Citrus Sinensis ID: 027282

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-----
Protein Sequence
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ
Secondary Structure (PSIPRED)
cHHHHHHHHcccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHcccHHHHHHccccccccccccccEEEEcccccEEcccccccEEEEccccccccEEEEEccccccccccccccccHHHHHHHHHHHHHHHcccccccccccEEEEEccEEEcccccEEEEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHEEEEEcccccccccccccccccccccccccccccccccccccccEEEEccccccccHccccccHHHHHHHHHHHHHHHHHHcccccHHHHcccccccEEEEccccEEEEcccccEEEEcccccEEEEccccccccEEEEEEcccccccccHHHcccHHHHHHHHHHHHHccccccccccccHHHHHEHHHHccccccEEEEEEEEEEEccccccccEccccc
Coil and Loop (DISEMBL)
marmvmmqhqthpcfsiltstlsgfngaslHSQVRQqqqtplprealhvtasnekknpvmaatqfaVPRRNAMALILSSYifsdfgfrntaLAQQsvgfreyidtfdgysfkypqnwiqvrgagadifyrdpyvldenvsvelsspsssryksvedlgppkeaGRKVLRQYLTEFMStrlgvrresnilstssrvaddGRLYYLVEHVLKihmpsgehkvickqq
Flexible Loop (DISEMBL)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHvtasnekknpvMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSvelsspsssryksvedlgppkeagrkVLRQYLTEfmstrlgvrresnilstssrvaddgRLYYLVEHVLKihmpsgehkvickqq
Low Complexity Region (SEG)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELsspsssRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ
Disordered region (IsUnstruct)
************PCFSILTSTLSGF***********************************AATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENV***************************VLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPS**********
Disordered Region (DISOPRED)
********HQTHPCFSILT**************************************************RNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPS*********LGPPKEAGRKVLRQYL************************DDGRLYYLVEHVLKIHMPSGEHKVIC***
Disordered Region (DISEMBL)
**********THPCFSILTSTLSGFNGA**************PREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVS*****************GPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ
Disordered Region (DISPRO)
*ARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASN***********FAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKV*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ
Positional Conservation
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	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	225	2.2.26 [Sep-21-2011]
O23403	287	PsbP domain-containing pr	yes	no	0.684	0.536	0.677	2e-49
Q9SA52	378	Chloroplast stem-loop bin	no	no	0.284	0.169	0.523	4e-06
P82538	230	PsbP-like protein 1, chlo	no	no	0.475	0.465	0.288	4e-05

>sp|O23403|PPD1_ARATH PsbP domain-containing protein 1, chloroplastic OS=Arabidopsis thaliana GN=PPD1 PE=1 SV=1

 Score =  196 bits (497), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 107/158 (67%), Positives = 124/158 (78%), Gaps = 4/158 (2%)

Query: 66  AVPRRNAM--ALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGA 123
           AV RR +M   L++S  I S      TA A   V FREYIDTFDGYSFKYPQNWIQVRGA
Sbjct: 76  AVGRRKSMMMGLLMSGLIVSQANL-PTAFASTPV-FREYIDTFDGYSFKYPQNWIQVRGA 133

Query: 124 GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR 183
           GADIF+RDP VLDEN+SVE SSPSSS Y S+EDLG P+E G++VLRQYLTEFMSTRLGV+
Sbjct: 134 GADIFFRDPVVLDENLSVEFSSPSSSNYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVK 193

Query: 184 RESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           R++NILSTSSRVADDG+LYY VE  +K +  + E  V+
Sbjct: 194 RQANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVM 231

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SA52|CP41B_ARATH Chloroplast stem-loop binding protein of 41 kDa b, chloroplastic OS=Arabidopsis thaliana GN=CSP41B PE=1 SV=1

 Score = 52.0 bits (123), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/65 (52%), Positives = 49/65 (75%), Gaps = 1/65 (1%)

Query: 1  MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM 60
          MA+M+M+Q Q  P FS+LTS+LS FNGA LH QV+ +++   P+ AL+V+AS+EKK  +M
Sbjct: 1  MAKMMMLQ-QHQPSFSLLTSSLSDFNGAKLHLQVQYKRKVHQPKGALYVSASSEKKILIM 59

Query: 61 AATQF 65
            T+F
Sbjct: 60 GGTRF 64

Binds and cleaves RNA, particularly in stem-loops. Associates with pre-ribosomal particles in chloroplasts, and participates in chloroplast ribosomal RNA metabolism, probably during the final steps of 23S rRNA maturation. May enhance transcription by the plastid-encoded polymerase and translation in plastid via the stabilization of ribosome assembly intermediates. Required for chloroplast integrity. Involved in the regulation of the circadian system. Involved in the regulation of heteroglycans and monosaccharide mobilization.

Arabidopsis thaliana (taxid: 3702)

>sp|P82538|PPL1_ARATH PsbP-like protein 1, chloroplastic OS=Arabidopsis thaliana GN=PPL1 PE=1 SV=1

 Score = 48.1 bits (113), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 55/118 (46%), Gaps = 11/118 (9%)

Query: 93  AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYK 152
           A+   GF    D  D Y+F YP  W +V   G D  Y+D     E+VSV L  P+S +  
Sbjct: 75  AESKKGFLAVSDNKDAYAFLYPFGWQEVVIEGQDKVYKDVIEPLESVSVNL-VPTSKQ-- 131

Query: 153 SVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLK 210
           ++++ GPPK+    ++++ L            +   L  +S    DG+ YY  E  ++
Sbjct: 132 TIKEFGPPKQIAETLIKKVLAP--------PNQKTTLIDASEHDVDGKTYYQFEFTVQ 181

Required for efficient repair of photodamaged PSII, but not tightly associated with the complex.

Arabidopsis thaliana (taxid: 3702)

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	225
224124634	212	predicted protein [Populus trichocarpa]	0.711	0.754	0.812	1e-67
224124990	265	predicted protein [Populus trichocarpa]	0.715	0.607	0.782	5e-65
255542948	265	Thylakoid lumenal 21.5 kDa protein, chlo	0.791	0.671	0.701	7e-64
311335431	257	PsbP domain protein 1 [Gossypium hirsutu	0.693	0.607	0.789	7e-63
296089803	248	unnamed protein product [Vitis vinifera]	0.804	0.729	0.708	2e-62
359487555	282	PREDICTED: psbP domain-containing protei	0.804	0.641	0.708	4e-62
388502234	326	unknown [Lotus japonicus]	0.968	0.668	0.509	1e-61
356571066	227	PREDICTED: LOW QUALITY PROTEIN: psbP dom	0.697	0.691	0.718	8e-60
356505763	258	PREDICTED: psbP domain-containing protei	0.702	0.612	0.739	5e-58
449443516	258	PREDICTED: psbP domain-containing protei	0.671	0.585	0.75	3e-57

>gi|224124634|ref|XP_002330072.1| predicted protein [Populus trichocarpa] gi|222871497|gb|EEF08628.1| predicted protein [Populus trichocarpa]

 Score =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 130/160 (81%), Positives = 146/160 (91%)

Query: 66  AVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGA 125
           AVPRRNAMALILSSY+FS+FGF N A AQQSVGFREYID FDGYSFKYPQNWIQVRGAGA
Sbjct: 1   AVPRRNAMALILSSYMFSEFGFDNLAFAQQSVGFREYIDQFDGYSFKYPQNWIQVRGAGA 60

Query: 126 DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRE 185
           DIF+RDP+VLDEN+SVELSSPSSSRYKSVEDLGPP+EAG+KVL+QYLTEFMSTRLGVRRE
Sbjct: 61  DIFFRDPFVLDENLSVELSSPSSSRYKSVEDLGPPQEAGKKVLKQYLTEFMSTRLGVRRE 120

Query: 186 SNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ 225
           SNILSTSSRVADDG+LYY VE  +K +  + E  V+ +++
Sbjct: 121 SNILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPRER 160

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224124990|ref|XP_002319475.1| predicted protein [Populus trichocarpa] gi|118485159|gb|ABK94442.1| unknown [Populus trichocarpa] gi|222857851|gb|EEE95398.1| predicted protein [Populus trichocarpa]

 Score =  253 bits (645), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 126/161 (78%), Positives = 144/161 (89%)

Query: 65  FAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAG 124
           FAVPRRNAMALILSSYIFS+ GF N A AQ+SVGFREYID FDGYS K+PQNWIQVRGAG
Sbjct: 51  FAVPRRNAMALILSSYIFSEVGFNNIAFAQRSVGFREYIDQFDGYSLKHPQNWIQVRGAG 110

Query: 125 ADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR 184
           ADIF+RDP+VLDEN+SVELSSPSSS YKSVEDLGPP+EAG+KVL+QYLTEFMSTRLGVRR
Sbjct: 111 ADIFFRDPFVLDENLSVELSSPSSSNYKSVEDLGPPEEAGKKVLKQYLTEFMSTRLGVRR 170

