Citrus Sinensis ID: 037213

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80----
Protein Sequence
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
Secondary Structure (PSIPRED)
cccEEEccccHHHHHHHHHHHHHHcccccEEEEccccccHHccccEEEEEEEEcEEEccccccccEEEEEccccccEEEEEEcc
Secondary Structure Prediction (SSPRO)
cccEEEcccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHcccccEEEEEcccEcccccccccEEEEccccccEEEEEEEc
Coil and Loop (DISEMBL)
lfgkvidtfpyILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFrdlydswaprdgerleklptqRLVQVFVLVE
Flexible Loop (DISEMBL)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGErleklptqrlvqVFVLVE
Low Complexity Region (SEG)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
Disordered region (IsUnstruct)
**GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVL**
Disordered Region (DISOPRED)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
Disordered Region (DISEMBL)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
Disordered Region (DISPRO)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LFGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYTLYFRDLYDSWAPRDGERLEKLPTQRLVQVFVLVE
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	84	2.2.26 [Sep-21-2011]
Q09MI2	474	Photosystem II CP43 chlor	no	no	0.821	0.145	0.448	4e-15
Q08684	461	Photosystem II CP43 chlor	N/A	no	0.928	0.169	0.379	3e-14
Q1KVY2	461	Photosystem II CP43 chlor	N/A	no	0.928	0.169	0.388	5e-14
Q33C41	461	Photosystem II CP43 chlor	N/A	no	0.761	0.138	0.440	5e-14
Q3C1I3	461	Photosystem II CP43 chlor	N/A	no	0.761	0.138	0.440	5e-14
A4GGA1	473	Photosystem II CP43 chlor	N/A	no	0.761	0.135	0.440	6e-14
Q85FM3	473	Photosystem II CP43 chlor	N/A	no	0.797	0.141	0.437	6e-14
Q2PMT9	473	Photosystem II CP43 chlor	yes	no	0.761	0.135	0.440	6e-14
A6MMK3	473	Photosystem II CP43 chlor	N/A	no	0.761	0.135	0.440	6e-14
A6MM32	473	Photosystem II CP43 chlor	N/A	no	0.761	0.135	0.440	6e-14

>sp|Q09MI2|PSBC_CITSI Photosystem II CP43 chlorophyll apoprotein OS=Citrus sinensis GN=psbC PE=3 SV=1

 Score = 80.1 bits (196), Expect = 4e-15,   Method: Composition-based stats.
 Identities = 44/98 (44%), Positives = 50/98 (51%), Gaps = 29/98 (29%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGERLEKL 71
                            LYF  +YD+WAP  GE L K+
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGVYDTWAPGGGEMLRKI 200

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.
Citrus sinensis (taxid: 2711)

>sp|Q08684|PSBC_CHLMO Photosystem II CP43 chlorophyll apoprotein OS=Chlamydomonas moewusii GN=psbC PE=3 SV=1

 Score = 77.0 bits (188), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 41/108 (37%), Positives = 53/108 (49%), Gaps = 30/108 (27%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  +YH+ +G ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGVYHSLIGPETLEESFPFFGYIWKDKNKMTSILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGE-RLEKLPTQRLVQVF 80
                            +YF  +YD+WAP  G+ R+   PT     +F
Sbjct: 151 YHLIMLGCGAWLLVLKAMYFGGIYDTWAPGGGDVRIITNPTTNFATIF 198

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Chlamydomonas moewusii (taxid: 3054)

>sp|Q1KVY2|PSBC_SCEOB Photosystem II CP43 chlorophyll apoprotein OS=Scenedesmus obliquus GN=psbC PE=3 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 42/108 (38%), Positives = 53/108 (49%), Gaps = 30/108 (27%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  +YH+ +G ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGVYHSLIGPETLEESFPFFGYVWKDKNKMTNILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGE-RLEKLPTQRLVQVF 80
                            +YF  +YD+WAP  G+ R+   PT     VF
Sbjct: 151 YHLIMLGIGAWLLVWKAMYFGGVYDTWAPGGGDVRIITNPTTNAAVVF 198

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Scenedesmus obliquus (taxid: 3088)

>sp|Q33C41|PSBC_NICTO Photosystem II CP43 chlorophyll apoprotein OS=Nicotiana tomentosiformis GN=psbC PE=3 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 151 IHLILLGLGAFLLVFKALYFGGVYDTWAPGGGD 183

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Nicotiana tomentosiformis (taxid: 4098)

>sp|Q3C1I3|PSBC_NICSY Photosystem II CP43 chlorophyll apoprotein OS=Nicotiana sylvestris GN=psbC PE=3 SV=1

 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 151 IHLILLGLGAFLLVFKALYFGGVYDTWAPGGGD 183

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Nicotiana sylvestris (taxid: 4096)

>sp|A4GGA1|PSBC_PHAVU Photosystem II CP43 chlorophyll apoprotein OS=Phaseolus vulgaris GN=psbC PE=3 SV=1

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGIYDTWAPGGGD 195

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Phaseolus vulgaris (taxid: 3885)

>sp|Q85FM3|PSBC_ADICA Photosystem II CP43 chlorophyll apoprotein OS=Adiantum capillus-veneris GN=psbC PE=2 SV=3

 Score = 76.3 bits (186), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 42/96 (43%), Positives = 48/96 (50%), Gaps = 29/96 (30%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+V DTFPY +S V HLI S +L F  IYHA +G ET EESF FFGYT            
Sbjct: 103 GEVADTFPYFVSGVLHLISSAVLGFGGIYHALIGPETLEESFPFFGYTWKDKNKMTTILG 162

Query: 51  -----------------LYFRDLYDSWAPRDGERLE 69
                            LYF  LYD+WAP  G+  E
Sbjct: 163 IHLILLGFGAFLLVFKALYFGGLYDTWAPGGGDVRE 198

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Adiantum capillus-veneris (taxid: 13818)

>sp|Q2PMT9|PSBC_SOYBN Photosystem II CP43 chlorophyll apoprotein OS=Glycine max GN=psbC PE=3 SV=1

 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGIYDTWAPGGGD 195

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Glycine max (taxid: 3847)

>sp|A6MMK3|PSBC_DIOEL Photosystem II CP43 chlorophyll apoprotein OS=Dioscorea elephantipes GN=psbC PE=3 SV=1

 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVLKALYFGGVYDTWAPGGGD 195

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Dioscorea elephantipes (taxid: 145284)

>sp|A6MM32|PSBC_BUXMI Photosystem II CP43 chlorophyll apoprotein OS=Buxus microphylla GN=psbC PE=3 SV=1

 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVLKALYFGGVYDTWAPGGGD 195

One of the components of the core antenna complex of photosystem II. It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of photosystem II.

Buxus microphylla (taxid: 153571)

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	84
193735607	462	photosystem II CP43 chlorophyll apoprote	0.821	0.149	0.448	1e-13
122166187	474	RecName: Full=Photosystem II CP43 chloro	0.821	0.145	0.448	2e-13
169159404	418	photosystem II CP43 protein [Polypodium	0.797	0.160	0.437	6e-13
346455139	185	photosystem II 44 kDa protein [Chaetopho	0.928	0.421	0.388	1e-12
326554876	418	photosystem II CP43 protein [Georgeantha	0.761	0.153	0.451	1e-12
27414154	205	photosystem II protein [Citrus limon]	0.761	0.312	0.440	1e-12
309322219	473	photosystem II CP43 chlorophyll apoprote	0.761	0.135	0.451	1e-12
374974668	486	photosystem II CP43 chlorophyll apoprote	0.761	0.131	0.451	1e-12
585739	461	RecName: Full=Photosystem II CP43 chloro	0.928	0.169	0.379	1e-12
326554899	211	photosystem II CP43 protein [Anarthria s	0.761	0.303	0.440	1e-12

>gi|193735607|ref|YP_740471.2| photosystem II CP43 chlorophyll apoprotein [Citrus sinensis]

 Score = 80.5 bits (197), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 44/98 (44%), Positives = 50/98 (51%), Gaps = 29/98 (29%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGERLEKL 71
                            LYF  +YD+WAP  GE L K+
Sbjct: 151 IHLILLGIGAFLLVFKALYFGGVYDTWAPGGGEMLRKI 188

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|122166187|sp|Q09MI2.1|PSBC_CITSI RecName: Full=Photosystem II CP43 chlorophyll apoprotein; AltName: Full=PSII 43 kDa protein; AltName: Full=Photosystem II 44 kDa reaction center protein; AltName: Full=Protein CP-43; AltName: Full=Protein P6; Flags: Precursor gi|113952618|gb|ABI49016.1| photosystem II CP43 chlorophyll apoprotein [Citrus sinensis]

 Score = 80.1 bits (196), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 44/98 (44%), Positives = 50/98 (51%), Gaps = 29/98 (29%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGERLEKL 71
                            LYF  +YD+WAP  GE L K+
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGVYDTWAPGGGEMLRKI 200

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|169159404|gb|ACA49215.1| photosystem II CP43 protein [Polypodium hesperium]

 Score = 78.2 bits (191), Expect = 6e-13,   Method: Composition-based stats.
 Identities = 42/96 (43%), Positives = 49/96 (51%), Gaps = 29/96 (30%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+V+DTFPY +S V HLI S +L F  IYHA +G ET EESF FFGYT            
Sbjct: 103 GEVVDTFPYFVSGVLHLISSAVLGFGGIYHALIGPETLEESFPFFGYTWKDKNKMTTILG 162

Query: 51  -----------------LYFRDLYDSWAPRDGERLE 69
                            LYF  LYD+WAP  G+  E
Sbjct: 163 IHLILLGLGAFLLVFKALYFGGLYDTWAPGGGDVRE 198

Source: Polypodium hesperium

Species: Polypodium hesperium

Genus: Polypodium

Family: Polypodiaceae

Order: Polypodiales

Class: Polypodiopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|346455139|gb|AEO31386.1| photosystem II 44 kDa protein [Chaetophora incrassata]

 Score = 77.4 bits (189), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/108 (38%), Positives = 54/108 (50%), Gaps = 30/108 (27%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+VIDTFPY +S V HLI S +L F  +YHA +G ET EE+F FFGYT            
Sbjct: 18  GEVIDTFPYFVSGVLHLISSAVLGFGGVYHALIGPETLEETFPFFGYTWKDKNKMTSILG 77

Query: 51  -----------------LYFRDLYDSWAPRDGE-RLEKLPTQRLVQVF 80
                            +YF  +YD+WAP  G+ R+   PT     +F
Sbjct: 78  FHLIILGFGAWLLVWKAMYFGGVYDTWAPGGGDTRIITNPTTNPAVIF 125

Source: Chaetophora incrassata

Species: Chaetophora incrassata

Genus: Chaetophora

Family: Chaetophoraceae

Order: Chaetophorales

Class: Chlorophyceae

Phylum: Chlorophyta

Superkingdom: Eukaryota

>gi|326554876|gb|ADZ93622.1| photosystem II CP43 protein [Georgeantha hexandra]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 42/93 (45%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  LYD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVLKALYFGGLYDTWAPGGGD 195

Source: Georgeantha hexandra

Species: Georgeantha hexandra

Genus: Georgeantha

Family: Ecdeiocoleaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|27414154|gb|AAO12050.1| photosystem II protein [Citrus limon]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 90  GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 149

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 150 IHLILLGIGAFLLVFKALYFGGVYDTWAPGGGD 182

Source: Citrus limon

Species: Citrus limon

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|309322219|ref|YP_003934297.1| photosystem II CP43 chlorophyll apoprotein [Monsonia speciosa] gi|197132060|gb|ACH47548.1| photosystem II CP43 chlorophyll apoprotein [Monsonia speciosa] gi|300069312|gb|ADJ66432.1| photosystem II CP43 chlorophyll apoprotein [Monsonia speciosa]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/93 (45%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 162

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  LYD+WAP  G+
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGLYDTWAPGGGD 195

Source: Monsonia speciosa

Species: Monsonia speciosa

Genus: Monsonia

Family: Geraniaceae

Order: Geraniales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|374974668|gb|AFA27427.1| photosystem II CP43 chlorophyll apoprotein, partial [Georgeantha hexandra]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 42/93 (45%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 116 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 175

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  LYD+WAP  G+
Sbjct: 176 IHLILLGIGAFLLVLKALYFGGLYDTWAPGGGD 208

Source: Georgeantha hexandra

Species: Georgeantha hexandra

Genus: Georgeantha

Family: Ecdeiocoleaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|585739|sp|Q08684.1|PSBC_CHLMO RecName: Full=Photosystem II CP43 chlorophyll apoprotein; AltName: Full=PSII 43 kDa protein; AltName: Full=Photosystem II 44 kDa reaction center protein; AltName: Full=Protein CP-43; AltName: Full=Protein P6; Flags: Precursor gi|289949|gb|AAA84148.1| chlorophyll a-binding protein [Chlamydomonas moewusii]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 41/108 (37%), Positives = 53/108 (49%), Gaps = 30/108 (27%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  +YH+ +G ET EESF FFGY             
Sbjct: 91  GEVIDTFPYFVSGVLHLISSAVLGFGGVYHSLIGPETLEESFPFFGYIWKDKNKMTSILG 150

Query: 50  ----------------TLYFRDLYDSWAPRDGE-RLEKLPTQRLVQVF 80
                            +YF  +YD+WAP  G+ R+   PT     +F
Sbjct: 151 YHLIMLGCGAWLLVLKAMYFGGIYDTWAPGGGDVRIITNPTTNFATIF 198

Source: Chlamydomonas moewusii

Species: Chlamydomonas moewusii

Genus: Chlamydomonas

Family: Chlamydomonadaceae

Order: Chlamydomonadales

Class: Chlorophyceae

Phylum: Chlorophyta

Superkingdom: Eukaryota

>gi|326554899|gb|ADZ93637.1| photosystem II CP43 protein [Anarthria scabra]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/93 (44%), Positives = 47/93 (50%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 92  GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDRNKMTTILG 151

Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            LYF  +YD+WAP  G+
Sbjct: 152 IHLILLGIGAFLLVLKALYFGGVYDTWAPGGGD 184

Source: Anarthria scabra

Species: Anarthria scabra

Genus: Anarthria

Family: Anarthriaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	84
UNIPROTKB|P0C365	473	psbC "Photosystem II CP43 chlo	0.559	0.099	0.659	3.1e-15
UNIPROTKB|P0C366	473	psbC "Photosystem II CP43 chlo	0.559	0.099	0.659	3.1e-15
UNIPROTKB|P0C367	473	psbC "Photosystem II CP43 chlo	0.559	0.099	0.659	3.1e-15
UNIPROTKB|Q6ENJ0	473	psbC "Photosystem II CP43 chlo	0.559	0.099	0.659	3.1e-15
UNIPROTKB|P09193	460	psbC "Photosystem II 44 kDa re	0.559	0.102	0.510	5.2e-10

UNIPROTKB|P0C365 psbC "Photosystem II CP43 chlorophyll apoprotein" [Oryza sativa (taxid:4530)]

 Score = 165 (63.1 bits), Expect = 3.1e-15, Sum P(2) = 3.1e-15
 Identities = 31/47 (65%), Positives = 35/47 (74%)

Query:     3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
             G+V+DTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY
Sbjct:   103 GEVLDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGY 149

GO:0009536 "plastid" evidence=IC

UNIPROTKB|P0C366 psbC "Photosystem II CP43 chlorophyll apoprotein" [Oryza sativa Indica Group (taxid:39946)]

 Score = 165 (63.1 bits), Expect = 3.1e-15, Sum P(2) = 3.1e-15
 Identities = 31/47 (65%), Positives = 35/47 (74%)

Query:     3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
             G+V+DTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY
Sbjct:   103 GEVLDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGY 149

GO:0009536 "plastid" evidence=IC

UNIPROTKB|P0C367 psbC "Photosystem II CP43 chlorophyll apoprotein" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 165 (63.1 bits), Expect = 3.1e-15, Sum P(2) = 3.1e-15
 Identities = 31/47 (65%), Positives = 35/47 (74%)

Query:     3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
             G+V+DTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY
Sbjct:   103 GEVLDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGY 149

GO:0009536 "plastid" evidence=IC

UNIPROTKB|Q6ENJ0 psbC "Photosystem II CP43 chlorophyll apoprotein" [Oryza nivara (taxid:4536)]

 Score = 165 (63.1 bits), Expect = 3.1e-15, Sum P(2) = 3.1e-15
 Identities = 31/47 (65%), Positives = 35/47 (74%)

Query:     3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
             G+V+DTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY
Sbjct:   103 GEVLDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGY 149

GO:0009536 "plastid" evidence=IC

UNIPROTKB|P09193 psbC "Photosystem II 44 kDa reaction center protein" [Synechocystis sp. PCC 6803 substr. Kazusa (taxid:1111708)]

 Score = 120 (47.3 bits), Expect = 5.2e-10, Sum P(2) = 5.2e-10
 Identities = 24/47 (51%), Positives = 28/47 (59%)

Query:     3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
             G+V D FP+ +  V HLI S +L    IYHA  G E  EE  SFFGY
Sbjct:    90 GEVTDIFPFFVVGVLHLISSAVLGLGGIYHALRGPEVLEEYSSFFGY 136

GO:0030096 "plasma membrane-derived thylakoid photosystem II" 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!

---

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	Length	Definition	E-value
Query	84
CHL00035	473	CHL00035, psbC, photosystem II 44 kDa protein	3e-18
TIGR01153	432	TIGR01153, psbC, photosystem II 44 kDa subunit rea	5e-13
pfam00421	432	pfam00421, PSII, Photosystem II protein	1e-09
TIGR03041	321	TIGR03041, PS_antenn_a_b, chlorophyll a/b binding	1e-04

>gnl|CDD|214343 CHL00035, psbC, photosystem II 44 kDa protein

 Score = 76.7 bits (189), Expect = 3e-18
 Identities = 43/101 (42%), Positives = 49/101 (48%), Gaps = 30/101 (29%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+VIDTFPY +S V HLI S +L F  IYHA LG ET EESF FFGY             
Sbjct: 103 GEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDKNKMTTILG 162

Query: 51  -----------------LYFRDLYDSWAPRDGE-RLEKLPT 73
                            LYF  +YD+WAP  G+ R     T
Sbjct: 163 IHLILLGIGAFLLVFKALYFGGVYDTWAPGGGDVRKITNLT 203

Length = 473

>gnl|CDD|213589 TIGR01153, psbC, photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast

 Score = 62.1 bits (151), Expect = 5e-13
 Identities = 35/101 (34%), Positives = 45/101 (44%), Gaps = 30/101 (29%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+D FP+ +  V HLI S +L F  IYH+  G E  EE  SFFGY             
Sbjct: 71  GEVVDIFPFFVVGVLHLISSAVLGFGGIYHSLRGPEKLEEYSSFFGYDWKDKNQMTNILG 130

Query: 50  ----------------TLYFRDLYDSWAPRDGE-RLEKLPT 73
                             +F  +YD+WAP  G+ RL   PT
Sbjct: 131 YHLILLGIGALLLVAKACFFGGIYDTWAPGGGDVRLITNPT 171

This model describes the Photosystem II, 44kDa subunit (also called P6 protein, CP43) in bacterial and its equivalents in chloroplast of algae and higher plants. Photosystem II is in many ways functionally equivalent to bacterial reaction center. At the core of Photosystem II are several light harvesting cofactors including plastoquinones, pheophytins, phyloquinones etc. These cofactors are intimately associated with the polypeptides, which principally including subunits 44 kDa protein,DI, DII, Cyt.b, Cyt.f, iron-sulphur protein and others. Functinally 44 kDa subunit is imlicated in chlorophyll binding. Together they participate in the electron transfer reactions that lead to the net production of the reducting equivalents in the form of NADPH, which are used for reduction of CO2 to carbohydrates(C6H1206). Phosystem II operates during oxygenic photosynthesis and principal electron donor is H2O. Although no high resolution X-ray structural data is presently available, recently a 3D structure of the supercomplex has been described by cryo-electron microscopy. Besides a huge body of literature exits that describes function using a variety of biochemical and biophysical techniques [Energy metabolism, Electron transport, Energy metabolism, Photosynthesis]. Length = 432

>gnl|CDD|215911 pfam00421, PSII, Photosystem II protein

 Score = 52.1 bits (125), Expect = 1e-09
 Identities = 21/48 (43%), Positives = 27/48 (56%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT 50
           G VIDT PY +  V HLI S +L    ++HA +G     +S  FFG T
Sbjct: 72  GWVIDTEPYFVPGVEHLISSAVLGSGGLFHALIGPWVLWDSLEFFGRT 119

Length = 432

>gnl|CDD|213761 TIGR03041, PS_antenn_a_b, chlorophyll a/b binding light-harvesting protein

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 4/51 (7%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEES----FSFFGY 49
           G   DT+P  +  + HLI S +L    + H+ L      ES       F  
Sbjct: 69  GVWTDTYPVFVIAILHLISSAVLGAGGLLHSLLFPGDLAESEVPRARKFKL 119

This model represents a family of proteins from the Cyanobacteria, closely homologous to and yet distinct from PbsC, a chlorophyll a antenna protein of photosystem II. Members are not univerally present in Cyanobacteria, while the family has several members per genome in Prochlorococcus marinus, with seven members in a strain adapted to low light conditions. These antenna proteins may deliver light energy to photosystem I and/or photosystem II [Energy metabolism, Photosynthesis]. Length = 321

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	84
CHL00035	473	psbC photosystem II 44 kDa protein	100.0
TIGR01153	432	psbC photosystem II 44 kDa subunit reaction center	100.0
TIGR03041	321	PS_antenn_a_b chlorophyll a/b binding light-harves	99.96
PF00421	437	PSII: Photosystem II protein; InterPro: IPR000932	99.93
PLN00068	508	photosystem II CP47 chlorophyll A apoprotein; Prov	99.8
CHL00062	504	psbB photosystem II 47 kDa protein	99.74
TIGR03039	504	PS_II_CP47 photosystem II chlorophyll-binding prot	99.68

>CHL00035 psbC photosystem II 44 kDa protein

Probab=100.00  E-value=2.1e-34  Score=234.18  Aligned_cols=82  Identities=54%  Similarity=0.933  Sum_probs=78.8

Q ss_pred             cceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcccccceeE-----------------------------ee
Q 037213            2 FGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT-----------------------------LY   52 (84)
Q Consensus         2 ~G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~~~F~~~-----------------------------~~   52 (84)
                      -|||+||||||+|||+|||||+|||+|||||++++|++|||+..+|+||                             ++
T Consensus       102 gGei~dtypyfvIgvlHLIsSaVlg~Ggl~H~~~gP~~Le~~~~~F~~~W~D~~~lt~ILG~HLi~LG~galllv~kA~~  181 (473)
T CHL00035        102 GGEVIDTFPYFVSGVLHLISSAVLGFGGIYHALLGPETLEESFPFFGYVWKDKNKMTTILGIHLILLGIGAFLLVFKALY  181 (473)
T ss_pred             CceEeccccchhHHHHHHHHHHHHHHHHhHhhhcCccccccccccccccccChhhhhhHHHHHHHHHHHHHHHHHHHHhe
Confidence            3899999999999999999999999999999999999999976788888                             89


Q ss_pred             eeeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           53 FRDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        53 ~gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                      +|||||+|+|++|+ |+|++|||||.+||+||
T Consensus       182 ~gGlYD~Wap~~G~VR~Vt~PtLnp~~I~~Y~  213 (473)
T CHL00035        182 FGGVYDTWAPGGGDVRKITNLTLSPSVIFGYL  213 (473)
T ss_pred             eCccccCccCCCCceEEeCCCCCChHHhhhhc
Confidence            99999999999999 99999999999999997

>TIGR01153 psbC photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast

Probab=100.00  E-value=3.5e-34  Score=231.14  Aligned_cols=82  Identities=44%  Similarity=0.835  Sum_probs=78.8

Q ss_pred             cceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcccccceeE-----------------------------ee
Q 037213            2 FGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT-----------------------------LY   52 (84)
Q Consensus         2 ~G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~~~F~~~-----------------------------~~   52 (84)
                      -|||+||||||+||++|||||+|||+|||||++++||+|||+.++|+||                             ++
T Consensus        70 gGei~d~ypyfvIgvlHLIsSaVlg~Ggl~H~~~gpe~L~e~~~~F~~eW~D~~~lt~ILGhHLi~LG~gallfv~kA~~  149 (432)
T TIGR01153        70 GGEVVDIFPFFVVGVLHLISSAVLGFGGIYHSLRGPEKLEEYSSFFGYDWKDKNQMTNILGYHLILLGIGALLLVAKACF  149 (432)
T ss_pred             CCeEeccccchhHHHHHHHHHHHHHHHHHHHHhhCHHhhhhcccccCccccChhhhhHHHHHHHHHHHHHHHHHHHhHhe
Confidence            3899999999999999999999999999999999999999987888886                             89


Q ss_pred             eeeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           53 FRDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        53 ~gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                      +|||||||+|++|+ |+||+|||||.+||+||
T Consensus       150 ~gGlYD~Wap~~G~VR~Vt~PtLnp~~I~~Y~  181 (432)
T TIGR01153       150 FGGIYDTWAPGGGDVRLITNPTLDPRVIFGYL  181 (432)
T ss_pred             eCcccCCCCCCCCceEEeCCCCCChHHhhhhc
Confidence            99999999999999 99999999999999997

This model describes the Photosystem II, 44kDa subunit (also called P6 protein, CP43) in bacterial and its equivalents in chloroplast of algae and higher plants. Photosystem II is in many ways functionally equivalent to bacterial reaction center. At the core of Photosystem II are several light harvesting cofactors including plastoquinones, pheophytins, phyloquinones etc. These cofactors are intimately associated with the polypeptides, which principally including subunits 44 kDa protein,DI, DII, Cyt.b, Cyt.f, iron-sulphur protein and others. Functinally 44 kDa subunit is imlicated in chlorophyll binding. Together they participate in the electron transfer reactions that lead to the net production of the reducting equivalents in the form of NADPH, which are used for reduction of CO2 to carbohydrates(C6H1206). Phosystem II operates during oxygenic photosynthesis a

>TIGR03041 PS_antenn_a_b chlorophyll a/b binding light-harvesting protein

Probab=99.96  E-value=2.1e-30  Score=203.64  Aligned_cols=77  Identities=25%  Similarity=0.348  Sum_probs=71.1

Q ss_pred             cceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcc----cccceeE---------------------------
Q 037213            2 FGKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEES----FSFFGYT---------------------------   50 (84)
Q Consensus         2 ~G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~----~~~F~~~---------------------------   50 (84)
                      -|||+||||||+||++|||||+|||+|||||++++|+||+|+    +++|+||                           
T Consensus        68 gG~i~d~y~yfvIgvlHLIsSaVlg~Ggl~H~~~gp~~L~~~~~~~~~~F~~dW~d~~~lt~ILG~HL~~lG~~a~lfv~  147 (321)
T TIGR03041        68 AGVWTDTYPVFVIAILHLISSAVLGAGGLLHSLLFPGDLAESEVPRARKFKLEWDDPDKLTFILGHHLIFLGLGAILFVE  147 (321)
T ss_pred             CceEecCcceehhHHHHHHHHHHHHHhHHHhHhcCchhhhhccccccCCccccccCccccchhhhHHHHHHHHHHHHHHH
Confidence            489999999999999999999999999999999999999997    5678887                           


Q ss_pred             --eeeeeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           51 --LYFRDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        51 --~~~gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                        + ++|||||..   |+ |+| +||+||.+||+||
T Consensus       148 ~A~-~~GlYDp~~---G~VR~V-~p~l~p~~i~~y~  178 (321)
T TIGR03041       148 WAR-WHGIYDPAI---GAVRQV-EYNLNLAMIWNHQ  178 (321)
T ss_pred             HHh-hcCeecCCC---CcEEEe-CCCCCHHHHhhcc
Confidence              6 559999854   99 999 9999999999998

This model represents a family of proteins from the Cyanobacteria, closely homologous to and yet distinct from PbsC, a chlorophyll a antenna protein of photosystem II. Members are not univerally present in Cyanobacteria, while the family has several members per genome in Prochlorococcus marinus, with seven members in a strain adapted to low light conditions. These antenna proteins may deliver light energy to photosystem I and/or photosystem II.

>PF00421 PSII: Photosystem II protein; InterPro: IPR000932 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=99.93  E-value=7.2e-29  Score=200.94  Aligned_cols=79  Identities=38%  Similarity=0.760  Sum_probs=76.1

Q ss_pred             ceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcccccceeE-----------------------------eee
Q 037213            3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT-----------------------------LYF   53 (84)
Q Consensus         3 G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~~~F~~~-----------------------------~~~   53 (84)
                      |+|+||||||+||++|||||+|||+|||||++++|++|+|++++|+|+                             +++
T Consensus        73 G~ivd~~~~f~igv~HlisSaVlg~Ggl~Ha~~gp~~l~d~~~~F~~~w~d~~~lt~IlG~HL~llG~~~~lfv~~a~~~  152 (437)
T PF00421_consen   73 GEIVDTYPYFVIGVLHLISSAVLGAGGLFHALIGPETLEDSAPFFGYDWDDPNKLTKILGIHLILLGLGCFLFVAKAMTG  152 (437)
T ss_dssp             SCBTTSHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHSTTTCGGGBTTTSBHHHHHHHHHHHHHHHHHHHHHHHHHTTTS
T ss_pred             ceEEcceeeeEeEEeEehHHHHhhhhHHHHHHhhchhhcchhhhhcccCCChHHhhhhhhHhHHHHHHHHHHHHHHHHee
Confidence            789999999999999999999999999999999999999988899988                             888


Q ss_pred             eeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           54 RDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        54 gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                      +|+||||++  || |+||+|++||.+||+||
T Consensus       153 ~G~yD~w~~--Gdvr~vt~~~l~~~~i~gy~  181 (437)
T PF00421_consen  153 GGIYDPWAS--GDVRGVTGPTLNPAPIWGYL  181 (437)
T ss_dssp             TTSEEEEES--SECCSSSSEEESHHHHHSGG
T ss_pred             CCccCCCCC--CCceEeCCCCcChhhccccc
Confidence            999999997  89 99999999999999997

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 []. This family represents the intrinsic antenna proteins CP43 (PsbC) and CP47 (PsbB) found in the reaction centre of PSII. These polypeptides bind to chlorophyll a and beta-carotene and pass the excitation energy on to the reaction centre []. This family also includes the iron-stress induced chlorophyll-binding protein CP43' (IsiA), which evolved in cyanobacteria from a PSII protein to cope with light limitations and stress conditions. Under iron-deficient growth conditions, CP43' associates with PSI to form a complex that consists of a ring of 18 or more CP43' molecules around a PSI trimer, which significantly increases the light-harvesting system of PSI. IsiA can also provide photoprotection for PSII [].; GO: 0016168 chlorophyll binding, 0009767 photosynthetic electron transport chain, 0019684 photosynthesis, light reaction, 0009521 photosystem, 0016020 membrane; PDB: 3A0B_b 3A0H_b 3ARC_b 2AXT_B 1S5L_B 3BZ1_B 1IZL_L 1W5C_B 3KZI_B 4FBY_N ....

>PLN00068 photosystem II CP47 chlorophyll A apoprotein; Provisional

Probab=99.80  E-value=1.2e-20  Score=154.89  Aligned_cols=72  Identities=17%  Similarity=0.191  Sum_probs=62.5

Q ss_pred             ceEeec--cceeehhHHHHHHHHhhccccchhhhccccchhcc--cccceeE--------------------eee-eeee
Q 037213            3 GKVIDT--FPYILSEVFHLICSVILDFDNIYHAFLGLETFEES--FSFFGYT--------------------LYF-RDLY   57 (84)
Q Consensus         3 G~i~dt--ypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~--~~~F~~~--------------------~~~-gGiY   57 (84)
                      |+|+|+  ||||+||++|||||+|||+|||||++++|.+|.|+  +++|+||                    ++| +|||
T Consensus        83 g~v~d~G~~~yfvVgvlHLIsSaVLg~Ggl~H~v~~~~dl~e~~~t~~F~~dlp~ILG~HLillGl~c~lF~a~h~~GlY  162 (508)
T PLN00068         83 GTVTNPGIWSYEGVAGAHIVFSGLCFLAAIWHWVYWDLEIFCDERTGKPSLDLPKIFGIHLFLSGVACFGFGAFHVTGLY  162 (508)
T ss_pred             ceeccCCcccchhHHHHHHHHHHHHHhhhhhhhhccChhhccccccCccccCCcchhhHhHHHHHHHHHHHHHHHhcccc
Confidence            568996  99999999999999999999999999999888764  6689999                    344 5999


Q ss_pred             cC--CCCC----CCc-eeeecCCCC
Q 037213           58 DS--WAPR----DGE-RLEKLPTQR   75 (84)
Q Consensus        58 D~--~~~g----gG~-R~Vt~ptln   75 (84)
                      ||  |+|+    +|+ |+| +||++
T Consensus       163 DpgiW~sd~~gl~G~VR~V-~P~~g  186 (508)
T PLN00068        163 GPGIWVSDPYGLTGKVQPV-NPAWG  186 (508)
T ss_pred             CCcccccCCcCCCCceEEe-cccCC
Confidence            99  9998    699 999 89433

>CHL00062 psbB photosystem II 47 kDa protein

Probab=99.74  E-value=7.4e-19  Score=144.48  Aligned_cols=74  Identities=16%  Similarity=0.186  Sum_probs=62.2

Q ss_pred             cce-Eeec--cceeehhHHHHHHHHhhccccchhhhccccchhcc--cccceeE--------------------ee-eee
Q 037213            2 FGK-VIDT--FPYILSEVFHLICSVILDFDNIYHAFLGLETFEES--FSFFGYT--------------------LY-FRD   55 (84)
Q Consensus         2 ~G~-i~dt--ypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~--~~~F~~~--------------------~~-~gG   55 (84)
                      +|| |+||  ||||+||++|||||+|||+|||||++++|.+|.|+  +.+|.+|                    ++ .+|
T Consensus        81 ~Ge~v~d~g~y~yf~VgvlHLIsSaVLg~Ggi~H~~~~~~dl~e~~~~~~~~~dLt~ILG~HLillGl~c~lF~a~h~~G  160 (504)
T CHL00062         81 TGETVTNPGIWSYEGVAGAHIVLSGLCFLAAIWHWVYWDLEIFRDERTGKPSLDLPKIFGIHLFLSGVLCFGFGAFHVTG  160 (504)
T ss_pred             ccceeccCCcccchhHHHHHHHHHHHHhhhheeeeeecchhhccccccccccccchhHhHHHHHHHHHHHHHHHHHHcCc
Confidence            576 8877  99999999999999999999999999998888774  4567778                    33 459


Q ss_pred             eecC--CCCCC----Cc-eeeecCCCCc
Q 037213           56 LYDS--WAPRD----GE-RLEKLPTQRL   76 (84)
Q Consensus        56 iYD~--~~~gg----G~-R~Vt~ptlnp   76 (84)
                      +|||  |+|--    |+ |+| +|++||
T Consensus       161 lYdpgiW~sdpy~l~G~Vr~V-~p~~g~  187 (504)
T CHL00062        161 LYGPGIWVSDPYGLTGKVQPV-NPAWGA  187 (504)
T ss_pred             cccCcccccCcccccceEEEe-cCCCCc
Confidence            9999  75543    78 999 899988

>TIGR03039 PS_II_CP47 photosystem II chlorophyll-binding protein CP47

Probab=99.68  E-value=1.3e-17  Score=137.20  Aligned_cols=74  Identities=11%  Similarity=0.052  Sum_probs=58.6

Q ss_pred             ceEeec--cceeehhHHHHHHHHhhccccchhhhccccchhccc--ccceeE--------------------eee-eeee
Q 037213            3 GKVIDT--FPYILSEVFHLICSVILDFDNIYHAFLGLETFEESF--SFFGYT--------------------LYF-RDLY   57 (84)
Q Consensus         3 G~i~dt--ypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~--~~F~~~--------------------~~~-gGiY   57 (84)
                      |+|+||  ||||+||++|||||+|||+|||||++++|++|.++.  ..-+++                    ++| +|+|
T Consensus        83 G~vvd~g~y~yf~VgvlHLIsSaVLg~Ggi~H~v~~~~dL~~~p~~ge~~~~Lt~ILG~HLillGl~c~lF~a~h~~GlY  162 (504)
T TIGR03039        83 ETGVDPGFWSFEGVAAAHIVLSGLLFLAACWHWVYWDLELFRDPRTGEPALDLPKIFGIHLFLSGLLCFGFGAFHLSGLF  162 (504)
T ss_pred             ceeccCCccceehhHHHHHHHHHHHhhhheeeeeecchhhccCCCCcchhhcchhHHHHHHHHHHHHHHHHHHHHcCccc
Confidence            679997  999999999999999999999999999999997642  112344                    444 4899


Q ss_pred             cCC--CCC----CCc-eeeecCCCCce
Q 037213           58 DSW--APR----DGE-RLEKLPTQRLV   77 (84)
Q Consensus        58 D~~--~~g----gG~-R~Vt~ptlnp~   77 (84)
                      ||.  +|-    .|+ |+| +|++|+.
T Consensus       163 Dpg~W~sDPy~l~G~Vr~V-~p~~g~~  188 (504)
T TIGR03039       163 GPGMWVSDPYGLTGHVQPV-APEWGAD  188 (504)
T ss_pred             cCcccccCcccceeEEEEe-cCCCCcc
Confidence            993  110    288 999 8999885

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	84
1s5l_C	473	Architecture Of The Photosynthetic Oxygen Evolving		3e-11
3kzi_C	461	Crystal Structure Of Monomeric Form Of Cyanobacteri		3e-11
3arc_C	455	Crystal Structure Of Oxygen-Evolving Photosystem Ii		3e-11
3a0b_C	447	Crystal Structure Of Br-Substituted Photosystem Ii		4e-11
1izl_C	473	Crystal Structure Of Photosystem Ii Length = 473		5e-11

>pdb|1S5L|C Chain C, Architecture Of The Photosynthetic Oxygen Evolving Center Length = 473

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)
Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 103 GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 162
Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 163 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 195

>pdb|3KZI|C Chain C, Crystal Structure Of Monomeric Form Of Cyanobacterial Photosystem Ii Length = 461

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)
Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 91  GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 150
Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 151 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 183

>pdb|3ARC|C Chain C, Crystal Structure Of Oxygen-Evolving Photosystem Ii At 1.9 Angstrom Resolution Length = 455

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)
Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 85  GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 144
Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 145 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 177

>pdb|3A0B|C Chain C, Crystal Structure Of Br-Substituted Photosystem Ii Complex Length = 447

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Composition-based stats.
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)
Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 77  GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 136
Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 137 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 169

>pdb|1IZL|C Chain C, Crystal Structure Of Photosystem Ii Length = 473

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Composition-based stats.
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)
Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY------------- 49
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 103 GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 162
Query: 50  ----------------TLYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 163 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 195

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	84
3arc_C	455	Photosystem II core light harvesting protein CP43;	4e-07
3arc_B	504	Photosystem II core light harvesting protein CP47;	2e-04

>3arc_C Photosystem II core light harvesting protein CP43; 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: 3bz1_C* 1s5l_C* 1w5c_C* 2axt_C* 3bz2_C* 3prq_C* 3kzi_C* 3prr_C* 3a0b_C* 3a0h_C* 1izl_C* Length = 455

 Score = 44.7 bits (105), Expect = 4e-07
 Identities = 38/108 (35%), Positives = 50/108 (46%), Gaps = 30/108 (27%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 85  GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 144

Query: 51  -----------------LYFRDLYDSWAPRDGE-RLEKLPTQRLVQVF 80
                            ++F  LYD+WAP  G+ R+   PT     +F
Sbjct: 145 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGDVRVITNPTLDPRVIF 192

>3arc_B Photosystem II core light harvesting protein CP47; 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: 3bz1_B* 1s5l_B* 1w5c_B* 2axt_B* 3bz2_B* 3kzi_B* 3prq_B* 3prr_B* 3a0b_B* 3a0h_B* 1izl_B* Length = 504

 Score = 37.1 bits (85), Expect = 2e-04
 Identities = 6/47 (12%), Positives = 13/47 (27%), Gaps = 1/47 (2%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGY 49
           G     + +    + H++ S +L     +H               G 
Sbjct: 84  GIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFR-DPRTGE 129

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	84
3arc_C	455	Photosystem II core light harvesting protein CP43;	99.97
3arc_B	504	Photosystem II core light harvesting protein CP47;	99.77

>3arc_C Photosystem II core light harvesting protein CP43; 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: 3bz1_C* 1s5l_C* 1w5c_C* 2axt_C* 3bz2_C* 3prq_C* 3kzi_C* 3prr_C* 3a0b_C* 3a0h_C* 1izl_C*

Probab=99.97  E-value=7.9e-34  Score=228.88  Aligned_cols=81  Identities=47%  Similarity=0.892  Sum_probs=78.0

Q ss_pred             ceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcccccceeE-----------------------------eee
Q 037213            3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT-----------------------------LYF   53 (84)
Q Consensus         3 G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~~~F~~~-----------------------------~~~   53 (84)
                      |||+||||||+||++|||||+|||+|||||++++||+|||+.++|+||                             +++
T Consensus        85 GeivdtypyfvIgvlHLIsSaVLg~Ggi~H~~~gpe~L~e~~~~F~~eW~d~~~lt~ILG~HLilLG~g~~lfv~kA~~~  164 (455)
T 3arc_C           85 GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILGFHLIVLGIGALLLVAKAMFF  164 (455)
T ss_dssp             GCBCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTSCSCSTTTCTTTCCCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             CeEecccceeehhHHHHHHHHHHHhhHhhhhhcCchhhcccccccCcccCChHHhhHHHHHHHHHHHHHHHHHHhhHhee
Confidence            899999999999999999999999999999999999999987789988                             789


Q ss_pred             eeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           54 RDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        54 gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                      |||||||+|++|+ |+|++|||||.+||+|+
T Consensus       165 gGlYD~Wa~~~G~VR~Vt~ptLnp~~I~~Y~  195 (455)
T 3arc_C          165 GGLYDTWAPGGGDVRVITNPTLDPRVIFGYL  195 (455)
T ss_dssp             SCEEETTCTTSCEEECCCSCCCCHHHHHHHH
T ss_pred             CccccCCcCCCCcEEEeCCCCCChHHhhccc
Confidence            9999999999999 99999999999999995

>3arc_B Photosystem II core light harvesting protein CP47; 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: 3bz1_B* 1s5l_B* 1w5c_B* 2axt_B* 3bz2_B* 3kzi_B* 3prq_B* 3prr_B* 3a0b_B* 3a0h_B* 1izl_B*

Probab=99.77  E-value=2.9e-20  Score=151.62  Aligned_cols=72  Identities=13%  Similarity=0.121  Sum_probs=59.8

Q ss_pred             ceE-e--eccceeehhHHHHHHHHhhccccchhhhccccchhcc--cccceeE---------------------eeeeee
Q 037213            3 GKV-I--DTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEES--FSFFGYT---------------------LYFRDL   56 (84)
Q Consensus         3 G~i-~--dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~--~~~F~~~---------------------~~~gGi   56 (84)
                      ||| +  |+||||+||++|||||+|||+|||||++++|++|.++  +.+|.+|                     ++.+|+
T Consensus        81 Gevv~~~~~ypyfvIgvlHLIsSaVLg~Ggi~H~l~~~~dl~~~~~~~~f~~dlt~ILGiHLilLGlg~~lf~a~h~~Gl  160 (504)
T 3arc_B           81 GETGIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFRDPRTGEPALDLPKMFGIHLFLAGLLCFGFGAFHLTGL  160 (504)
T ss_dssp             SCCSCCCCSCSHHHHHHHHHHHHHHHHHHHHHHHHTCCBGGGBCTTTCSBCCCHHHHHHHHHHHHHHHHHHHHHTTTTST
T ss_pred             ceEeecCCcccEEeehHHHHHHHHHHhhhhhheeeccchhhcCCcccccchhhhhHHHhHHHHHHHHHHHHHHHHhcccc
Confidence            566 4  4599999999999999999999999999999999875  5678888                     345689


Q ss_pred             ec-------CCCCCCCc-eeeecCCCCc
Q 037213           57 YD-------SWAPRDGE-RLEKLPTQRL   76 (84)
Q Consensus        57 YD-------~~~~ggG~-R~Vt~ptlnp   76 (84)
                      ||       ||++ +|+ |+| +||+||
T Consensus       161 YdpgiW~sD~~~~-~G~VR~V-~pt~g~  186 (504)
T 3arc_B          161 FGPGMWVSDPYGL-TGSVQPV-APEWGP  186 (504)
T ss_dssp             TSCCEEECCTTSS-SCEEECC-CCCCSG
T ss_pred             ccCCccccCCCCC-CccEEEe-cCCCCC
Confidence            94       4544 788 999 899665

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	84
d2axtc1	447	f.55.1.1 (C:27-473) Photosystem II CP43 protein Ps	2e-09
d2axtb1	488	f.55.1.1 (B:2-489) Photosystem II core light harve	3e-04

>d2axtc1 f.55.1.1 (C:27-473) Photosystem II CP43 protein PsbC {Thermosynechococcus elongatus [TaxId: 146786]} Length = 447

class: Membrane and cell surface proteins and peptides
fold: Photosystem II antenna protein-like
superfamily: Photosystem II antenna protein-like
family: Photosystem II antenna protein-like
domain: Photosystem II CP43 protein PsbC
species: Thermosynechococcus elongatus [TaxId: 146786]

 Score = 50.2 bits (120), Expect = 2e-09
 Identities = 34/93 (36%), Positives = 44/93 (47%), Gaps = 29/93 (31%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT------------ 50
           G+V+DTFP+ +  V HLI S +L F  +YHA  G ET EE  SFFGY             
Sbjct: 77  GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILG 136

Query: 51  -----------------LYFRDLYDSWAPRDGE 66
                            ++F  LYD+WAP  G+
Sbjct: 137 FHLIVLGIGALLLVAKAMFFGGLYDTWAPGGGD 169

>d2axtb1 f.55.1.1 (B:2-489) Photosystem II core light harvesting protein PsbB {Thermosynechococcus elongatus [TaxId: 146786]} Length = 488

class: Membrane and cell surface proteins and peptides
fold: Photosystem II antenna protein-like
superfamily: Photosystem II antenna protein-like
family: Photosystem II antenna protein-like
domain: Photosystem II core light harvesting protein PsbB
species: Thermosynechococcus elongatus [TaxId: 146786]

 Score = 35.2 bits (81), Expect = 3e-04
 Identities = 5/45 (11%), Positives = 12/45 (26%)

Query: 3   GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFF 47
           G     + +    + H++ S +L     +H               
Sbjct: 84  GIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFRDPRTG 128

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	84
d2axtc1	447	Photosystem II CP43 protein PsbC {Thermosynechococ	99.95
d2axtb1	488	Photosystem II core light harvesting protein PsbB	99.63

>d2axtc1 f.55.1.1 (C:27-473) Photosystem II CP43 protein PsbC {Thermosynechococcus elongatus [TaxId: 146786]}

class: Membrane and cell surface proteins and peptides
fold: Photosystem II antenna protein-like
superfamily: Photosystem II antenna protein-like
family: Photosystem II antenna protein-like
domain: Photosystem II CP43 protein PsbC
species: Thermosynechococcus elongatus [TaxId: 146786]

Probab=99.95  E-value=1.1e-30  Score=208.82  Aligned_cols=81  Identities=47%  Similarity=0.892  Sum_probs=78.0

Q ss_pred             ceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcccccceeE-----------------------------eee
Q 037213            3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEESFSFFGYT-----------------------------LYF   53 (84)
Q Consensus         3 G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~~~~F~~~-----------------------------~~~   53 (84)
                      |+|+|+||||+||++|||+|+||++|||||++++|+||||++++|+||                             +++
T Consensus        77 G~v~~~~~y~~vgv~Hli~S~vl~~ggi~H~~~~p~~Le~~~~~F~~~w~d~~~l~~IlG~HL~llG~ga~lfv~~a~~~  156 (447)
T d2axtc1          77 GEVVDTFPFFVVGVVHLISSAVLGFGGVYHAIRGPETLEEYSSFFGYDWKDKNKMTTILGFHLIVLGIGALLLVAKAMFF  156 (447)
T ss_dssp             GCCCCSHHHHHHHHHHHHHHHHHHHHHHHHTTTSCSCCTTTCTTTCCCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             CeeccCcceehhHHHHHHHHHHHHHHHHHhhhcccchhhhhccccCcCcCChhhhhhhhchhHHHHHHHHHHHHHHHhEE
Confidence            789999999999999999999999999999999999999988889888                             689


Q ss_pred             eeeecCCCCCCCc-eeeecCCCCceecceec
Q 037213           54 RDLYDSWAPRDGE-RLEKLPTQRLVQVFVLV   83 (84)
Q Consensus        54 gGiYD~~~~ggG~-R~Vt~ptlnp~~I~~y~   83 (84)
                      ||+||+|+||+|+ |+||+||+||.+||+|+
T Consensus       157 GGlydt~~pg~G~vR~vt~~~ldp~~i~gy~  187 (447)
T d2axtc1         157 GGLYDTWAPGGGDVRVITNPTLDPRVIFGYL  187 (447)
T ss_dssp             SCBCCTTCSSSSCCBCCCSCCCSHHHHHHGG
T ss_pred             CceecCCCCCCceEEEecCCccCcceeeeee
Confidence            9999999999999 99999999999999985

>d2axtb1 f.55.1.1 (B:2-489) Photosystem II core light harvesting protein PsbB {Thermosynechococcus elongatus [TaxId: 146786]}

class: Membrane and cell surface proteins and peptides
fold: Photosystem II antenna protein-like
superfamily: Photosystem II antenna protein-like
family: Photosystem II antenna protein-like
domain: Photosystem II core light harvesting protein PsbB
species: Thermosynechococcus elongatus [TaxId: 146786]

Probab=99.63  E-value=2.6e-17  Score=132.27  Aligned_cols=41  Identities=12%  Similarity=0.035  Sum_probs=39.6

Q ss_pred             ceEeeccceeehhHHHHHHHHhhccccchhhhccccchhcc
Q 037213            3 GKVIDTFPYILSEVFHLICSVILDFDNIYHAFLGLETFEES   43 (84)
Q Consensus         3 G~i~dtypyfvIgvlHLIsSaVlg~GglyHs~~gp~~L~e~   43 (84)
                      |+++|+||||+||++|||||+|||+|||||++++|++|+++
T Consensus        84 g~~~~~ypyfvIgvlHLIsSaVLg~Ggi~H~~~gp~~l~~~  124 (488)
T d2axtb1          84 GIDPGFWSFEGVALAHIVLSGLLFLAACWHWVYWDLELFRD  124 (488)
T ss_dssp             TCCCCSCSHHHHHHHHHHHHHHHHHHHHHHHHSCCCGGGBC
T ss_pred             ceecCccceehhHHHHHHHHHHHHHHHHHhhhcccchhhcC
Confidence            67899999999999999999999999999999999999986