Citrus Sinensis ID: 027238

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------
MAVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC
cHHHHcHHHHccccccHHHHHHHHcccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHcccccHHHHccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccc
ccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEcccccccHccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccEEEEEc
mavavgrgfllqpsssssficndvnkssigitsaflpaksgttRRYLATVVRAqqrptwlpgvdpppyldgtlagdfgfdplglgedpesLRWYVQAELVHARFAMAGVAGILFTDLlrvtgirelpvwyeagavefkfaSTRTLFIVQLLLMGFAETkrymdyispgsqtkegsfFGLEAALeglepgypggpllnplglAKDIRNAREWKLKEIKNgliclvlc
mavavgrgfllqpsssssfICNDVNKSSIGItsaflpaksgttRRYLATVVraqqrptwlpgvDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLkeikngliclvlc
MAVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAAleglepgypggpllnplglAKDIRNAREWKLKEIKNGLICLVLC
******************FICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVL*
************************************************************PGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC
MAVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC
**************************************************VRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MAVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC
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 ?
Query226 2.2.26 [Sep-21-2011]
P10708270 Chlorophyll a-b binding p N/A no 0.792 0.662 0.497 1e-40
P13869270 Chlorophyll a-b binding p N/A no 0.814 0.681 0.452 2e-39
Q9SQL2252 Chlorophyll a-b binding p N/A no 0.827 0.742 0.424 3e-35
P27521251 Chlorophyll a-b binding p no no 0.716 0.645 0.452 6e-35
Q32904275 Chlorophyll a-b binding p N/A no 0.911 0.749 0.372 3e-31
P27522273 Chlorophyll a-b binding p N/A no 0.765 0.633 0.410 3e-31
Q36718231 Chlorophyll a-b binding p N/A no 0.787 0.770 0.409 2e-28
P27525256 Chlorophyll a-b binding p N/A no 0.858 0.757 0.367 6e-27
P27524256 Chlorophyll a-b binding p N/A no 0.893 0.789 0.369 1e-26
P36494261 Chlorophyll a-b binding p N/A no 0.792 0.685 0.398 5e-23
>sp|P10708|CB12_SOLLC Chlorophyll a-b binding protein 7, chloroplastic OS=Solanum lycopersicum GN=CAB7 PE=3 SV=1 Back     alignment and function desciption
 Score =  166 bits (420), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 92/185 (49%), Positives = 111/185 (60%), Gaps = 6/185 (3%)

Query: 43  TRRYLATVVRAQQ--RPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELV 100
           T R   TV  A    RP W PG  PPP+LDG+L GDFGFDPLGL  DPESLRW  QAELV
Sbjct: 50  TARSATTVCVAADPDRPLWFPGSTPPPWLDGSLPGDFGFDPLGLASDPESLRWNQQAELV 109

Query: 101 HARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKR 160
           H R+AM G AGI   +LL   GI   P WY AG  E+ F  T TLFIV+L+L+G+AE +R
Sbjct: 110 HCRWAMLGAAGIFIPELLTKIGILNTPSWYTAGEQEY-FTDTTTLFIVELVLIGWAEGRR 168

Query: 161 YMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAK-DIRNAREWKLKEIKNG 219
           + D I PG    +  F      L G + GYPGG   +PLG         +E + KEIKNG
Sbjct: 169 WADIIKPGCVNTDPIF--PNNKLTGTDVGYPGGLWFDPLGWGSGSPAKIKELRTKEIKNG 226

Query: 220 LICLV 224
            + ++
Sbjct: 227 RLAML 231
The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated.
Solanum lycopersicum (taxid: 4081)
>sp|P13869|CB12_PETHY Chlorophyll a-b binding protein, chloroplastic OS=Petunia hybrida PE=2 SV=1 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
>sp|P27521|CA4_ARATH Chlorophyll a-b binding protein 4, chloroplastic OS=Arabidopsis thaliana GN=LHCA4 PE=1 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|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|P27525|CB4B_SOLLC Chlorophyll a-b binding protein CP24 10B, chloroplastic OS=Solanum lycopersicum GN=CAP10B PE=3 SV=1 Back     alignment and function description
>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

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 ?
Query226
224137478266 light-harvesting complex I protein Lhca5 0.986 0.838 0.787 1e-96
225458605264 PREDICTED: chlorophyll a-b binding prote 0.991 0.848 0.758 7e-96
255538312269 chlorophyll A/B binding protein, putativ 0.991 0.832 0.745 3e-93
356519222263 PREDICTED: chlorophyll a-b binding prote 0.982 0.844 0.705 2e-86
124388816272 Lhca5 protein [Gentiana lutea] 0.911 0.757 0.751 2e-86
388518909266 unknown [Lotus japonicus] 0.982 0.834 0.704 5e-83
449466336259 PREDICTED: chlorophyll a-b binding prote 0.911 0.795 0.696 2e-81
297846882256 light-harvesting complex protein [Arabid 0.853 0.753 0.738 2e-81
357465507267 Chlorophyll a-b binding protein [Medicag 0.969 0.820 0.677 3e-81
21593722256 light-harvesting complex protein [Arabid 0.862 0.761 0.725 2e-80
>gi|224137478|ref|XP_002327136.1| light-harvesting complex I protein Lhca5 [Populus trichocarpa] gi|222835451|gb|EEE73886.1| light-harvesting complex I protein Lhca5 [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  358 bits (918), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 178/226 (78%), Positives = 197/226 (87%), Gaps = 3/226 (1%)

Query: 1   MAVAVGRGFLLQPSSSSSFIC--NDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPT 58
           MAVA+GR F++QP  SSS      ++NKSS G    FLPAK  +TR     VV AQQRPT
Sbjct: 1   MAVAMGRPFVIQPCLSSSLCSLSKNINKSSFGAAETFLPAKPSSTR-CTPVVVHAQQRPT 59

Query: 59  WLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLL 118
           WLPG+DPPPYLDGTLAGDFGFDPLGLGEDP+SL+WYVQAELVHARFAMAGVAGILFTDLL
Sbjct: 60  WLPGLDPPPYLDGTLAGDFGFDPLGLGEDPQSLKWYVQAELVHARFAMAGVAGILFTDLL 119

Query: 119 RVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFG 178
           RVTGIR+LPVWYEAGAV+F+FASTRTL +VQLLLMGFAETKRYMD++SPGSQ KEGSFFG
Sbjct: 120 RVTGIRKLPVWYEAGAVKFEFASTRTLIVVQLLLMGFAETKRYMDFVSPGSQAKEGSFFG 179

Query: 179 LEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLV 224
           LE+ALEGLEPGYPGGPLLNPLGLA+DI NA  WKLKEIKNG + +V
Sbjct: 180 LESALEGLEPGYPGGPLLNPLGLARDIENAHVWKLKEIKNGRLAMV 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225458605|ref|XP_002284724.1| PREDICTED: chlorophyll a-b binding protein 4, chloroplastic [Vitis vinifera] gi|302142320|emb|CBI19523.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255538312|ref|XP_002510221.1| chlorophyll A/B binding protein, putative [Ricinus communis] gi|223550922|gb|EEF52408.1| chlorophyll A/B binding protein, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|356519222|ref|XP_003528272.1| PREDICTED: chlorophyll a-b binding protein 7, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|124388816|gb|ABN10530.1| Lhca5 protein [Gentiana lutea] Back     alignment and taxonomy information
>gi|388518909|gb|AFK47516.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|449466336|ref|XP_004150882.1| PREDICTED: chlorophyll a-b binding protein 4, chloroplastic-like [Cucumis sativus] gi|449522610|ref|XP_004168319.1| PREDICTED: chlorophyll a-b binding protein 4, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297846882|ref|XP_002891322.1| light-harvesting complex protein [Arabidopsis lyrata subsp. lyrata] gi|297337164|gb|EFH67581.1| light-harvesting complex protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|357465507|ref|XP_003603038.1| Chlorophyll a-b binding protein [Medicago truncatula] gi|355492086|gb|AES73289.1| Chlorophyll a-b binding protein [Medicago truncatula] Back     alignment and taxonomy information
>gi|21593722|gb|AAM65689.1| light-harvesting complex protein [Arabidopsis thaliana] 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 ?
Query226
TAIR|locus:2825741256 Lhca5 "photosystem I light har 0.761 0.671 0.710 1.2e-63
TAIR|locus:2202150270 Lhca6 "photosystem I light har 0.5 0.418 0.543 1.5e-33
TAIR|locus:2082767257 LHCA2 "photosystem I light har 0.738 0.649 0.426 6e-32
TAIR|locus:2079117251 LHCA4 "light-harvesting chloro 0.592 0.533 0.463 7.9e-30
TAIR|locus:2036209258 LHCB6 "light harvesting comple 0.725 0.635 0.395 3.3e-24
TAIR|locus:2200868273 LHCA3 "photosystem I light har 0.809 0.670 0.348 8.7e-24
TAIR|locus:2122794280 LHCB5 "light harvesting comple 0.309 0.25 0.458 5.2e-16
TAIR|locus:2082717241 LHCA1 "photosystem I light har 0.685 0.643 0.318 7.7e-16
TAIR|locus:2011691327 AT1G76570 [Arabidopsis thalian 0.353 0.244 0.404 2e-14
UNIPROTKB|P12331261 CAB2R "Chlorophyll a-b binding 0.327 0.283 0.4 3.2e-14
TAIR|locus:2825741 Lhca5 "photosystem I light harvesting complex gene 5" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 649 (233.5 bits), Expect = 1.2e-63, P = 1.2e-63
 Identities = 123/173 (71%), Positives = 140/173 (80%)

Query:    53 AQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGI 112
             A +R TWLPG++PPPYLDG LAGD+GFDPLGLGEDPESL+WYVQAELVH+RFAM GVAGI
Sbjct:    43 AVERATWLPGLNPPPYLDGNLAGDYGFDPLGLGEDPESLKWYVQAELVHSRFAMLGVAGI 102

Query:   113 LFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTK 172
             LFTDLLR TGIR LPVWYEAGAV+F FAST+TL +VQ LLMGFAETKRYMD++SPGSQ K
Sbjct:   103 LFTDLLRTTGIRNLPVWYEAGAVKFDFASTKTLIVVQFLLMGFAETKRYMDFVSPGSQAK 162

Query:   173 EGSFF-GLEAAXXXXXXXXXXXXXXXXXXXAKDIRNAREWKLKEIKNGLICLV 224
             EGSFF GLEAA                   AKD++NA +WKLKEIKNG + ++
Sbjct:   163 EGSFFFGLEAALEGLEPGYPGGPLLNPLGLAKDVQNAHDWKLKEIKNGRLAMM 215
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:0030076 "light-harvesting complex" evidence=ISS
GO:0009535 "chloroplast thylakoid membrane" evidence=IDA
GO:0009782 "photosystem I antenna complex" evidence=IDA
GO:0031409 "pigment binding" evidence=IDA
GO:0009768 "photosynthesis, light harvesting in photosystem I" evidence=IGI
GO:0006364 "rRNA processing" evidence=RCA
GO:0009657 "plastid organization" evidence=RCA
GO:0010027 "thylakoid membrane organization" evidence=RCA
GO:0010207 "photosystem II assembly" 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: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:2036209 LHCB6 "light harvesting complex photosystem II subunit 6" [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
TAIR|locus:2122794 LHCB5 "light harvesting complex of photosystem II 5" [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
TAIR|locus:2011691 AT1G76570 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P12331 CAB2R "Chlorophyll a-b binding protein 2, chloroplastic" [Oryza sativa Japonica Group (taxid:39947)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
Lhca5-2
light-harvesting complex I protein Lhca5 (266 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query226
PLN00147252 PLN00147, PLN00147, light-harvesting complex I chl 1e-129
PLN00097244 PLN00097, PLN00097, photosystem I light harvesting 3e-51
PLN00101250 PLN00101, PLN00101, Photosystem I light-harvesting 2e-48
PLN00098267 PLN00098, PLN00098, light-harvesting complex I chl 6e-47
PLN00048262 PLN00048, PLN00048, photosystem I light harvesting 5e-41
PLN00100246 PLN00100, PLN00100, light-harvesting complex chlor 2e-38
PLN00170255 PLN00170, PLN00170, photosystem II light-harvestin 2e-37
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 9e-34
PLN00171324 PLN00171, PLN00171, photosystem light-harvesting c 2e-26
PLN00099243 PLN00099, PLN00099, light-harvesting complex IChlo 2e-26
PLN00025262 PLN00025, PLN00025, photosystem II light harvestin 1e-24
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 3e-19
PLN00089209 PLN00089, PLN00089, fucoxanthin-chlorophyll a/c bi 2e-09
pfam00504135 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding 8e-09
PLN00187286 PLN00187, PLN00187, photosystem II light-harvestin 0.001
>gnl|CDD|215076 PLN00147, PLN00147, light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information 
 Score =  365 bits (939), Expect = e-129
 Identities = 165/226 (73%), Positives = 179/226 (79%), Gaps = 18/226 (7%)

Query: 1   MAVAVGRGFLLQPSSSSSFIC--NDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPT 58
           MA     GFL QP  SSS          +S G                    V AQ+RPT
Sbjct: 4   MAGGTTGGFLHQPRDSSSHCTRSISSVAASSGG----------------INPVVAQERPT 47

Query: 59  WLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLL 118
           WLPG+DPPP+LDGTLAGDFGFDPLGLGEDPESL+WYVQAELVH+RFAMAGVAGILFTDLL
Sbjct: 48  WLPGLDPPPHLDGTLAGDFGFDPLGLGEDPESLKWYVQAELVHSRFAMAGVAGILFTDLL 107

Query: 119 RVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFG 178
           RVTGIR LPVWYEAGAV+F+FASTRTLF+VQLLLMGFAETKRYMD++SPGSQ KEGSFFG
Sbjct: 108 RVTGIRNLPVWYEAGAVKFEFASTRTLFVVQLLLMGFAETKRYMDFVSPGSQAKEGSFFG 167

Query: 179 LEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLV 224
           LEAALEGLEPGYPGGPL NPLGLAKDI NA +WKLKEIKNG + +V
Sbjct: 168 LEAALEGLEPGYPGGPLFNPLGLAKDIENAHDWKLKEIKNGRLAMV 213

Length = 252
>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|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|215054 PLN00100, PLN00100, light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>gnl|CDD|215087 PLN00170, PLN00170, photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>gnl|CDD|215956 pfam00504, Chloroa_b-bind, Chlorophyll A-B binding protein 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|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|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; 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|177781 PLN00187, PLN00187, photosystem II light-harvesting complex II protein Lhcb4; 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 226
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 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
PLN00170255 photosystem II light-harvesting-Chl-binding protei 100.0
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 100.0
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 100.0
PLN00187286 photosystem II light-harvesting complex II protein 100.0
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 100.0
PLN00099243 light-harvesting complex IChlorophyll A-B binding 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 99.97
PLN00147252 light-harvesting complex I chlorophyll-a/b binding 99.57
PLN00048262 photosystem I light harvesting chlorophyll a/b bin 99.55
PLN00089209 fucoxanthin-chlorophyll a/c binding protein; Provi 99.55
PLN00025262 photosystem II light harvesting chlorophyll a/b bi 99.49
PLN00187286 photosystem II light-harvesting complex II protein 99.47
PLN00098267 light-harvesting complex I chlorophyll a/b-binding 99.44
PLN00099243 light-harvesting complex IChlorophyll A-B binding 99.43
PLN00171324 photosystem light-harvesting complex -chlorophyll 99.39
PLN00097244 photosystem I light harvesting complex Lhca2/4, ch 99.39
PF00504156 Chloroa_b-bind: Chlorophyll A-B binding protein; I 99.37
PLN00170255 photosystem II light-harvesting-Chl-binding protei 99.29
PLN00100246 light-harvesting complex chlorophyll-a/b protein o 99.27
PLN00101250 Photosystem I light-harvesting complex type 4 prot 99.23
PLN00120202 fucoxanthin-chlorophyll a-c binding protein; Provi 99.2
PHA0233735 putative high light inducible protein 97.65
PLN00014250 light-harvesting-like protein 3; Provisional 96.26
PHA0233735 putative high light inducible protein 95.91
PLN00084214 photosystem II subunit S (PsbS); Provisional 95.33
PLN00084214 photosystem II subunit S (PsbS); Provisional 92.39
PLN00014250 light-harvesting-like protein 3; Provisional 86.82
>PLN00147 light-harvesting complex I chlorophyll-a/b binding protein Lhca5; Provisional Back     alignment and domain information 
Probab=100.00  E-value=4.4e-57  Score=400.74  Aligned_cols=212  Identities=78%  Similarity=1.274  Sum_probs=179.7

Q ss_pred             CceeccccceeccCCCCcccccCcCCCcccccccCCCCCccccCcchhhhhccCCCCcCCCCCCCCCCCCCCCCCCcCcc
Q 027238            1 MAVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLPGVDPPPYLDGTLAGDFGFD   80 (226)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~r~~~lP~~~~p~~l~G~~pGd~GfD   80 (226)
                      |++.+.+++..+++.+++.....  +++.+        .  ++.|.  +.+++++|++|+|+.++|+||||++|||||||
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~--------~--~~~~~--~~~~~~~R~~wlP~~~~P~~Ldg~~pGD~GFD   69 (252)
T PLN00147          4 MAGGTTGGFLHQPRDSSSHCTRS--ISSVA--------A--SSGGI--NPVVAQERPTWLPGLDPPPHLDGTLAGDFGFD   69 (252)
T ss_pred             eeeccCCceeeecccccchhhhh--hhhhh--------h--ccccC--cccCCCCccccCCCCCCCCcCCCCCCCccCCC
Confidence            56666777777877655555442  21211        0  12232  22456889999999999999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHhhhcchhHhhhhHHHHhhhhhccCCCCChhhhhcccchhcccchhhHHHHHHHHHhHhhhhh
Q 027238           81 PLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKR  160 (226)
Q Consensus        81 PlGl~~d~e~l~~~r~aElkhGRlAMlA~~G~~~~e~~~~~G~~~~p~w~~aG~~~~~~~~~~~l~~~qll~iG~~E~~r  160 (226)
                      ||||++|+++++|||++|||||||||||++|+++||+++..|+...|.||++|...+++.+.++++++|+++||++|.+|
T Consensus        70 Plgl~~d~~~~~~~r~aElkhGR~AMlA~~G~l~~e~~~~~g~~~~p~w~~ag~~~~~~~~~~~~~~~q~~~mG~~E~~R  149 (252)
T PLN00147         70 PLGLGEDPESLKWYVQAELVHSRFAMAGVAGILFTDLLRVTGIRNLPVWYEAGAVKFEFASTRTLFVVQLLLMGFAETKR  149 (252)
T ss_pred             cccccCCHHHHHHHHHHHhhccHHHHHHHhhhhHHHHhccCCCcCCcchhhcccchhccccchHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999988887778899998766667777889999999999999999


Q ss_pred             hccccCCCCCCCCCcchhhhhhhcCCCCCCCCCCCCCCCCCccCHHHHHHHHHHHHhhhhhhhccC
Q 027238          161 YMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC  226 (226)
Q Consensus       161 ~~~~~~pg~~~~~g~f~g~~~~~~g~~~~yPGd~gFDPLgl~~d~e~~~~~k~kEIkNGRLAMiAi  226 (226)
                      |.++.+|+++..++.|+|.+...++.+++||||++||||||.+|+++++++|+|||||||||||||
T Consensus       150 ~~~~~~pg~~~~~g~~~g~~~~~~~~~~~yPGd~~FDPlGl~~d~~~~~~~k~kEikNGRLAMlA~  215 (252)
T PLN00147        150 YMDFVSPGSQAKEGSFFGLEAALEGLEPGYPGGPLFNPLGLAKDIENAHDWKLKEIKNGRLAMVAM  215 (252)
T ss_pred             hccccCCCccccccccccccccccccCCCCcccccCCccccCCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            999999998888888877766666677899999999999999999999999999999999999985

>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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); 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
>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
>PLN00099 light-harvesting complex IChlorophyll A-B binding protein Lhca1; 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
>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
>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
>PLN00171 photosystem light-harvesting complex -chlorophyll a/b binding protein Lhcb7; Provisional Back     alignment and domain information
>PLN00097 photosystem I light harvesting complex Lhca2/4, chlorophyll a/b binding; Provisional Back     alignment and domain information
>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
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional Back     alignment and domain information
>PLN00100 light-harvesting complex chlorophyll-a/b protein of photosystem I (Lhca); Provisional Back     alignment and domain information
>PLN00101 Photosystem I light-harvesting complex type 4 protein; Provisional Back     alignment and domain information
>PLN00120 fucoxanthin-chlorophyll a-c binding protein; Provisional Back     alignment and domain information
>PHA02337 putative high light inducible protein Back     alignment and domain information
>PLN00014 light-harvesting-like protein 3; Provisional Back     alignment and domain information
>PHA02337 putative high light inducible protein Back     alignment and domain information
>PLN00084 photosystem II subunit S (PsbS); Provisional 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query226
2wsc_2269 Improved Model Of Plant Photosystem I Length = 269 1e-36
2wsc_4251 Improved Model Of Plant Photosystem I Length = 251 2e-31
2o01_2186 The Structure Of A Plant Photosystem I Supercomplex 3e-29
2wsc_3276 Improved Model Of Plant Photosystem I Length = 276 8e-21
3lw5_4166 Improved Model Of Plant Photosystem I Length = 166 5e-20
3lw5_2176 Improved Model Of Plant Photosystem I Length = 176 9e-20
2o01_4165 The Structure Of A Plant Photosystem I Supercomplex 3e-18
2wsc_1241 Improved Model Of Plant Photosystem I Length = 241 1e-17
2o01_1187 The Structure Of A Plant Photosystem I Supercomplex 5e-16
3lw5_3172 Improved Model Of Plant Photosystem I Length = 172 1e-12
2o01_3165 The Structure Of A Plant Photosystem I Supercomplex 3e-12
3lw5_1170 Improved Model Of Plant Photosystem I Length = 170 4e-12
3pl9_A243 Crystal Structure Of Spinach Minor Light-Harvesting 6e-10
1vcr_A232 An Icosahedral Assembly Of Light-Harvesting Chlorop 7e-10
1rwt_A232 Crystal Structure Of Spinach Major Light-harvesting 8e-10
2bhw_A232 Pea Light-Harvesting Complex Ii At 2.5 Angstrom Res 8e-10
>pdb|2WSC|2 Chain 2, Improved Model Of Plant Photosystem I Length = 269 Back     alignment and structure 
Iteration: 1

 Score =  149 bits (375), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 80/154 (51%), Positives = 97/154 (62%), Gaps = 11/154 (7%)
Query: 25  NKSSIGITSAFLPAK--------SGTTRRYLATV--VRAQQRPTWLPGVDPPPYLDGTLA 74
           N S  G + AFL  K        S +  R  +TV  V    RP W PG  PPP+LDG+L 
Sbjct: 23  NGSPSGTSKAFLGRKLKVNSSTASPSRVRSTSTVCTVAEPDRPLWFPGSTPPPWLDGSLP 82
Query: 75  GDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWYEAGA 134
           GDFGFDPLGLG DPESLRW VQAELVH+R+AM G AGI   + L   GI   P WY AG 
Sbjct: 83  GDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWYTAGE 142
Query: 135 VEFKFASTRTLFIVQLLLMGFAETKRYMDYISPG 168
            E+ F  T TLFIV+L+ +G+AE +R+ D ++PG
Sbjct: 143 QEY-FTDTTTLFIVELVFIGWAEGRRWADILNPG 175
>pdb|2WSC|4 Chain 4, Improved Model Of Plant Photosystem I Length = 251 Back     alignment and structure
>pdb|2O01|2 Chain 2, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 186 Back     alignment and structure
>pdb|2WSC|3 Chain 3, Improved Model Of Plant Photosystem I Length = 276 Back     alignment and structure
>pdb|3LW5|4 Chain 4, Improved Model Of Plant Photosystem I Length = 166 Back     alignment and structure
>pdb|3LW5|2 Chain 2, Improved Model Of Plant Photosystem I Length = 176 Back     alignment and structure
>pdb|2O01|4 Chain 4, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 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|3 Chain 3, Improved Model Of Plant Photosystem I Length = 172 Back     alignment and structure
>pdb|2O01|3 Chain 3, The Structure Of A Plant Photosystem I Supercomplex At 3.4 Angstrom Resolution Length = 165 Back     alignment and structure
>pdb|3LW5|1 Chain 1, Improved Model Of Plant Photosystem I Length = 170 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|1VCR|A Chain A, An Icosahedral Assembly Of Light-Harvesting Chlorophyll AB Protein Complex From Pea Thylakoid Membranes Length = 232 Back     alignment and structure
>pdb|1RWT|A Chain A, Crystal Structure Of Spinach Major Light-harvesting Complex At 2.72 Angstrom Resolution Length = 232 Back     alignment and structure
>pdb|2BHW|A Chain A, Pea Light-Harvesting Complex Ii At 2.5 Angstrom Resolution Length = 232 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 ?
Query226
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 4e-39
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 7e-05
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 1e-37
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 1e-34
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 4e-06
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 2e-31
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 2e-04
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 2e-30
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 2e-05
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 6e-22
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 8e-04
>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 =  135 bits (339), Expect = 4e-39
 Identities = 95/219 (43%), Positives = 123/219 (56%), Gaps = 6/219 (2%)

Query: 2   AVAVGRGFLLQPSSSSSFICNDVNKSSIGITSAFLPAKSGTTRRYLATVVRAQQRPTWLP 61
           AVA+      +  S S      + +     +S   P++  +T       V    RP W P
Sbjct: 12  AVAISTPSSQKNGSPSGTSKAFLGRKLKVNSSTASPSRVRSTST--VCTVAEPDRPLWFP 69

Query: 62  GVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVT 121
           G  PPP+LDG+L GDFGFDPLGLG DPESLRW VQAELVH+R+AM G AGI   + L   
Sbjct: 70  GSTPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKL 129

Query: 122 GIRELPVWYEAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEA 181
           GI   P WY AG  E+ F  T TLFIV+L+ +G+AE +R+ D ++PG    +  F     
Sbjct: 130 GILNTPSWYTAGEQEY-FTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPN--N 186

Query: 182 ALEGLEPGYPGGPLLNPLGLAK-DIRNAREWKLKEIKNG 219
            L G + GYPGG   +PLG      +  +E + KEIKNG
Sbjct: 187 KLTGTDVGYPGGLWFDPLGWGSASPQKLKELRTKEIKNG 225
>2wsc_2 LHCA2, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_2* 2wsf_2* 2o01_2* 3lw5_2* Length = 269 Back     alignment and structure
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Length = 251 Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Length = 276 Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Length = 276 Back     alignment and structure
>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
>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
>2wsc_1 AT3G54890, LHCA1; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_1* 2wsf_1* 2o01_1* 3lw5_1* Length = 241 Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Length = 243 Back     alignment and structure
>3pl9_A Chlorophyll A-B binding protein; CP29, light-harvesting COMP membrane protein, plant, photosynthesis, chloroplast, thyla photosystem II; HET: CLA CHL LUT XAT NEX G3P HTG; 2.80A {Spinacia oleracea} Length = 243 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query226
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 100.0
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 100.0
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 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
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 100.0
3pl9_A243 Chlorophyll A-B binding protein; CP29, light-harve 99.47
2bhw_A232 Chlorophyll A-B binding protein AB80; LHC-II, phot 99.44
2wsc_3276 LHCA3, type II chlorophyll A/B binding protein fro 99.43
2wsc_2269 LHCA2, type II chlorophyll A/B binding protein fro 99.37
2wsc_1241 AT3G54890, LHCA1; photosynthesis, electron transfe 99.27
2wsc_4251 Chlorophyll A-B binding protein P4, chloroplastic; 99.03
>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=5.7e-53  Score=376.55  Aligned_cols=173  Identities=50%  Similarity=0.983  Sum_probs=119.0

Q ss_pred             hccCCCCcCCCCCCCCCCCCCCCCCCcCccCCCCCCCHHHHHHHHHHHhhhcchhHhhhhHHHHhhhhhccCCCCChhhh
Q 027238           51 VRAQQRPTWLPGVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIRELPVWY  130 (226)
Q Consensus        51 ~~~~~r~~~lP~~~~p~~l~G~~pGd~GfDPlGl~~d~e~l~~~r~aElkhGRlAMlA~~G~~~~e~~~~~G~~~~p~w~  130 (226)
                      ++.++|++|+|+.++|+||||++||||||||+||++|+|+++|||++|||||||||||++|++++|+++..|+.+.|.||
T Consensus        59 ~~~~~r~~wlpg~~~P~~L~G~~pGD~GfDPlGL~~d~e~~~~~r~aElkHGR~AMLA~~G~l~~E~l~~~G~~~~p~w~  138 (269)
T 2wsc_2           59 VAEPDRPLWFPGSTPPPWLDGSLPGDFGFDPLGLGSDPESLRWNVQAELVHSRWAMLGAAGIFIPEFLTKLGILNTPSWY  138 (269)
T ss_dssp             -----------------------------------CCCSCCTTTHHHHHHTHHHHTTTTHHHHHHHHHCCTTSSSCCCCC
T ss_pred             ccCCCcccccCCCCCcccccCcCCCCCCCCccccCCCHHHHHHHHHHHHhcchHHHHHHHHhHhHHhhccCCcccCcccc
Confidence            45689999999999999999999999999999999999999999999999999999999999999999988888778899


Q ss_pred             hcccchhcccchhhHHHHHHHHHhHhhhhhhccccCCCCCCCCCcchhhhhhhcCCCCCCCCCCCCCCCCCcc-CHHHHH
Q 027238          131 EAGAVEFKFASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAK-DIRNAR  209 (226)
Q Consensus       131 ~aG~~~~~~~~~~~l~~~qll~iG~~E~~r~~~~~~pg~~~~~g~f~g~~~~~~g~~~~yPGd~gFDPLgl~~-d~e~~~  209 (226)
                      ++|...+ |.+.++++++|+++||++|.+|++++.+||++..++.|.+  ......+.+||||++||||||.+ |+|+++
T Consensus       139 ~aG~~~~-~~~~~~l~~~qi~liG~~E~~r~~~~~~pG~~g~~p~f~~--~~~~~~d~~~PG~~~fDPlgl~~~~~e~~~  215 (269)
T 2wsc_2          139 TAGEQEY-FTDTTTLFIVELVFIGWAEGRRWADILNPGCVNTDPIFPN--NKLTGTDVGYPGGLWFDPLGWGSASPQKLK  215 (269)
T ss_dssp             STTSSSS-CCCTTSHHHHHTTHHHHHHHHHHTTSSCCCCCSSSCCSSS--CCSSTTSCSCTTCSSCCCSSSSSSCCCSCT
T ss_pred             ccchhhh-hcchHHHHHHHHHHHHHHHHHHHhccccCCcccccccccc--ccccccccCCCCCcccCccccCcccHHHHH
Confidence            9876554 6667788899999999999999999999988766555422  11223466899999999999986 788889


Q ss_pred             HHHHHHHhhhhhhhccC
Q 027238          210 EWKLKEIKNGLICLVLC  226 (226)
Q Consensus       210 ~~k~kEIkNGRLAMiAi  226 (226)
                      ++|++||||||||||||
T Consensus       216 ~~~~~Ei~nGRlAMla~  232 (269)
T 2wsc_2          216 ELRTKEIKNGRLAMLAV  232 (269)
T ss_dssp             TSTTTTHHHHHHHHTTT
T ss_pred             HHHHhhcccchHHHHHH
Confidence            99999999999999986
>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_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum} PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4* Back     alignment and structure
>2wsc_3 LHCA3, type II chlorophyll A/B binding protein from photosystem I; photosynthesis, electron transfer, membrane proteins, large complexes; HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Glycine max} PDB: 2wse_3* 2wsf_3* 3lw5_3* 2o01_3* Back     alignment and structure
>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_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_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 226
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 8e-37
d1rwta_218 f.43.1.1 (A:) Chlorophyll a-b binding protein {Spi 3e-04
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Length = 218 Back     information, alignment and structure

class: Membrane and cell surface proteins and peptides
fold: Chlorophyll a-b binding protein
superfamily: Chlorophyll a-b binding protein
family: Chlorophyll a-b binding protein
domain: Chlorophyll a-b binding protein
species: Spinach (Spinacia oleracea) [TaxId: 3562]

 Score =  126 bits (318), Expect = 8e-37
 Identities = 58/172 (33%), Positives = 83/172 (48%), Gaps = 16/172 (9%)

Query: 56  RPTWLPGV--DPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGIL 113
           R  +L     + P YL G   GD+G+D  GL  DPE+     + E++H R+AM G  G +
Sbjct: 8   RVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCV 67

Query: 114 FTDLLRVTGIR-ELPVWYEAGAVEFK-----FASTRTLFIVQLLLMGFAETKRYMDYISP 167
           F +LL   G++    VW++AG+  F      +    +L   Q +L  +A     M  +  
Sbjct: 68  FPELLARNGVKFGEAVWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAV-- 125

Query: 168 GSQTKEGSFFGLEAALEGLEPGYPGGPLLNPLGLAKDIRNAREWKLKEIKNG 219
                EG         E ++P YPGG   +PLGLA D     E K+KEIKNG
Sbjct: 126 -----EGYRIAGGPLGEVVDPLYPGGS-FDPLGLADDPEAFAELKVKEIKNG 171
>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 ?
Query226
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 100.0
d1rwta_218 Chlorophyll a-b binding protein {Spinach (Spinacia 99.41
>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=3e-46  Score=321.36  Aligned_cols=159  Identities=36%  Similarity=0.629  Sum_probs=123.3

Q ss_pred             hccCCCCcCCC--CCCCCCCCCCCCCCCcCccCCCCCCCHHHHHHHHHHHhhhcchhHhhhhHHHHhhhhhccCCC-CCh
Q 027238           51 VRAQQRPTWLP--GVDPPPYLDGTLAGDFGFDPLGLGEDPESLRWYVQAELVHARFAMAGVAGILFTDLLRVTGIR-ELP  127 (226)
Q Consensus        51 ~~~~~r~~~lP--~~~~p~~l~G~~pGd~GfDPlGl~~d~e~l~~~r~aElkhGRlAMlA~~G~~~~e~~~~~G~~-~~p  127 (226)
                      +..++|++|+|  ..+.|+||||++|||||||||||++|+++++||||+|||||||||||++|++++|+++..+.. ..+
T Consensus         3 ~~~~~r~~~~~~~~~~~P~~LdGs~pGD~GFDPLgls~d~~~~~~~ReaELKHGR~AMLA~vG~~~~E~~~~~~~~~~~~   82 (218)
T d1rwta_           3 WYGPDRVKYLGPFSGESPSYLTGEFPGDYGWDTAGLSADPETFAKNRELEVIHCRWAMLGALGCVFPELLARNGVKFGEA   82 (218)
T ss_dssp             TSSTTCCCTTGGGGCSCCTTCCSCSTTCCSCCTTCTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCSCC
T ss_pred             CCCCCCcccCCccccCCCcccCCCCCCCCCcCCcccCCCHHHHHHHHHHHHhhceehHhhhcceeehhhhccCCCCCCCc
Confidence            56789999997  346899999999999999999999999999999999999999999999999999998765443 334


Q ss_pred             hhhhcccchhc--------------ccchhhHHHHHHHHHhHhhhhhhccccCCCCCCCCCcchhhhhhhcCCCCCCCCC
Q 027238          128 VWYEAGAVEFK--------------FASTRTLFIVQLLLMGFAETKRYMDYISPGSQTKEGSFFGLEAALEGLEPGYPGG  193 (226)
Q Consensus       128 ~w~~aG~~~~~--------------~~~~~~l~~~qll~iG~~E~~r~~~~~~pg~~~~~g~f~g~~~~~~g~~~~yPGd  193 (226)
                      .|++++.....              +..+...+.+++.+++.+|..+...-.  .              ....+..|||+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~--~--------------~~~~~~~~~~g  146 (218)
T d1rwta_          83 VWFKAGSQIFSEGGLDYLGNPSLVHAQSILAIWACQVILMGAVEGYRIAGGP--L--------------GEVVDPLYPGG  146 (218)
T ss_dssp             SHHHHGGGGGSTTCBCGGGCTTSCCBCCHHHHHHHHHHHHHHHHHHHHHCBT--T--------------BCCSSSSCCCG
T ss_pred             ccccccccccCcchhhhhcCchHHHHHHHHHHHHHHHHHHhhhhhhcccCCC--c--------------ccccCCCCCCC
Confidence            56654332110              112223333445778999988764211  0              11235567877


Q ss_pred             CCCCCCCCccCHHHHHHHHHHHHhhhhhhhccC
Q 027238          194 PLLNPLGLAKDIRNAREWKLKEIKNGLICLVLC  226 (226)
Q Consensus       194 ~gFDPLgl~~d~e~~~~~k~kEIkNGRLAMiAi  226 (226)
                       +|||+++.+|+|+++++|+|||||||||||||
T Consensus       147 -~fdPlg~~~~~e~~~~~k~kElkNGRLAMlAi  178 (218)
T d1rwta_         147 -SFDPLGLADDPEAFAELKVKEIKNGRLAMFSM  178 (218)
T ss_dssp             -GGCTTCTTCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CccccccCCCHHHHHHHHHHHHHHhHHHHHHH
Confidence             59999999999999999999999999999985
>d1rwta_ f.43.1.1 (A:) Chlorophyll a-b binding protein {Spinach (Spinacia oleracea) [TaxId: 3562]} Back     information, alignment and structure