Query: 185 ESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVICKQQ 225
           ESNI+STSSRVADDG+LYY VE  +K +  + E  V+ +++
Sbjct: 171 ESNIISTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQER 211

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542948|ref|XP_002512537.1| Thylakoid lumenal 21.5 kDa protein, chloroplast precursor, putative [Ricinus communis] gi|223548498|gb|EEF49989.1| Thylakoid lumenal 21.5 kDa protein, chloroplast precursor, putative [Ricinus communis]

 Score =  249 bits (636), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 127/181 (70%), Positives = 150/181 (82%), Gaps = 3/181 (1%)

Query: 41  PLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFR 100
           P+  ++   T+ + K  P  A   FAVPRR+ MALI SS I S+ GF ++ALAQ SVGFR
Sbjct: 32  PISADSTRCTSISCKNQPTKA---FAVPRRSTMALIFSSCILSEVGFHSSALAQSSVGFR 88

Query: 101 EYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPP 160
           EYIDTFDGYSFKYP+NWIQVRGAGADIF+RDPYVLDEN+SVE+SSPSSS+Y SVEDLGPP
Sbjct: 89  EYIDTFDGYSFKYPKNWIQVRGAGADIFFRDPYVLDENLSVEMSSPSSSKYTSVEDLGPP 148

Query: 161 KEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKV 220
           +EAG+KVL+QYLTEFMSTRLGVRRES+ILSTSSRVADDG+LYY VE  +K +  + E  V
Sbjct: 149 QEAGKKVLKQYLTEFMSTRLGVRRESDILSTSSRVADDGKLYYQVEVNIKSYANNNEMAV 208

Query: 221 I 221
           +
Sbjct: 209 M 209

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|311335431|gb|ADP89574.1| PsbP domain protein 1 [Gossypium hirsutum]

 Score =  246 bits (627), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 124/157 (78%), Positives = 140/157 (89%), Gaps = 1/157 (0%)

Query: 66  AVPRRNAMALILSSYIFSDFGFR-NTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAG 124
           ++PRRNAMALILS+YIFS+ G   N A A+ SVGFREYIDTFDGYS KYPQNWIQVRGAG
Sbjct: 43  SIPRRNAMALILSTYIFSEVGLHDNIAFAEPSVGFREYIDTFDGYSLKYPQNWIQVRGAG 102

Query: 125 ADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR 184
           ADIF+RDPYVLDEN+SVELSSPSSSRYK+VEDLGPP+EAG+KVL+QYLTEFMSTRLGVRR
Sbjct: 103 ADIFFRDPYVLDENLSVELSSPSSSRYKTVEDLGPPEEAGKKVLKQYLTEFMSTRLGVRR 162

Query: 185 ESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           ESNILSTSSRVADDG+LYY VE  +K +  + E  V+
Sbjct: 163 ESNILSTSSRVADDGKLYYQVEVNIKSYANTNELAVM 199

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089803|emb|CBI39622.3| unnamed protein product [Vitis vinifera]

 Score =  244 bits (622), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 129/182 (70%), Positives = 149/182 (81%), Gaps = 1/182 (0%)

Query: 41  PLPREALHVTASNEKKNPVMAATQ-FAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGF 99
           P P    + +AS+   +  +  T+ FAV RR+AMALI SSYIFS  G  + ALAQ SVGF
Sbjct: 9   PAPFATTNYSASSRAISCQLQTTKGFAVLRRDAMALIFSSYIFSRVGLHDVALAQPSVGF 68

Query: 100 REYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGP 159
           REYIDTFDGYSFKYPQNWIQVRG+GADIF+RDP+VLDEN+SVELSSPSSSRYKSVEDLG 
Sbjct: 69  REYIDTFDGYSFKYPQNWIQVRGSGADIFFRDPFVLDENLSVELSSPSSSRYKSVEDLGQ 128

Query: 160 PKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHK 219
           P+EAG+KVL+QYLTEFMSTRLGVRRESNI+STSSRVADDGR YY VE  +K +  + E  
Sbjct: 129 PQEAGKKVLQQYLTEFMSTRLGVRRESNIVSTSSRVADDGRTYYQVEVNIKSYANNNELA 188

Query: 220 VI 221
           V+
Sbjct: 189 VM 190

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487555|ref|XP_002281448.2| PREDICTED: psbP domain-containing protein 1, chloroplastic [Vitis vinifera]

 Score =  243 bits (620), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 129/182 (70%), Positives = 149/182 (81%), Gaps = 1/182 (0%)

Query: 41  PLPREALHVTASNEKKNPVMAATQ-FAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGF 99
           P P    + +AS+   +  +  T+ FAV RR+AMALI SSYIFS  G  + ALAQ SVGF
Sbjct: 43  PAPFATTNYSASSRAISCQLQTTKGFAVLRRDAMALIFSSYIFSRVGLHDVALAQPSVGF 102

Query: 100 REYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGP 159
           REYIDTFDGYSFKYPQNWIQVRG+GADIF+RDP+VLDEN+SVELSSPSSSRYKSVEDLG 
Sbjct: 103 REYIDTFDGYSFKYPQNWIQVRGSGADIFFRDPFVLDENLSVELSSPSSSRYKSVEDLGQ 162

Query: 160 PKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHK 219
           P+EAG+KVL+QYLTEFMSTRLGVRRESNI+STSSRVADDGR YY VE  +K +  + E  
Sbjct: 163 PQEAGKKVLQQYLTEFMSTRLGVRRESNIVSTSSRVADDGRTYYQVEVNIKSYANNNELA 222

Query: 220 VI 221
           V+
Sbjct: 223 VM 224

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502234|gb|AFK39183.1| unknown [Lotus japonicus]

 Score =  241 bits (616), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 138/271 (50%), Positives = 172/271 (63%), Gaps = 53/271 (19%)

Query: 1   MARMVMM--QHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNP 58
           MA+MV+   QH   P FS L S+LS F+  +  +Q++ +++   P+ +   TAS+ KK  
Sbjct: 1   MAKMVVAPPQHHNQPSFSPLASSLSEFSSPTFLTQIQLKRKVWQPKGSFSATASSPKKML 60

Query: 59  VMAATQF------------------------------------------------AVPRR 70
           +M   +F                                                AVPRR
Sbjct: 61  MMGGNRFTGVFLSRLFVKEGHQVTLCTRGEVPITQHLPDESDSDCADFSSKSKAFAVPRR 120

Query: 71  NAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYR 130
            AM+LILSS I S  G    A AQQ   FREY+DTFDGYSFKYP NWIQVRGAGADIF+R
Sbjct: 121 KAMSLILSSCILSKVGL---AFAQQPPVFREYVDTFDGYSFKYPGNWIQVRGAGADIFFR 177

Query: 131 DPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILS 190
           DPY+LDEN+S+E+SSPSSS+YKSVEDLGPP+EAG+KVL+QYLTEFMSTRLGVRRE+N+LS
Sbjct: 178 DPYILDENLSLEISSPSSSQYKSVEDLGPPQEAGKKVLKQYLTEFMSTRLGVRREANVLS 237

Query: 191 TSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           TSSRVADDG+LYY VE  +K +  + E  V+
Sbjct: 238 TSSRVADDGKLYYQVEVNIKSYASNNELAVM 268

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571066|ref|XP_003553702.1| PREDICTED: LOW QUALITY PROTEIN: psbP domain-containing protein 1, chloroplastic-like [Glycine max]

 Score =  235 bits (600), Expect = 8e-60,   Method: Compositional matrix adjust.
 Identities = 115/160 (71%), Positives = 134/160 (83%), Gaps = 3/160 (1%)

Query: 62  ATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVR 121
           A  FAVPRR AM+LILSSY+ S+ G    ALAQQS  FREYID FDG SF+YP +WIQVR
Sbjct: 16  AKAFAVPRRKAMSLILSSYVLSEVGL---ALAQQSPVFREYIDAFDGCSFQYPGSWIQVR 72

Query: 122 GAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLG 181
           GAGADIF+RDP+VLDEN+SVE+S PSSS+YK+VEDLG P+EAG+KVL+QYLTEFMSTRLG
Sbjct: 73  GAGADIFFRDPFVLDENLSVEISXPSSSQYKNVEDLGAPQEAGKKVLKQYLTEFMSTRLG 132

Query: 182 VRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           VRRESNILSTSSRV DDGRLYY +E  +K +  + E  V+
Sbjct: 133 VRRESNILSTSSRVTDDGRLYYQIEVNIKSYANNNELAVM 172

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505763|ref|XP_003521659.1| PREDICTED: psbP domain-containing protein 1, chloroplastic-like [Glycine max]

 Score =  229 bits (585), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 119/161 (73%), Positives = 138/161 (85%), Gaps = 3/161 (1%)

Query: 61  AATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQV 120
           +A  FAVPRR A++LILSSY  S+ G    ALAQQS  FREYID FDGYSF+YP +WIQV
Sbjct: 43  SAKAFAVPRRKALSLILSSYFLSEAGL---ALAQQSPVFREYIDAFDGYSFQYPGSWIQV 99

Query: 121 RGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL 180
           RGAGADIF+RDP+VLDEN+S+E+SSPSSS+YKSVEDLGPP+EAG+KVL+QYLTEFMSTRL
Sbjct: 100 RGAGADIFFRDPFVLDENLSLEISSPSSSQYKSVEDLGPPQEAGKKVLKQYLTEFMSTRL 159

Query: 181 GVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           GVRRESNILSTSSRVADDGRLYY VE  +K +  + E  V+
Sbjct: 160 GVRRESNILSTSSRVADDGRLYYQVEVNIKSYANNNELAVM 200

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443516|ref|XP_004139523.1| PREDICTED: psbP domain-containing protein 1, chloroplastic-like [Cucumis sativus] gi|449520599|ref|XP_004167321.1| PREDICTED: psbP domain-containing protein 1, chloroplastic-like [Cucumis sativus]

 Score =  227 bits (578), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 117/156 (75%), Positives = 134/156 (85%), Gaps = 5/156 (3%)

Query: 66  AVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGA 125
           AVPRR+AMAL+LS+ IFS     N+ALA  SVG  EYIDTFDGYSFKYP+NWIQVRGAGA
Sbjct: 50  AVPRRSAMALMLSTCIFS-----NSALAVSSVGLLEYIDTFDGYSFKYPKNWIQVRGAGA 104

Query: 126 DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRE 185
           DIF+RDP+VLDEN+SVE SSPSSSRY SV+DLGPP+EAG+KVL+QYLTEFMSTRLGVRRE
Sbjct: 105 DIFFRDPFVLDENLSVEFSSPSSSRYNSVQDLGPPEEAGKKVLKQYLTEFMSTRLGVRRE 164

Query: 186 SNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           SNILSTSSR+ADDGR YY VE  +K +  + E  V+
Sbjct: 165 SNILSTSSRMADDGRTYYQVEVNIKSYANNNELAVM 200

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	225
TAIR|locus:2130295	287	PPD1 "PsbP-Domain Protein1" [A	0.684	0.536	0.639	4.8e-46
TAIR|locus:2203028	378	CRB "chloroplast RNA binding"	0.768	0.457	0.322	1.9e-11
TAIR|locus:2100681	230	PPL1 "PsbP-like protein 1" [Ar	0.475	0.465	0.262	0.00027

TAIR|locus:2130295 PPD1 "PsbP-Domain Protein1" [Arabidopsis thaliana (taxid:3702)]

 Score = 483 (175.1 bits), Expect = 4.8e-46, P = 4.8e-46
 Identities = 101/158 (63%), Positives = 118/158 (74%)

Query:    66 AVPRRNAM--ALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGA 123
             AV RR +M   L++S  I S      TA A   V FREYIDTFDGYSFKYPQNWIQVRGA
Sbjct:    76 AVGRRKSMMMGLLMSGLIVSQANLP-TAFASTPV-FREYIDTFDGYSFKYPQNWIQVRGA 133

Query:   124 GADIFYRDPYVLDENVSVELXXXXXXRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR 183
             GADIF+RDP VLDEN+SVE        Y S+EDLG P+E G++VLRQYLTEFMSTRLGV+
Sbjct:   134 GADIFFRDPVVLDENLSVEFSSPSSSNYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVK 193

Query:   184 RESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
             R++NILSTSSRVADDG+LYY VE  +K +  + E  V+
Sbjct:   194 RQANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVM 231

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009654 "oxygen evolving complex" evidence=ISS

GO:0030095 "chloroplast photosystem II" evidence=ISS

GO:0009543 "chloroplast thylakoid lumen" evidence=IDA

GO:0031977 "thylakoid lumen" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0048564 "photosystem I assembly" evidence=IMP

TAIR|locus:2203028 CRB "chloroplast RNA binding" [Arabidopsis thaliana (taxid:3702)]

 Score = 163 (62.4 bits), Expect = 1.9e-11, P = 1.9e-11
 Identities = 61/189 (32%), Positives = 98/189 (51%)

Query:     1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM 60
             MA+M+M+Q Q  P FS+LTS+LS FNGA LH QV+ +++   P+ AL+V+AS+EKK  +M
Sbjct:     1 MAKMMMLQ-QHQPSFSLLTSSLSDFNGAKLHLQVQYKRKVHQPKGALYVSASSEKKILIM 59

Query:    61 AATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQV 120
               T+F +    +  L+   +  + F    + +A+Q  G  E    F  +S K     + +
Sbjct:    60 GGTRF-IGLFLSRILVKEGHQVTLFTRGKSPIAKQLPG--ESDQDFADFSSKI----LHL 112

Query:   121 RGAGADIFYRDPYVLDENVSVELXXXXXXRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL 180
             +G   D  +    +  E   V          +  E++ P  EA  K L QY+  + S+  
Sbjct:   113 KGDRKDYDFVKSSLSAEGFDVVYDING----REAEEVEPILEALPK-LEQYI--YCSSA- 164

Query:   181 GVRRESNIL 189
             GV  +S+IL
Sbjct:   165 GVYLKSDIL 173

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0010287 "plastoglobule" evidence=IDA

GO:0003723 "RNA binding" evidence=IDA

GO:0009611 "response to wounding" evidence=IEP

GO:0010319 "stromule" evidence=IDA

GO:0042631 "cellular response to water deprivation" evidence=IEP

GO:0009409 "response to cold" evidence=IEP;RCA

GO:0042742 "defense response to bacterium" evidence=IEP;RCA

GO:0016020 "membrane" evidence=IDA

GO:0007623 "circadian rhythm" evidence=IEP;IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0005777 "peroxisome" evidence=IDA

GO:0005840 "ribosome" evidence=IDA

GO:0006364 "rRNA processing" evidence=IGI;RCA

GO:0048046 "apoplast" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0032544 "plastid translation" evidence=IMP

GO:0045727 "positive regulation of translation" evidence=IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;IMP

GO:0005996 "monosaccharide metabolic process" evidence=IMP

GO:0010297 "heteropolysaccharide binding" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0006636 "unsaturated fatty acid biosynthetic process" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009637 "response to blue light" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009814 "defense response, incompatible interaction" evidence=RCA

GO:0009853 "photorespiration" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010114 "response to red light" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010218 "response to far red light" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0015995 "chlorophyll biosynthetic process" evidence=RCA

GO:0016117 "carotenoid biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0019684 "photosynthesis, light reaction" evidence=RCA

GO:0030154 "cell differentiation" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0043085 "positive regulation of catalytic activity" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

TAIR|locus:2100681 PPL1 "PsbP-like protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 110 (43.8 bits), Expect = 0.00027, P = 0.00027
 Identities = 31/118 (26%), Positives = 54/118 (45%)

Query:    93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELXXXXXXRYK 152
             A+   GF    D  D Y+F YP  W +V   G D  Y+D     E+VSV L        +
Sbjct:    75 AESKKGFLAVSDNKDAYAFLYPFGWQEVVIEGQDKVYKDVIEPLESVSVNLVPTSK---Q 131

Query:   153 SVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLK 210
             ++++ GPPK+    ++++ L           +++ ++  S    D G+ YY  E  ++
Sbjct:   132 TIKEFGPPKQIAETLIKKVLAP-------PNQKTTLIDASEHDVD-GKTYYQFEFTVQ 181


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        0.321   0.133   0.389    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      225       219   0.00092  112 3  11 22  0.49    32
                                                     32  0.39    36


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:  3
  No. of states in DFA:  602 (64 KB)
  Total size of DFA:  170 KB (2100 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:  19.24u 0.12s 19.36t   Elapsed:  00:00:01
  Total cpu time:  19.24u 0.12s 19.36t   Elapsed:  00:00:01
  Start:  Fri May 10 08:17:58 2013   End:  Fri May 10 08:17:59 2013

GO:0005509 "calcium ion binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009523 "photosystem II" evidence=IEA

GO:0009654 "oxygen evolving complex" evidence=IEA;ISS

GO:0015979 "photosynthesis" evidence=IEA

GO:0019898 "extrinsic to membrane" evidence=IEA

GO:0030095 "chloroplast photosystem II" evidence=ISS

GO:0009543 "chloroplast thylakoid lumen" evidence=IDA

GO:0031977 "thylakoid lumen" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006364 "rRNA processing" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0043085 "positive regulation of catalytic activity" evidence=RCA

---

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	225
PLN00059	286	PLN00059, PLN00059, PsbP domain-containing protein	5e-65
pfam01789	163	pfam01789, PsbP, PsbP	2e-38

>gnl|CDD|177690 PLN00059, PLN00059, PsbP domain-containing protein 1; Provisional

 Score =  202 bits (515), Expect = 5e-65
 Identities = 108/158 (68%), Positives = 126/158 (79%), Gaps = 4/158 (2%)

Query: 66  AVPRRNAM--ALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGA 123
           AV RR +M   L++S  I S+     TA A   V FREYIDTFDGYSFKYPQNWIQVRGA
Sbjct: 76  AVGRRKSMMMGLLMSGLIVSEANL-PTAFASIPV-FREYIDTFDGYSFKYPQNWIQVRGA 133

Query: 124 GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR 183
           GADIF+RDP VLDEN+SVE SSPSSS+Y S+EDLG P+E G++VLRQYLTEFMSTRLGV+
Sbjct: 134 GADIFFRDPVVLDENLSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVK 193

Query: 184 RESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI 221
           RE+NILSTSSRVADDG+LYY VE  +K +  + E  V+
Sbjct: 194 REANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVM 231

Length = 286

>gnl|CDD|216701 pfam01789, PsbP, PsbP

 Score =  130 bits (330), Expect = 2e-38
 Identities = 47/120 (39%), Positives = 63/120 (52%), Gaps = 11/120 (9%)

Query: 98  GFREYIDTFDGYSFKYPQNWIQ-VRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVED 156
           GF+ Y+DT DGY F YP  W + V   G D+ + D    DENVSV +S       KS+ED
Sbjct: 9   GFQAYVDTDDGYEFLYPTGWWREVVSDGPDVVFHDLIESDENVSVVISPVDKK--KSLED 66

Query: 157 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSG 216
           LG P+E G ++LR  L    S      RE+ +L  S R   DG+ YY +E    + +  G
Sbjct: 67  LGSPEEVGERLLRGVLAPEGSG-----REAELLEASEREV-DGKTYYDLE--YLVRLADG 118

This family consists of the 23 kDa subunit of oxygen evolving system of photosystem II or PsbP from various plants (where it is encoded by the nuclear genome) and Cyanobacteria. The 23 KDa PsbP protein is required for PSII to be fully operational in vivo, it increases the affinity of the water oxidation site for Cl- and provides the conditions required for high affinity binding of Ca2+. Length = 163

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	225
PLN00059	286	PsbP domain-containing protein 1; Provisional	100.0
PLN00042	260	photosystem II oxygen-evolving enhancer protein 2;	100.0
PF01789	175	PsbP: PsbP; InterPro: IPR002683 Oxygenic photosynt	99.96
PLN00067	263	PsbP domain-containing protein 6; Provisional	99.95
PLN00066	262	PsbP domain-containing protein 4; Provisional	99.94
PLN03152	241	hypothetical protein; Provisional	99.69
PF12712	153	DUF3805: Domain of unknown function (DUF3805); Int	91.16
PLN00016	378	RNA-binding protein; Provisional	83.94

>PLN00059 PsbP domain-containing protein 1; Provisional

Probab=100.00  E-value=1.4e-46  Score=331.65  Aligned_cols=162  Identities=67%  Similarity=1.008  Sum_probs=145.2

Q ss_pred             ccccccchhHHHHH--HHHHHHHhhhcCCcchhhhccccCccceeecCCCeeeecCCCceeecccccceEeeCCCCCccc
Q 027282           61 AATQFAVPRRNAMA--LILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDEN  138 (225)
Q Consensus        61 ~~~~~~~~RR~aL~--~~~sa~~~s~~~~~~~a~Ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eN  138 (225)
                      ..+.+.++||.+|+  ++++.++++.++. +.|+|.++ ||++|+|+.|||+|+||.||++|++.|+|++|||+++.+||
T Consensus        71 ~~~~~~~~rr~~~~~~l~~~~~~~s~~~~-~~a~a~~~-~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~EN  148 (286)
T PLN00059         71 AKQVCAVGRRKSMMMGLLMSGLIVSEANL-PTAFASIP-VFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDEN  148 (286)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHHhhcC-chhhcCCc-ccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCccccc
Confidence            45678999999966  4345454444444 36777654 89999999999999999999999999999999999999999


Q ss_pred             eEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhhhccccccCCcceeeEEecceeecCCCeeeEEEEEEEeecCCCCce
Q 027282          139 VSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHMPSGEH  218 (225)
Q Consensus       139 VsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~~~n~l  218 (225)
                      |||+|+||+++++++|+|||+|+||||+|+++++++||+|++|++++++||++.+|++.||++||+|||.|++++++|+|
T Consensus       149 VSV~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~  228 (286)
T PLN00059        149 LSVEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNEL  228 (286)
T ss_pred             eEEEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCcccccc
Confidence            99999999855699999999999999999999999999999999999999999999866999999999999999999999


Q ss_pred             eeeccC
Q 027282          219 KVICKQ  224 (225)
Q Consensus       219 ~~~~~~  224 (225)
                      |+|+||
T Consensus       229 ~~~~qd  234 (286)
T PLN00059        229 AVMPQD  234 (286)
T ss_pred             cccccc
Confidence            999985

>PLN00042 photosystem II oxygen-evolving enhancer protein 2; Provisional

Probab=100.00  E-value=5.2e-45  Score=321.68  Aligned_cols=197  Identities=21%  Similarity=0.265  Sum_probs=160.8

Q ss_pred             CchhhhhhccccCccccccccccccccCccchhhhhhccCCCccccceeeccccccccccccccccchhHHHHHHHHHH-
Q 027282            1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSS-   79 (225)
Q Consensus         1 ma~~~~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~~~~~~~~~RR~aL~~~~sa-   79 (225)
                      ||+++||+||++++.+...++.+..+.          +.....++.+.+|.++.       .+.+.++||.+|++++++ 
T Consensus         1 ~a~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~-------~~~~~~srr~~l~~~~ga~   63 (260)
T PLN00042          1 MASTACFLHQSALKSAAALASSSSASA----------RAVSASRPSQVVCRAQE-------EDNSAVSRRAALALLAGAA   63 (260)
T ss_pred             Ccchhhhhhcccccchhhhcccccccc----------cccCCCCCcceeeeccc-------cccccccHHHHHHHHHHHH
Confidence            999999999999976633322211221          12444555667777652       134678999999988875 


Q ss_pred             HHhhhcCCcchhhhcc---------ccCccceeecCCCeeeecCCCcee---ecccccceEeeCCCCCccceEEEEeCCC
Q 027282           80 YIFSDFGFRNTALAQQ---------SVGFREYIDTFDGYSFKYPQNWIQ---VRGAGADIFYRDPYVLDENVSVELSSPS  147 (225)
Q Consensus        80 ~~~s~~~~~~~a~Ae~---------~~gf~~y~D~~dGYsf~yP~~W~~---v~~~G~dv~f~d~~~~~eNVsV~Isp~~  147 (225)
                      ++.+.+.|+++||+|+         .+||.+|.  +|||+|+||++|++   .+++|+|++|+|+++.+|||||+|+|++
T Consensus        64 a~~~~~~pa~aay~~~anvfg~~k~~~gF~~y~--~dgY~FlyP~~W~~~ke~~~~G~dv~f~D~~~~~eNVSV~Ispt~  141 (260)
T PLN00042         64 AAGAKVSPANAAYGESANVFGKPKTNTGFLPYN--GDGFKLLVPSKWNPSKEREFPGQVLRFEDNFDATSNLSVMVTPTD  141 (260)
T ss_pred             HhhcccCchhhhhcchhhccCCCCCCCCCeEee--CCCeEEecCCCCccccccccCCceEEeeccccccccEEEEEecCC
Confidence            4457899999999876         69999996  69999999999995   4578999999999999999999999996


Q ss_pred             CCCCCCcccCCChHH----HHHHHHHHHhhhccccccCCcc------eeeEEecceeecCCCeeeEEEEEEEeecC----
Q 027282          148 SSRYKSVEDLGPPKE----AGRKVLRQYLTEFMSTRLGVRR------ESNILSTSSRVADDGRLYYLVEHVLKIHM----  213 (225)
Q Consensus       148 ~~~~~si~dlGsPee----v~~~L~~~~~~~~~st~~~~~~------~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~----  213 (225)
                         +++|+|||+|||    |+++|+++++++  +|+.++++      +++||++++|+ +||++||+|||.+++..    
T Consensus       142 ---k~sI~dlGsPee~l~~vgylL~kq~~a~--~t~s~~Gf~p~~vata~Lleas~re-~dGk~YY~lE~~~~~ad~d~~  215 (260)
T PLN00042        142 ---KKSITDYGSPEEFLSKVSYLLGKQAYSG--ETASEGGFDANAVATAAVLESSTQE-VGGKPYYYLSVLTRTADGDEG  215 (260)
T ss_pred             ---cCCHhhcCCHHHHHHHHHHHHHhhhccC--ccccccCcCcccccceeEEEeeeEE-eCCeEEEEEEEEEecCCCCCC
Confidence               799999999999    999999999988  57666665      88999999999 89999999999999863    


Q ss_pred             CCCceeeec
Q 027282          214 PSGEHKVIC  222 (225)
Q Consensus       214 ~~n~l~~~~  222 (225)
                      .||+|+.+.
T Consensus       216 ~RH~Latat  224 (260)
T PLN00042        216 GKHQLITAT  224 (260)
T ss_pred             CceEEEEEE
Confidence            789888764

>PF01789 PsbP: PsbP; InterPro: IPR002683 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=99.96  E-value=5.7e-30  Score=214.63  Aligned_cols=122  Identities=40%  Similarity=0.631  Sum_probs=107.0

Q ss_pred             hccccCccceeecCCCeeeecCCCceeecccccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHh
Q 027282           93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYL  172 (225)
Q Consensus        93 Ae~~~gf~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~  172 (225)
                      +++..||++|.|+.+||+|+||.+|+++++.|+|++|+|+++..+||+|+|+|+..  .++|+|||+|++||++|++..+
T Consensus        17 ~~~~~~~~~y~d~~~~y~f~~P~gW~~~~~~G~~v~f~d~~~~~~nvsV~v~p~~~--~~sl~~lGs~~~va~~l~~~~~   94 (175)
T PF01789_consen   17 AEASTGFQPYTDSDDGYSFLYPSGWEEVDVSGADVVFRDPIDADENVSVVVSPVPK--DFSLEDLGSPEEVAERLLNGEL   94 (175)
T ss_dssp             TT--SSEEEEEECTTTEEEEEETTEEEEESTTEEEEEEETTETTSEEEEEEEE-ST--S-SGGGG-SHHHHHHHHHHHCC
T ss_pred             ccCCCCceEEEcCCCCEEEECCCCCeecCCCCeEEEEECcccccceEEEEEEecCC--cCchhhcCCHHHHHHHHhhhhc
Confidence            45678999999999999999999999999999999999999999999999999984  4499999999999999999988


Q ss_pred             hhccccccCCcceeeEEecceeecCCCeeeEEEEEEEeecC--CCCceeeec
Q 027282          173 TEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM--PSGEHKVIC  222 (225)
Q Consensus       173 ~~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~--~~n~l~~~~  222 (225)
                      ..+     +++++++||++.+|+ .+|++||+|||.+++..  .||.|+++.
T Consensus        95 ~~~-----~~~~~a~li~a~~~~-~~g~~yY~~Ey~~~~~~~~~rh~l~~~t  140 (175)
T PF01789_consen   95 ASP-----GSGREAELISASERE-VDGKTYYEYEYTVQSPNEGRRHNLAVVT  140 (175)
T ss_dssp             CHC-----TSSEEEEEEEEEEEE-ETTEEEEEEEEEEEETTEEEEEEEEEEE
T ss_pred             ccc-----cCCcceEEEEeeeee-cCCccEEEEEEEeccCCCcccEEEEEEE
Confidence            773     556999999999999 78999999999999875  788887653

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 []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbP. Both PsbP and PsbQ (IPR008797 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. PsbP increases the affinity of the water oxidation site for chloride ions and provides the conditions required for high affinity binding of calcium ions [, ]. The crystal structure of PsbP from Nicotiana tabacum (Common tobacco) revealed a two-domain structure, where domain 1 may play a role in the ion retention activity in PSII, the N-terminal residues being essential for calcium and chloride ion retention activity []. PsbP is encoded in the nuclear genome in plants.; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 2VU4_A 1V2B_A 2LNJ_A 2XB3_A.

>PLN00067 PsbP domain-containing protein 6; Provisional

Probab=99.95  E-value=5.1e-27  Score=207.30  Aligned_cols=146  Identities=18%  Similarity=0.189  Sum_probs=111.3

Q ss_pred             cchhHHHHHHHHHHHHhhhcCCcchhhh-c-----------cccCccceee-----------cCCCeeeecCCCceeecc
Q 027282           66 AVPRRNAMALILSSYIFSDFGFRNTALA-Q-----------QSVGFREYID-----------TFDGYSFKYPQNWIQVRG  122 (225)
Q Consensus        66 ~~~RR~aL~~~~sa~~~s~~~~~~~a~A-e-----------~~~gf~~y~D-----------~~dGYsf~yP~~W~~v~~  122 (225)
                      ...||++|.+++-+.++++...+ .+-| |           ...||.-|.-           +..||+|+||.+|+++++
T Consensus        42 ~~~rr~~~~~~~~~~~~~~~~~~-~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~V  120 (263)
T PLN00067         42 VIHRRELLLGLALAPLILIAPEP-PAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRV  120 (263)
T ss_pred             hhHHHHHHhhhhhhhhhhccCCc-hhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCccc
Confidence            36899997766444444333322 2222 1           1346666642           246999999999999888


Q ss_pred             c----c-----------cceEeeCCCCCccceEEEEeCCCC---CCCCCcccCCChHHHHHHHHHHHhhhccccccCCcc
Q 027282          123 A----G-----------ADIFYRDPYVLDENVSVELSSPSS---SRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR  184 (225)
Q Consensus       123 ~----G-----------~dv~f~d~~~~~eNVsV~Isp~~~---~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~  184 (225)
                      .    |           +|++|+|+  .++||+|+|+|+..   .++++|+|||+||+|+++|++.+.++       +.+
T Consensus       121 s~~~sGnycqp~c~~p~~dv~F~D~--~dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g~-------~~~  191 (263)
T PLN00067        121 ANILSGNYCQPKCAEPWVEVKFEDE--KQGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTGN-------SYD  191 (263)
T ss_pred             cccccCccccccccCCCceEEEeCC--CCCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhcC-------CCC
Confidence            6    4           89999995  47899999999831   13699999999999999999988864       477


Q ss_pred             eeeEEecceeecCCCeeeEEEEEEEeecC-CCCceeeec
Q 027282          185 ESNILSTSSRVADDGRLYYLVEHVLKIHM-PSGEHKVIC  222 (225)
Q Consensus       185 ~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~-~~n~l~~~~  222 (225)
                      +.+||++++|+ .||++||+|||.++... .||+|+..+
T Consensus       192 ~~eLLeAs~re-~dGktYY~~E~~tp~a~~gRHnLataT  229 (263)
T PLN00067        192 PDELLETSVEK-IGDQTYYKYVLETPFALTGSHNLAKAT  229 (263)
T ss_pred             CcceEEeeeEe-eCCeEEEEEEEEecCCCCCceEEEEEE
Confidence            88999999999 89999999999998764 888888654

>PLN00066 PsbP domain-containing protein 4; Provisional

Probab=99.94  E-value=2.2e-26  Score=204.44  Aligned_cols=135  Identities=27%  Similarity=0.373  Sum_probs=110.2

Q ss_pred             ccchhHHHHHHHHHHHHhhhcCCcchhhh--------------cc-ccCccceeecC-------------CCeeeecCCC
Q 027282           65 FAVPRRNAMALILSSYIFSDFGFRNTALA--------------QQ-SVGFREYIDTF-------------DGYSFKYPQN  116 (225)
Q Consensus        65 ~~~~RR~aL~~~~sa~~~s~~~~~~~a~A--------------e~-~~gf~~y~D~~-------------dGYsf~yP~~  116 (225)
                      ..++||.+|+.+++++..+.++++..++|              ++ ..||++|..+.             ..|+|+||.+
T Consensus        43 ~~~~rr~~~~s~~~~~~~~~~~~~~~~~a~~~g~~ag~~~~~s~~~~~g~~~~~rp~~~~Gg~G~~~~~i~~Y~F~yP~G  122 (262)
T PLN00066         43 TAVSRRSALASGAAAASSAVLAFPGEGLAVKQGLLAGRVPGLSEPDENGWRTYRRPEGKSGGHGVGWSEITPYSFKVPQG  122 (262)
T ss_pred             chhhHHHHHHHHHHHHhhhhhcCCcchhhhhhcccccCCCCCCCccccceEEEecCccccCcCCCCccccCCeEEECCCC
Confidence            45799999997766544444444444442              12 37899998774             4699999999


Q ss_pred             ceeeccc-----ccceEeeCCCCCccceEEEEeCCC-----CCCCCCcccCCChHHHHHHHHHHHhhhccccccCCccee
Q 027282          117 WIQVRGA-----GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES  186 (225)
Q Consensus       117 W~~v~~~-----G~dv~f~d~~~~~eNVsV~Isp~~-----~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~~~a  186 (225)
                      |.++.++     |++++||+.++.++||+|+|+|+.     ..++++|+|||+||+|++.|++++++.+       .+++
T Consensus       123 W~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~~-------~~e~  195 (262)
T PLN00066        123 WEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGEP-------VEEG  195 (262)
T ss_pred             CeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCCC-------cccc
Confidence            9999887     788888888899999999999985     1258999999999999999999988652       4689


Q ss_pred             eEEecceeecCCCeeeEEEEE
Q 027282          187 NILSTSSRVADDGRLYYLVEH  207 (225)
Q Consensus       187 ~ll~a~~r~~~dG~~YY~~Ey  207 (225)
                      +||++++++ .||++||+|||
T Consensus       196 eLl~a~~re-~dGktYY~~E~  215 (262)
T PLN00066        196 KVLSMEVAE-HSGRTYYQFEL  215 (262)
T ss_pred             ceeEeeeee-cCCcEEEEEEE
Confidence            999999998 89999999999

>PLN03152 hypothetical protein; Provisional

Probab=99.69  E-value=4.8e-17  Score=141.21  Aligned_cols=139  Identities=19%  Similarity=0.208  Sum_probs=91.8

Q ss_pred             ccchhHHHHHHHHHHHHhhhcCC--cchhhhcc-------------ccCccceeecCCCeeeecCCCceeeccc------
Q 027282           65 FAVPRRNAMALILSSYIFSDFGF--RNTALAQQ-------------SVGFREYIDTFDGYSFKYPQNWIQVRGA------  123 (225)
Q Consensus        65 ~~~~RR~aL~~~~sa~~~s~~~~--~~~a~Ae~-------------~~gf~~y~D~~dGYsf~yP~~W~~v~~~------  123 (225)
                      +..+||+.+.-.++.++.++...  ...+++++             ...|-.|.  ++||+..||-.+..+--+      
T Consensus        29 ~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nt~~w~~~~--g~gf~~~~pp~f~di~e~~~~~~g  106 (241)
T PLN03152         29 CGASRRDFILHTASLCASSLAAQNPLPPSLADPSKPSKPLLSGIANTKSWFQFY--GDGFSIRVPPSFEDIMEPEDYNAG  106 (241)
T ss_pred             ccccccceeeehhHHHHhhhhcCCCCCccccCCCCCCCchheeeecchhhhhhh--CCceEEeCCCChhhhcChhhcccc
Confidence            45567777664444444444433  22233433             13344554  899999999888753211      


Q ss_pred             -----------ccceEeeCCCCCccceEEEEeCCC-----CCCCCCcccCCChHHHHHHHHHHHhhhccccccCCc-cee
Q 027282          124 -----------GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR-RES  186 (225)
Q Consensus       124 -----------G~dv~f~d~~~~~eNVsV~Isp~~-----~~~~~si~dlGsPeev~~~L~~~~~~~~~st~~~~~-~~a  186 (225)
                                 -..++|.-+ |..|||||+|+|++     ..+.++|+|||+|+|||+.|+     +     .|+. ..+
T Consensus       107 ~~~yg~~akp~~~~aRf~s~-D~sEnVSVVIspv~~LK~tfle~kDLtDLGsp~EVgkv~v-----P-----~g~~~~sa  175 (241)
T PLN03152        107 LSLYGDKAKPRTFAARFASP-DGSEVLSVVIRPSNQLKITFLEAKDITDLGSLKEAAKIFV-----P-----GGATLYSA  175 (241)
T ss_pred             cceecCCCCCcceeeeecCC-CCCceEEEEEecCccccccccccCChhHcCCHHHHHHhhC-----C-----Cccccccc
Confidence                       135677764 89999999999985     113899999999999997655     3     1211 133


Q ss_pred             eEEecceeecCCCeeeEEEEEEEeecCCCCceeee
Q 027282          187 NILSTSSRVADDGRLYYLVEHVLKIHMPSGEHKVI  221 (225)
Q Consensus       187 ~ll~a~~r~~~dG~~YY~~Ey~v~s~~~~n~l~~~  221 (225)
                      .+++. +++ .|||+||+|||.++   .||+|+..
T Consensus       176 R~iel-~~E-~dGKtYY~lEy~v~---~RH~LaTV  205 (241)
T PLN03152        176 RTIKV-KEE-EGIRTYYFYEFGRD---EQHVALVA  205 (241)
T ss_pred             ceeee-eee-cCCceeEEEEEEeC---CcEEEEEE
Confidence            33433 456 89999999999986   89988764

>PF12712 DUF3805: Domain of unknown function (DUF3805); InterPro: IPR024315 This entry represents an N-terminal domain found in a family of bacterial proteins, whose function is unknown

Probab=91.16  E-value=1.3  Score=36.75  Aligned_cols=47  Identities=15%  Similarity=0.440  Sum_probs=26.4

Q ss_pred             ccceeecCCCeeeecCCCceeecccccceEeeCCCCCccceEEEEeC
Q 027282           99 FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSS  145 (225)
Q Consensus        99 f~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~Isp  145 (225)
                      +..|.+++.=|++.||.+|.|.+-..--..|-|+..=+.|..+..-.
T Consensus         1 mkKfiSpg~WFS~~YP~~W~EfED~E~sflFYnp~~WTGNfRISayk   47 (153)
T PF12712_consen    1 MKKFISPGAWFSMEYPADWNEFEDGEGSFLFYNPDQWTGNFRISAYK   47 (153)
T ss_dssp             -EEEE-GGG-EEEEE-TT-EEE---TTEEEEE-SSS---EEEEEEEE
T ss_pred             CCcccCCCceEEEecCCCcchhccCCcceEEEChHHhcCceEEEEEe
Confidence            35678888889999999999988443445677777889998765543

In two related Bacteroides species, the gene for members of this family lies immediately upstream from a putative ATP binding component of an ATP transporter and a putative histidinol phosphatase. The structure of this domain is strikingly similar to the N-terminal structure of 1tui, also of unknown function. The domain carries four conserved tryptophan residues.; PDB: 3HLZ_A.

>PLN00016 RNA-binding protein; Provisional

Probab=83.94  E-value=0.63  Score=42.83  Aligned_cols=61  Identities=16%  Similarity=0.178  Sum_probs=47.7

Q ss_pred             hhhccccCccccccccccccccCccchhhhhhccCCCccccceeecccccccccc----cccccc
Q 027282            6 MMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVM----AATQFA   66 (225)
Q Consensus         6 ~~~~~~~~~~~~~~s~~s~~~~~~~~~~~~~~r~~~~~~~~~~v~as~~k~~~~~----~~~~~~   66 (225)
                      +..|...+++++++++.+.+.+..++...++.|+.+.+.......+...|+++|.    |++++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~VLVt~~~~GatG~i   68 (378)
T PLN00016          4 SSRLRSSSASSLLSSSSSSSISPALAARAQGSRRASQVAGAAAAAAVEKKKVLIVNTNSGGHAFI   68 (378)
T ss_pred             chhcccccccccCCchhhhhhhHHhhhccccccccccchhhhhhcccccceEEEEeccCCCceeE
Confidence            4567788888888888888888888888888888888855444444456789999    988886

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	225
2xb3_A	165	The Structure Of Cyanobacterial Psbp Length = 165		9e-13
2lnj_A	170	Solution Structure Of Cyanobacterial Psbp (Cyanop)		2e-07

>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp Length = 165

Iteration: 1
 Score = 70.1 bits (170), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 39/115 (33%), Positives = 66/115 (57%), Gaps = 9/115 (7%)
Query: 98  GFREYIDTFDGYSFKYPQNWIQVRGAG-ADIFYRDPYVLDENVSVELXXXXXXRYKSVED 156
           G + Y+D++DGY F YP+ W+QV+     D+ + D     ENVSV +        KS+E+
Sbjct: 7   GLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAST--KSLEE 64
Query: 157 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKI 211
           LG P+E G ++LR  +    S      R S +++ +S+ ADD + YY++E+ + +
Sbjct: 65  LGSPEEVGDRLLRNIIAPSES-----GRSSALIAATSQKADD-KTYYILEYAVTL 113

>pdb|2LNJ|A Chain A, Solution Structure Of Cyanobacterial Psbp (Cyanop) From Synechocystis Sp. Pcc 6803 Length = 170

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 60/113 (53%), Gaps = 12/113 (10%)
Query: 99  FREYIDTFDGYSFKYPQNWI--QVRGA--GADIFYRDPYVLDENVSVELXXXXXXRYKSV 154
            + Y DT DGY F YP  WI   V+GA  G D+ +RD    DEN+SV +        K++
Sbjct: 14  LQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSD--KTL 71
Query: 155 EDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEH 207
            DLG   + G + ++      ++      R++ +++  +R  +DG++YY +E+
Sbjct: 72  TDLGTATDVGYRFMKT-----VNDASQGDRQAELINAEAR-DEDGQVYYTLEY 118

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	225
2xb3_A	165	PSBP protein; photosynthesis, zinc-binding, photos	4e-23
2vu4_A	273	Oxygen-evolving enhancer protein 2; kDa protein, t	1e-22
1v2b_A	177	23-kDa polypeptide of photosystem II oxygen- evolv	3e-21
2lnj_A	170	SLL1418 protein, putative uncharacterized protein	6e-21
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04

>2xb3_A PSBP protein; photosynthesis, zinc-binding, photosystem; 2.80A {Thermosynechococcus elongatus} Length = 165

 Score = 90.7 bits (224), Expect = 4e-23
 Identities = 39/119 (32%), Positives = 71/119 (59%), Gaps = 9/119 (7%)

Query: 93  AQQSVGFREYIDTFDGYSFKYPQNWIQVRG-AGADIFYRDPYVLDENVSVELSSPSSSRY 151
           +  + G + Y+D++DGY F YP+ W+QV+     D+ + D     ENVSV +++ +S+  
Sbjct: 2   SSATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAST-- 59

Query: 152 KSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLK 210
           KS+E+LG P+E G ++LR  +    S      R S +++ +S+ A D + YY++E+ + 
Sbjct: 60  KSLEELGSPEEVGDRLLRNIIAPSESG-----RSSALIAATSQKA-DDKTYYILEYAVT 112

>1v2b_A 23-kDa polypeptide of photosystem II oxygen- evolving complex; alpha-beta, riken structural genomics/proteomics initiative, RSGI; HET: GLC; 1.60A {Nicotiana tabacum} SCOP: d.107.1.2 Length = 177

 Score = 86.1 bits (212), Expect = 3e-21
 Identities = 25/129 (19%), Positives = 47/129 (36%), Gaps = 17/129 (13%)

Query: 93  AQQSVGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSS 149
            +    F+ Y    DG+  + P  W   +     G  + + D +    NV V ++     
Sbjct: 3   PKTDTDFQTY--NGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTDK- 59

Query: 150 RYKSVEDLGPPKEAGRKVLRQYLTEFMS--------TRLGVRRESNILSTSSRVADDGRL 201
             KS+ D G P++   +V      +  S                +N+L TS+     G+ 
Sbjct: 60  --KSITDFGSPEQFLSQVDYLLGRQAYSGKTDSEGGFESDAVAIANVLETSTAEV-GGKQ 116

Query: 202 YYLVEHVLK 210
           YY +  + +
Sbjct: 117 YYYLSILTR 125

>2lnj_A SLL1418 protein, putative uncharacterized protein SLL1418; cyanop, photosystem II, PSBP, photosynthesis; NMR {Synechocystis SP} Length = 170

 Score = 84.9 bits (209), Expect = 6e-21
 Identities = 36/129 (27%), Positives = 63/129 (48%), Gaps = 12/129 (9%)

Query: 98  GFREYIDTFDGYSFKYPQNWIQVRGA----GADIFYRDPYVLDENVSVELSSPSSSRYKS 153
             + Y DT DGY F YP  WI V       G D+ +RD    DEN+SV +S   S   K+
Sbjct: 13  SLQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPSD--KT 70

Query: 154 VEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM 213
           + DLG   + G + ++      ++      R++ +++  +R  +DG++YY +E+ + +  
Sbjct: 71  LTDLGTATDVGYRFMKT-----VNDASQGDRQAELINAEARD-EDGQVYYTLEYRVLVGD 124

Query: 214 PSGEHKVIC 222
               H +  
Sbjct: 125 NVERHDLAS 133

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.8 bits (92), Expect = 5e-04
 Identities = 37/248 (14%), Positives = 64/248 (25%), Gaps = 77/248 (31%)

Query: 30  LHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPR-------RNA-MALILSSYI 81
           L S ++ +Q+ P     +++   +   N      ++ V R       R A + L  +  +
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153

Query: 82  FSD--FGFRNTALAQQSVGFREYIDTFDG------------------------------- 108
             D   G   T +A       +     D                                
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213

Query: 109 -----YSFKYPQNWIQVRGAGADIFYRDPY-----VLDENV-------SVELSSPS--SS 149
                +S         ++     +    PY     VL  NV       +  LS     ++
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQNAKAWNAFNLSCKILLTT 272

Query: 150 RYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES-NILS--TSSRVADDGRLYYLVE 206
           R+K V D           L  +             E  ++L      R  D      L  
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTL------TPDEVKSLLLKYLDCRPQD------LPR 320

Query: 207 HVLKIHMP 214
            VL  + P
Sbjct: 321 EVLTTN-P 327

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	225
1v2b_A	177	23-kDa polypeptide of photosystem II oxygen- evolv	99.96
2xb3_A	165	PSBP protein; photosynthesis, zinc-binding, photos	99.96
2lnj_A	170	SLL1418 protein, putative uncharacterized protein	99.92
3hlz_A	269	Uncharacterized protein BT_1490; NP_810393.1, stru	82.2

>1v2b_A 23-kDa polypeptide of photosystem II oxygen- evolving complex; alpha-beta, riken structural genomics/proteomics initiative, RSGI; HET: GLC; 1.60A {Nicotiana tabacum} SCOP: d.107.1.2

Probab=99.96  E-value=6.2e-30  Score=214.91  Aligned_cols=121  Identities=21%  Similarity=0.329  Sum_probs=94.7

Q ss_pred             cccCccceeecCCCeeeecCCCceeec---ccccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHH----HHHHH
Q 027282           95 QSVGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKE----AGRKV  167 (225)
Q Consensus        95 ~~~gf~~y~D~~dGYsf~yP~~W~~v~---~~G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPee----v~~~L  167 (225)
                      ++.||++|.  +|||+|+||.+|+++.   ++|+|++|+|+++..+||+|+|+|++   +++|+|||+|++    |+++|
T Consensus         5 ~~~g~~~y~--~~gysf~yP~~W~~~~~~~~~G~~~~f~d~~~~~~nvsV~v~p~~---~~si~dlGspe~~~~~v~~~l   79 (177)
T 1v2b_A            5 TDTDFQTYN--GDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTD---KKSITDFGSPEQFLSQVDYLL   79 (177)
T ss_dssp             --CCEEEEE--CSSEEEEEETTCEECCCCCSTTEEEEEEETTEEEEEEEEEEEECS---CSSGGGGCSHHHHHHHTGGGC
T ss_pred             CCCCceEEe--cCCEEEEcCCCCcccccccCCCceEEEeCCcCCCccEEEEEeCCC---CCChhHCCCHHHHHHHHHHHH
Confidence            468999998  9999999999999644   66999999999999999999999996   699999999999    68899


Q ss_pred             HHHHhhhc-cc---cccCCcceeeEEecceeecCCCeeeEEEEEEEeecC----CCCceeee
Q 027282          168 LRQYLTEF-MS---TRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM----PSGEHKVI  221 (225)
Q Consensus       168 ~~~~~~~~-~s---t~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~----~~n~l~~~  221 (225)
                      +++++++. ++   ..++++++++||++++|+ .||++||+|||.+++..    .||.|+.+
T Consensus        80 ~~~~~~~~~~~~~gf~~~~~~~a~ll~a~~r~-~~G~~YY~~E~~~~~~~g~e~~rH~l~~~  140 (177)
T 1v2b_A           80 GRQAYSGKTDSEGGFESDAVAIANVLETSTAE-VGGKQYYYLSILTRTADGNEGGKHQLVTA  140 (177)
T ss_dssp             ------------------CCCEEEEEEEEEEE-ETTEEEEEEEEEEEC-----CCEEEEEEE
T ss_pred             HHHhhcccccccCCcccCcccceEEEEeEEEE-eCCeEEEEEEEEEecCCCCccccEEEEEE
Confidence            99998761 11   123556999999999999 79999999999999875    68888754

>2xb3_A PSBP protein; photosynthesis, zinc-binding, photosystem; 2.80A {Thermosynechococcus elongatus}

Probab=99.96  E-value=8.3e-29  Score=203.88  Aligned_cols=119  Identities=32%  Similarity=0.629  Sum_probs=106.7

Q ss_pred             cccCccceeecCCCeeeecCCCceeeccc-ccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhh
Q 027282           95 QSVGFREYIDTFDGYSFKYPQNWIQVRGA-GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLT  173 (225)
Q Consensus        95 ~~~gf~~y~D~~dGYsf~yP~~W~~v~~~-G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~  173 (225)
                      .+.||++|.|+++||+|+||.+|+++.++ |++++|+|+++..+||+|+|+|++.  .++|+|||+|++|+++|++++++
T Consensus         4 ~~~g~~~~~D~~~gysf~~P~~W~~~~~~~g~~v~f~d~~~~~~~v~V~v~p~~~--~~~l~~~G~~e~va~~l~~~~~~   81 (165)
T 2xb3_A            4 ATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAS--TKSLEELGSPEEVGDRLLRNIIA   81 (165)
T ss_dssp             --CCEEEEEETTTTEEEEEETTEEEECCCTTEEEEEEESSCTTSEEEEEEEECSS--CCCSGGGCCHHHHHHHHHHHTTS
T ss_pred             CCCCceEEEcCCCCEEEEcCCCCeEecCCCCceEEEECcccCCceEEEEEecCCC--CCChHHcCCHHHHHHHHHHHhhc
Confidence            36799999999999999999999999998 9999999999999999999999973  69999999999999999999887


