKKSWIPAVKGGGNLINPEWLDGSLPGDYGFDPLGLGKDPAFLKWYREAELIHGRWAMAAVVGIFVGQAWSGIPW----  122 (253)
Q Consensus        47 a~~~~w~~~~~~~G~~~~p~~l~g~~pgd~gfDPlgl~~~~~~~~~~r~aEl~hGR~AMla~~G~~~~e~~~g~pw----  122 (253)
                      .+|+.|+|...    ...|+||||++|||+|||||||++|+++++|+||+|||||||||||++|++++|+++..++    
T Consensus         6 ~~r~~~~~~~~----~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~~   81 (218)
T d1rwta_           6 PDRVKYLGPFS----GESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGE   81 (218)
T ss_dssp             TTCCCTTGGGG----CSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSC
T ss_pred             CCCcccCCccc----cCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCCCCCC
Confidence            57888997521    1379999999999999999999999999999999999999999999999999998764432    


Q ss_pred             ---cCCCCC------------CCCCCccchhhHHHHHHHHHHHHHHhhhhcccCCCccccccccccccccccccccCCCC
Q 025421          123 ---FEAGAD------------PGAIAPFSFGSLLGTQLLLMGWVESKRWVDFFNPESQSVEWATPWSRTAENFANATGEQ  187 (253)
Q Consensus       123 ---~~ag~~------------~~~~~~~~~~~l~~~ql~~~G~vE~~r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~g~~  187 (253)
                         +++...            +...........+.+++.+++.+|..|...  +                  ......+.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~--~------------------~~~~~~~~  141 (218)
T d1rwta_          82 AVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAG--G------------------PLGEVVDP  141 (218)
T ss_dssp             CSHHHHGGGGGSTTCBCGGGCTTSCCBCCHHHHHHHHHHHHHHHHHHHHHC--B------------------TTBCCSSS
T ss_pred             cccccccccccCcchhhhhcCchHHHHHHHHHHHHHHHHHHhhhhhhcccC--C------------------CcccccCC
Confidence               221110            000001111223345677888899877532  0                  01112356


Q ss_pred             CCCCCCCccccccccccCCCCCCCCHHHHHHHHHHHHhhhHHHHHHHHHHHHhc-cCCCCCCccCC
Q 025421          188 GYPGGKFFDPLCLAGTIKDGVYIPDTEKLDRLKVAEIKHARLAMVAMLIFYFEA-GQGKTPLGALG  252 (253)
Q Consensus       188 ~yPG~~~FDPLgl~~~~~~~~~~~d~~~~~~~k~kEIkNGRLAMlA~~Gf~~q~-~tG~~Pl~~l~  252 (253)
                      .|||+ +|||+++.         +|+++++++|+|||||||||||||+||++|+ +||++||+||.
T Consensus       142 ~~~~g-~fdPlg~~---------~~~e~~~~~k~kElkNGRLAMlAi~G~~~qe~vtG~gp~~nl~  197 (218)
T d1rwta_         142 LYPGG-SFDPLGLA---------DDPEAFAELKVKEIKNGRLAMFSMFGFFVQAIVTGKGPLENLA  197 (218)
T ss_dssp             SCCCG-GGCTTCTT---------CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSCHHHHHH
T ss_pred             CCCCC-CccccccC---------CCHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhcCCCHHHHHH
Confidence            78877 59999996         4899999999999999999999999999999 89999999973
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure