Citrus Sinensis ID: 033248

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120---
Protein Sequence
MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT
Secondary Structure (PSIPRED)
cccccccccccHHHHHcccccccccccccccccccHHHHHccccccccEEEEEHHHHHHHHHHHHHHHHHHHHHcHHHHHHHcccccHHHHHHHHHHHHccHHHHHHHHHEEEEccccccccc
Secondary Structure Prediction (SSPRO)
cccHcccccccHHHHHHccccccHcHcccccccccHHHHHHcccccccEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcHEEEEEEEEEEEEccccccccc
Coil and Loop (DISEMBL)
masvsmamplssatqnrliqpssesflkplpvrpskaarflgkpksRARLQVQASLKEKAVTGLTAAALTASMVIPEVAeaagsglspslKNFLLSIVAGGVVLAAIVGAVIgvanfdpvkrt
Flexible Loop (DISEMBL)
masvsmamplssatqnrliqpssesflkplpvrpskaarflgkpksraRLQVQASLKEKAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVigvanfdpvkrt
Low Complexity Region (SEG)
MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAVTGltaaaltaSMVIPEVAEAAGSGLSPSLKNFLLSivaggvvlaaivgavigvaNFDPVKRT
Disordered region (IsUnstruct)
***********************************************************AVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFD*****
Disordered Region (DISOPRED)
**************************L**LPV****************************VTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDP****
Disordered Region (DISEMBL)
*****************LIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT
Disordered Region (DISPRO)
**************************LKP****PS********PKSRARLQVQASLKEKAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFD*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	123	2.2.26 [Sep-21-2011]
Q2JN82	38	Photosystem II reaction c	yes	no	0.300	0.973	0.567	0.0002

>sp|Q2JN82|PSBX_SYNJB Photosystem II reaction center X protein OS=Synechococcus sp. (strain JA-2-3B'a(2-13)) GN=psbX PE=3 SV=1

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 28/37 (75%)

Query: 86  LSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKR 122
           ++PSL NFL S+VAG VVL A+ GA+I V+  D V+R
Sbjct: 1   MTPSLANFLWSLVAGAVVLGALFGAIIFVSQRDKVRR 37

Involved in the binding and/or turnover of quinones at the Q(B) site of Photosystem II.
Synechococcus sp. (strain JA-2-3B'a(2-13)) (taxid: 321332)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	123
343887314	123	hypothetical protein [Citrus unshiu]	1.0	1.0	0.983	3e-59
224092099	124	predicted protein [Populus trichocarpa]	1.0	0.991	0.790	1e-44
296081701	123	unnamed protein product [Vitis vinifera]	0.983	0.983	0.792	3e-42
255546007	121	conserved hypothetical protein [Ricinus	0.951	0.966	0.745	4e-41
224122446	122	predicted protein [Populus trichocarpa]	0.959	0.967	0.696	5e-37
388522391	123	unknown [Lotus japonicus]	0.967	0.967	0.669	6e-37
118489268	121	unknown [Populus trichocarpa x Populus d	0.943	0.958	0.735	4e-36
118489056	122	unknown [Populus trichocarpa x Populus d	0.959	0.967	0.688	5e-36
224068412	121	predicted protein [Populus trichocarpa]	0.943	0.958	0.727	8e-36
118489179	122	unknown [Populus trichocarpa x Populus d	0.959	0.967	0.680	9e-36

>gi|343887314|dbj|BAK61860.1| hypothetical protein [Citrus unshiu]

 Score =  232 bits (591), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 121/123 (98%), Positives = 122/123 (99%)

Query: 1   MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKA 60
           MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKA
Sbjct: 1   MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKA 60

Query: 61  VTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPV 120
           VTGLTAAALTASMVIPEVAEAAG GLSPSLKNFLLSIVAGGVVLAA+VGAVIGVANFDPV
Sbjct: 61  VTGLTAAALTASMVIPEVAEAAGPGLSPSLKNFLLSIVAGGVVLAALVGAVIGVANFDPV 120

Query: 121 KRT 123
           KRT
Sbjct: 121 KRT 123

Source: Citrus unshiu

Species: Citrus unshiu

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224092099|ref|XP_002309472.1| predicted protein [Populus trichocarpa] gi|222855448|gb|EEE92995.1| predicted protein [Populus trichocarpa]

 Score =  183 bits (465), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 98/124 (79%), Positives = 109/124 (87%), Gaps = 1/124 (0%)

Query: 1   MASVSMAMPLSSATQNRLIQP-SSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEK 59
           MASVSMAMPL+SA+Q RL QP +S+SFLKPLP+RPS       K KSRARL+VQASLKEK
Sbjct: 1   MASVSMAMPLASASQKRLEQPPNSQSFLKPLPIRPSMEVGLSTKSKSRARLEVQASLKEK 60

Query: 60  AVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDP 119
           AVTGLTAAALTASMVIPEVAEAAG G+SPSLKNFLLSI AGGVV  AI+GAV+GV+NFDP
Sbjct: 61  AVTGLTAAALTASMVIPEVAEAAGPGISPSLKNFLLSIAAGGVVAVAIIGAVLGVSNFDP 120

Query: 120 VKRT 123
           VKR+
Sbjct: 121 VKRS 124

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296081701|emb|CBI20706.3| unnamed protein product [Vitis vinifera]

 Score =  175 bits (443), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 99/125 (79%), Positives = 113/125 (90%), Gaps = 4/125 (3%)

Query: 1   MASVSMAMPLSSATQNRLIQ-PSSESFLKPLPVRPSKAARFLGKPKSR-ARLQVQASLKE 58
           MASVSMAM L+SA+QNRL+Q P+SE+F +PL V+PSK A  + KPKSR +RL+V+ASLKE
Sbjct: 1   MASVSMAMRLTSASQNRLLQRPTSEAFFQPLQVKPSKKAVAV-KPKSRGSRLEVKASLKE 59

Query: 59  KAVTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFD 118
           KA+TGLTAAALTASMV+PE AEAA SG+SPSLKNFLLSIVAGGVVL AIVGAVIGVANFD
Sbjct: 60  KAITGLTAAALTASMVLPEAAEAA-SGVSPSLKNFLLSIVAGGVVLGAIVGAVIGVANFD 118

Query: 119 PVKRT 123
           PVKRT
Sbjct: 119 PVKRT 123

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546007|ref|XP_002514063.1| conserved hypothetical protein [Ricinus communis] gi|223546519|gb|EEF48017.1| conserved hypothetical protein [Ricinus communis]

 Score =  171 bits (434), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 91/122 (74%), Positives = 106/122 (86%), Gaps = 5/122 (4%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMAMP++SA+Q ++  PSSE+F KPLP+R SKA       KS  + QV+ASLKEKA+
Sbjct: 5   SAVSMAMPITSASQKKV--PSSEAFFKPLPLRQSKAVM---ASKSNGKFQVKASLKEKAI 59

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTAAALTASMVIPEVAEAAGSG+SPSLKNFLLSIVAGGVVL AIVGA+IGVANFDPVK
Sbjct: 60  TGLTAAALTASMVIPEVAEAAGSGVSPSLKNFLLSIVAGGVVLTAIVGAIIGVANFDPVK 119

Query: 122 RT 123
           R+
Sbjct: 120 RS 121

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122446|ref|XP_002330483.1| predicted protein [Populus trichocarpa] gi|222872417|gb|EEF09548.1| predicted protein [Populus trichocarpa]

 Score =  157 bits (398), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 85/122 (69%), Positives = 98/122 (80%), Gaps = 4/122 (3%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMAMPL+ A+  R   P+SE+F KPLPVRPSKA       +   R QV+ASLKEK V
Sbjct: 5   SAVSMAMPLTHAS--RKAAPTSEAFFKPLPVRPSKA--IAAASRCNGRFQVKASLKEKVV 60

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTA ALT SMVIPEVAEAAG G+SPSL NFLLSIVAGGVVLAAI GAV+GV+NFDPV+
Sbjct: 61  TGLTAGALTVSMVIPEVAEAAGPGVSPSLNNFLLSIVAGGVVLAAIAGAVVGVSNFDPVR 120

Query: 122 RT 123
           R+
Sbjct: 121 RS 122

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388522391|gb|AFK49257.1| unknown [Lotus japonicus]

 Score =  157 bits (398), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 81/121 (66%), Positives = 96/121 (79%), Gaps = 2/121 (1%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ASV MA+ LSS T N+L  PSS+SF +PLP+R +K      KP S+++  + ASLKEKAV
Sbjct: 4   ASVPMALSLSSVTHNKLNNPSSQSFFQPLPIRQNKT--LFAKPSSKSKHGIHASLKEKAV 61

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
            GLTAA++TASMVIPEVA AAG+ L+PSLKNFLLSI AGGVVL AI  AVIGV+NFDPVK
Sbjct: 62  AGLTAASMTASMVIPEVANAAGNDLTPSLKNFLLSIAAGGVVLTAIFAAVIGVSNFDPVK 121

Query: 122 R 122
           R
Sbjct: 122 R 122

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489268|gb|ABK96439.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  155 bits (391), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 89/121 (73%), Positives = 101/121 (83%), Gaps = 5/121 (4%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMA+PL+ A+Q R+  P+SE+F KPLP RPSKA       KS  R QV+ASLKEK V
Sbjct: 5   SAVSMALPLTYASQKRV--PASEAFFKPLPARPSKAMS---ASKSSGRFQVKASLKEKLV 59

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTA ALTASMVIPEVAEAAG+G SPSLKNFLLSIVAGGVVL AI+GAVIGV+NFDPVK
Sbjct: 60  TGLTAGALTASMVIPEVAEAAGAGTSPSLKNFLLSIVAGGVVLVAIIGAVIGVSNFDPVK 119

Query: 122 R 122
           R
Sbjct: 120 R 120

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489056|gb|ABK96335.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  154 bits (390), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 84/122 (68%), Positives = 97/122 (79%), Gaps = 4/122 (3%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMAMPL+ A+  R   P+SE+F KPLPVRPSKA       +     QV+ASLKEK V
Sbjct: 5   SAVSMAMPLTHAS--RKAAPTSEAFFKPLPVRPSKA--IAAASRCNGGFQVKASLKEKVV 60

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTA ALT SMVIPEVAEAAG G+SPSL NFLLSIVAGGVVLAAI GAV+GV+NFDPV+
Sbjct: 61  TGLTAGALTVSMVIPEVAEAAGPGVSPSLNNFLLSIVAGGVVLAAIAGAVVGVSNFDPVR 120

Query: 122 RT 123
           R+
Sbjct: 121 RS 122

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068412|ref|XP_002326114.1| predicted protein [Populus trichocarpa] gi|222833307|gb|EEE71784.1| predicted protein [Populus trichocarpa]

 Score =  154 bits (388), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 88/121 (72%), Positives = 101/121 (83%), Gaps = 5/121 (4%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMA+PL+ A+Q R+  P+SE+F KPLP RPSKA       KS  R QV+ASLKEK V
Sbjct: 5   SAVSMALPLTYASQKRI--PASEAFFKPLPARPSKAMS---ASKSSGRFQVKASLKEKLV 59

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTA ALTASMVIP+VAEAAG+G SPSLKNFLLSIVAGGVVL AI+GAVIGV+NFDPVK
Sbjct: 60  TGLTAGALTASMVIPDVAEAAGAGASPSLKNFLLSIVAGGVVLVAIIGAVIGVSNFDPVK 119

Query: 122 R 122
           R
Sbjct: 120 R 120

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118489179|gb|ABK96396.1| unknown [Populus trichocarpa x Populus deltoides]

 Score =  154 bits (388), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 83/122 (68%), Positives = 96/122 (78%), Gaps = 4/122 (3%)

Query: 2   ASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKAV 61
           ++VSMAMPL+ A+  R   P+SE+F KPLP RPSKA       +   R QV+ASLKEK V
Sbjct: 5   SAVSMAMPLTHAS--RKAAPTSEAFFKPLPARPSKA--IAAASRCNDRFQVKASLKEKVV 60

Query: 62  TGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVK 121
           TGLTA ALT SMVIPEVAEAAG G+SPSL NFLLSIVAGGVVL AI GAV+GV+NFDPV+
Sbjct: 61  TGLTAGALTVSMVIPEVAEAAGPGVSPSLNNFLLSIVAGGVVLVAIAGAVVGVSNFDPVR 120

Query: 122 RT 123
           R+
Sbjct: 121 RS 122

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	123
TAIR|locus:2054582	116	PSBX "AT2G06520" [Arabidopsis	0.934	0.991	0.508	9.2e-20

TAIR|locus:2054582 PSBX "AT2G06520" [Arabidopsis thaliana (taxid:3702)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 63/124 (50%), Positives = 71/124 (57%)

Query:     1 MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRA-RLQVQASLKEK 59
             MAS S AM L +     L Q  S  FLKPLP++PSKA    G    RA RLQV+A   +K
Sbjct:     1 MASTS-AMSLVTP----LNQTRSSPFLKPLPLKPSKALVATG---GRAQRLQVKALKMDK 52

Query:    60 AVTGXXXXXXXXSMVIPEVAEAAGSGLSPSLKNFLLSXXXXXXXXXXXXXXXXXXXNFDP 119
             A+TG        SMVIPE+AEAAGSG+SPSLKNFLLS                   NFDP
Sbjct:    53 ALTGISAAALTASMVIPEIAEAAGSGISPSLKNFLLSIASGGLVLTVIIGVVVGVSNFDP 112

Query:   120 VKRT 123
             VKRT
Sbjct:   113 VKRT 116


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.312   0.125   0.331    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      123        96   0.00091  102 3  10 23  0.39    30
                                                     29  0.43    31


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  478 (51 KB)
  Total size of DFA:  97 KB (2071 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.69u 0.11s 12.80t   Elapsed:  00:00:01
  Total cpu time:  12.69u 0.11s 12.80t   Elapsed:  00:00:01
  Start:  Fri May 10 20:09:33 2013   End:  Fri May 10 20:09:34 2013

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0009523 "photosystem II" evidence=IEA

GO:0015979 "photosynthesis" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

---

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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pm.C_LG_VI0645 hypothetical protein (124 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	123
PLN00088	127	PLN00088, PLN00088, predicted protein; Provisional	2e-13
pfam06596	39	pfam06596, PsbX, Photosystem II reaction centre X	1e-06

>gnl|CDD|177709 PLN00088, PLN00088, predicted protein; Provisional

 Score = 62.0 bits (150), Expect = 2e-13
 Identities = 54/122 (44%), Positives = 68/122 (55%), Gaps = 1/122 (0%)

Query: 1   MASVSMAMPLSSATQNRLIQPSSESFLKPLPVRPSKAARFLGKPKSRARLQVQASLKEKA 60
           MASVS A     AT     +  S   L        K        +SR  + + A  ++  
Sbjct: 6   MASVSSAATAPLATLVWEAKLLSRQGLALAAPSGKKQVSVAISNRSRVVMSLPAK-EDHN 64

Query: 61  VTGLTAAALTASMVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPV 120
           V  LT+ AL A+ V+PE+AEAA  G+SPSLKN LLS+VAGGVV+  I  AV GV+ FDPV
Sbjct: 65  VASLTSLALLAAAVVPEIAEAAQPGVSPSLKNLLLSVVAGGVVITVIGVAVAGVSTFDPV 124

Query: 121 KR 122
           KR
Sbjct: 125 KR 126

Length = 127

>gnl|CDD|148292 pfam06596, PsbX, Photosystem II reaction centre X protein (PsbX)

 Score = 42.3 bits (100), Expect = 1e-06
 Identities = 18/39 (46%), Positives = 27/39 (69%), Gaps = 1/39 (2%)

Query: 86  LSPSLKNFLLSIVAGG-VVLAAIVGAVIGVANFDPVKRT 123
           ++PSL NFL S+VAG  +V+  I  A+I V+  D V+R+
Sbjct: 1   MTPSLANFLWSLVAGAVIVVIPITAALIFVSQTDKVQRS 39

This family consists of several photosystem II reaction centre X protein (PsbX) sequences from both prokaryotes and eukaryotes. Length = 39

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	123
PLN00088	127	predicted protein; Provisional	100.0
PF06596	39	PsbX: Photosystem II reaction centre X protein (Ps	99.8
CHL00114	39	psbX photosystem II protein X; Reviewed	99.8

>PLN00088 predicted protein; Provisional

Probab=100.00  E-value=5.9e-40  Score=246.43  Aligned_cols=119  Identities=41%  Similarity=0.558  Sum_probs=106.0

Q ss_pred             Cccccc----cccchh-hhhhccc-CCCccccccCCC-CCccchhhhccCCCCccceeeehh-hhhHHHHhhHHHHHHhh
Q 033248            1 MASVSM----AMPLSS-ATQNRLI-QPSSESFLKPLP-VRPSKAARFLGKPKSRARLQVQAS-LKEKAVTGLTAAALTAS   72 (123)
Q Consensus         1 MAS~Sm----a~pl~~-at~~~~~-~pss~~~~~Plp-~r~~~~~~~~~~~~~~~r~~~~as-~k~k~~~gltaaa~~As   72 (123)
                      |||++|    +.++++ ++|.|+. .++.|+|-.--| .|+++++..    .+|+|+|++++ +|||+++|+|++|++|+
T Consensus         1 ma~~~~~s~~~a~~~~~~t~~~~~k~~~~~g~~l~~p~~~~~~~~~~----~n~~r~~~~as~~~ekav~gltaaAl~As   76 (127)
T PLN00088          1 MACAAMASVSSAATAPLATLVWEAKLLSRQGLALAAPSGKKQVSVAI----SNRSRVVMSLPAKEDHNVASLTSLALLAA   76 (127)
T ss_pred             CchHHHHHhhccccchhhHhhhhhhhhccccceecCCCCccchhhhh----cccceeEEecchHHHHHHHHHHHHHHHHH
Confidence            788775    357777 8899988 899998875445 677777755    34789999998 89999999999999999


Q ss_pred             hcchHHHHhhcCCCChhHHHHHHHHHHhHHHHHHHhhheeeeeccCcccCC
Q 033248           73 MVIPEVAEAAGSGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT  123 (123)
Q Consensus        73 ~~~P~vAeAa~~~mTPSL~NFL~SLvaGgvVv~~i~~Ali~VSq~D~V~R~  123 (123)
                      |++|||||||++||||||+||||||+|||+|++.|+++||||||||||+|+
T Consensus        77 mv~pevAeAA~~gvTPSLsNFL~SLvaGgvVv~pI~~Ali~VSq~D~V~R~  127 (127)
T PLN00088         77 AVVPEIAEAAQPGVSPSLKNLLLSVVAGGVVITVIGVAVAGVSTFDPVKRK  127 (127)
T ss_pred             hhCHHHHHhccCCCChhHHHHHHHHHhhhhhhhhhheeeEEEeccCccccC
Confidence            999999999999999999999999999999999999999999999999996

>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae

Probab=99.80  E-value=1.3e-20  Score=118.24  Aligned_cols=38  Identities=58%  Similarity=0.922  Sum_probs=29.4

Q ss_pred             CChhHHHHHHHHHHhH-HHHHHHhhheeeeeccCcccCC
Q 033248           86 LSPSLKNFLLSIVAGG-VVLAAIVGAVIGVANFDPVKRT  123 (123)
Q Consensus        86 mTPSL~NFL~SLvaGg-vVv~~i~~Ali~VSq~D~V~R~  123 (123)
                      |||||+|||+||+||| +|++.|+++|++|||+|+++|+
T Consensus         1 mTpSL~nfl~Sl~aG~~iVv~~i~~ali~VSq~D~v~R~   39 (39)
T PF06596_consen    1 MTPSLSNFLLSLVAGAVIVVIPIAGALIFVSQFDRVKRS   39 (39)
T ss_dssp             --HHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCS-----
T ss_pred             CCHhHHHHHHHHHhhhhhhhhhhhhheEEEeccCccccC
Confidence            8999999999999999 6666799999999999999996

Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.

>CHL00114 psbX photosystem II protein X; Reviewed

Probab=99.80  E-value=3.8e-20  Score=116.29  Aligned_cols=38  Identities=29%  Similarity=0.511  Sum_probs=36.4

Q ss_pred             CChhHHHHHHHHHHhHHHHH-HHhhheeeeeccCcccCC
Q 033248           86 LSPSLKNFLLSIVAGGVVLA-AIVGAVIGVANFDPVKRT  123 (123)
Q Consensus        86 mTPSL~NFL~SLvaGgvVv~-~i~~Ali~VSq~D~V~R~  123 (123)
                      |||||+|||+||+||++|++ .|++||+||||+|+++|+
T Consensus         1 MTpSLsnF~~SL~~Ga~ivvipi~~aLifvSq~D~v~R~   39 (39)
T CHL00114          1 MTPSLSAFINSLLLGAIIVVIPITLALLFVSQKDRTTRN   39 (39)
T ss_pred             CChhHHHHHHHHHHHHHHhHHHhhhheEEEeccceeccC
Confidence            99999999999999999988 599999999999999996

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	123
3arc_X	39	Photosystem II PSBX protein; PSII, membrane-protei	99.84
3bz1_X	50	Photosystem II PSBX protein; electron transport ph	99.82

>3arc_X Photosystem II PSBX protein; PSII, membrane-protein complex, transmembrane alpha-helix, E transport, photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus vulcanus} PDB: 3prq_X* 3prr_X* 3kzi_X* 3a0b_X* 3a0h_X*

Probab=99.84  E-value=3.1e-22  Score=124.67  Aligned_cols=39  Identities=33%  Similarity=0.711  Sum_probs=37.9

Q ss_pred             CCChhHHHHHHHHHHhHHHHHHHhhheeeeeccCcccCC
Q 033248           85 GLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT  123 (123)
Q Consensus        85 ~mTPSL~NFL~SLvaGgvVv~~i~~Ali~VSq~D~V~R~  123 (123)
                      +|||||+|||+||+|||+|+++|++||++|||+||++|+
T Consensus         1 ~mTpSL~nFl~Sl~aG~vvvv~i~~ali~VSq~D~v~R~   39 (39)
T 3arc_X            1 TITPSLKGFFIGLLSGAVVLGLTFAVLIAISQIDKVQRS   39 (39)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCCC
T ss_pred             CcChhHHHHHHHHHHHHHHHHHHHHHheeEeccCccccC
Confidence            599999999999999999999999999999999999996

>3bz1_X Photosystem II PSBX protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1s5l_X* 3bz2_X*

Probab=99.82  E-value=2.3e-21  Score=126.21  Aligned_cols=40  Identities=33%  Similarity=0.676  Sum_probs=36.6

Q ss_pred             CCCChhHHHHHHHHHHhHHHHHHHhhheeeeeccCcccCC
Q 033248           84 SGLSPSLKNFLLSIVAGGVVLAAIVGAVIGVANFDPVKRT  123 (123)
Q Consensus        84 ~~mTPSL~NFL~SLvaGgvVv~~i~~Ali~VSq~D~V~R~  123 (123)
                      .+|||||+|||+||+|||+|+++|++||++|||+||++|+
T Consensus        10 ~~mTpSL~NFl~SlvaG~vVvv~i~~aLi~VSq~D~v~R~   49 (50)
T 3bz1_X           10 LTITPSLKGFFIGLLSGAVVLGLTFAVLIAISQIDKVQRS   49 (50)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCC--
T ss_pred             hhcCHHHHHHHHHHHHHHHHHHHHHHHheeeeccCccccC
Confidence            4799999999999999999999999999999999999996

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00