Q ss_pred             hccccccCCcceeeEEecceeecCCCeeeEEEEEEEeecC------CCCceeee
Q 027282          174 EFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM------PSGEHKVI  221 (225)
Q Consensus       174 ~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~------~~n~l~~~  221 (225)
                      +     ++++++++||++.+|+ .+|++||+|||.+++..      .||.|+.+
T Consensus        82 ~-----~~~~~~~~l~~a~~r~-~~G~~yY~~Ey~~~~~~~~~~~~~rh~l~~~  129 (165)
T 2xb3_A           82 P-----SESGRSSALIAATSQK-ADDKTYYILEYAVTLPGDGNTAQQRHNLSSI  129 (165)
T ss_dssp             C-----TTSSCEEEEEEEEEEE-ETTEEEEEEEEEEECC-----CCEEEEEEEE
T ss_pred             C-----CCCCcceEEEEeeeee-cCCceEEEEEEEEecCCCccCccccEEEEEE
Confidence            6     4778999999999998 89999999999998865      46666654

>2lnj_A SLL1418 protein, putative uncharacterized protein SLL1418; cyanop, photosystem II, PSBP, photosynthesis; NMR {Synechocystis SP}

Probab=99.92  E-value=1.7e-30  Score=215.82  Aligned_cols=120  Identities=29%  Similarity=0.530  Sum_probs=110.0

Q ss_pred             ccccCccceeecCCCeeeecCCCceeeccc----ccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHHHH
Q 027282           94 QQSVGFREYIDTFDGYSFKYPQNWIQVRGA----GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLR  169 (225)
Q Consensus        94 e~~~gf~~y~D~~dGYsf~yP~~W~~v~~~----G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~  169 (225)
                      +.+.||++|.|+.|||+|+||.+|++++++    |+|++|+|+++..+||+|+|+|++.  .++|+|||+|++|+++|++
T Consensus         9 ~~~~g~~~y~d~~~gy~f~~P~gW~~~~~~~~~~g~~v~f~d~~~~~~nvsV~v~p~~~--~~si~d~G~pe~va~~l~~   86 (170)
T 2lnj_A            9 VGIASLQRYSDTKDGYEFLYPNGWIGVDVKGASPGVDVVFRDLIERDENLSVIISEIPS--DKTLTDLGTATDVGYRFMK   86 (170)
Confidence            457899999999999999999999999988    9999999999999999999999973  5999999999999999999


Q ss_pred             HHhhhccccccCCcceeeEEecceeecCCCeeeEEEEEEEeec--CCCCceeee
Q 027282          170 QYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIH--MPSGEHKVI  221 (225)
Q Consensus       170 ~~~~~~~st~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~--~~~n~l~~~  221 (225)
                      +++++     ++++++++||++.+|+ .||++||+|||.+++.  ..||.|+++
T Consensus        87 ~~~~~-----~~~~~~a~li~a~~~~-~~G~~yY~~Ey~~~~~~~~~rh~l~~~  134 (170)
T 2lnj_A           87 TVNDA-----SQGDRQAELINAEARD-EDGQVYYTLEYRVLVGDNVERHDLASV  134 (170)
Confidence            99887     4789999999999998 8999999999999985  477777664

>3hlz_A Uncharacterized protein BT_1490; NP_810393.1, structural genomics, joint center for structural genomics, JCSG; HET: MSE; 1.50A {Bacteroides thetaiotaomicron vpi-5482}

Probab=82.20  E-value=7  Score=34.00  Aligned_cols=44  Identities=18%  Similarity=0.508  Sum_probs=34.0

Q ss_pred             cceeecCCCeeeecCCCceeecccccceEeeCCCCCccceEEEE
Q 027282          100 REYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVEL  143 (225)
Q Consensus       100 ~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~~eNVsV~I  143 (225)
                      ..|.+|+.=|++.||++|+|.+-..--..|.+|..=+.|..+.-
T Consensus         5 kk~ISPgaWfs~~yP~~W~EfEd~E~sflFynp~~WtGNfRISa   48 (269)
T 3hlz_A            5 KKFISPGAWFSMNYPSDWNEFEDGEGSFLFYNPDVWTGNFRISA   48 (269)
T ss_dssp             EEEECGGGCEEEEECTTCEEECCCTTEEEEECSSSCCCEEEEEE
T ss_pred             ceeecCCceeEEecCCCcccccCCCCceeeeChhhcccceEEEe
Confidence            35788888999999999999875544556777778888876443

---

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	225
d1v2ba_	171	d.107.1.2 (A:) Oxygen-evolving enhancer protein Ps	6e-21

>d1v2ba_ d.107.1.2 (A:) Oxygen-evolving enhancer protein PsbP {Common tobacco (Nicotiana tabacum) [TaxId: 4097]} Length = 171

class: Alpha and beta proteins (a+b)
fold: Mog1p/PsbP-like
superfamily: Mog1p/PsbP-like
family: PsbP-like
domain: Oxygen-evolving enhancer protein PsbP
species: Common tobacco (Nicotiana tabacum) [TaxId: 4097]

 Score = 83.6 bits (206), Expect = 6e-21
 Identities = 25/124 (20%), Positives = 46/124 (37%), Gaps = 17/124 (13%)

Query: 98  GFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSSRYKSV 154
            F+ Y    DG+  + P  W   +     G  + + D +    NV V ++       KS+
Sbjct: 2   DFQTY--NGDGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTD---KKSI 56

Query: 155 EDLGPPKEAGRKVLRQYLTEFMS--------TRLGVRRESNILSTSSRVADDGRLYYLVE 206
            D G P++   +V      +  S                +N+L TS+     G+ YY + 
Sbjct: 57  TDFGSPEQFLSQVDYLLGRQAYSGKTDSEGGFESDAVAIANVLETSTAE-VGGKQYYYLS 115

Query: 207 HVLK 210
            + +
Sbjct: 116 ILTR 119

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	225
d1v2ba_	171	Oxygen-evolving enhancer protein PsbP {Common toba	99.94
d1tu1a_	144	Hypothetical protein PA0094 {Pseudomonas aeruginos	93.38

>d1v2ba_ d.107.1.2 (A:) Oxygen-evolving enhancer protein PsbP {Common tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: Alpha and beta proteins (a+b)
fold: Mog1p/PsbP-like
superfamily: Mog1p/PsbP-like
family: PsbP-like
domain: Oxygen-evolving enhancer protein PsbP
species: Common tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=99.94  E-value=1.6e-27  Score=195.93  Aligned_cols=120  Identities=22%  Similarity=0.345  Sum_probs=92.3

Q ss_pred             cCccceeecCCCeeeecCCCceeec---ccccceEeeCCCCCccceEEEEeCCCCCCCCCcccCCChHHHHHHH----HH
Q 027282           97 VGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKV----LR  169 (225)
Q Consensus        97 ~gf~~y~D~~dGYsf~yP~~W~~v~---~~G~dv~f~d~~~~~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L----~~  169 (225)
                      ++|++|.|  |||+|+||++|+++.   .+|+|++|+|+++..+||+|+|+|++   +++|++||+|+++++.+    ++
T Consensus         1 ~~~~~y~~--dgy~f~~P~~W~~~~~~~~~g~d~~f~d~~~~~~nv~V~v~p~~---~~sl~~~G~p~~~~~~v~~~l~~   75 (171)
T d1v2ba_           1 TDFQTYNG--DGFKLQIPSKWNPNKEVEYPGQVLRFEDNFDATSNVIVAITPTD---KKSITDFGSPEQFLSQVDYLLGR   75 (171)
T ss_dssp             CCEEEEEC--SSEEEEEETTCEECCCCCSTTEEEEEEETTEEEEEEEEEEEECS---CSSGGGGCSHHHHHHHTGGGC--
T ss_pred             CCcccccC--CCEEEECCCCCceecccCCCCceEEEeccccCCceEEEEEecCC---CcchhhccChHHHHHHHHHHHhh
Confidence            46999986  899999999998654   55899999999999999999999986   89999999999977665    44


Q ss_pred             HHhhhccc----cccCCcceeeEEecceeecCCCeeeEEEEEEEeecC----CCCceeeec
Q 027282          170 QYLTEFMS----TRLGVRRESNILSTSSRVADDGRLYYLVEHVLKIHM----PSGEHKVIC  222 (225)
Q Consensus       170 ~~~~~~~s----t~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s~~----~~n~l~~~~  222 (225)
                      +.+.++..    ++.+.+++++|+++++++ .||++||+|||.++++.    .||.|+++.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~a~v~~a~~~~-~~G~~YY~~Ey~~~~~~~~~~~rh~l~~~~  135 (171)
T d1v2ba_          76 QAYSGKTDSEGGFESDAVAIANVLETSTAE-VGGKQYYYLSILTRTADGNEGGKHQLVTAT  135 (171)
T ss_dssp             ----------------CCCEEEEEEEEEEE-ETTEEEEEEEEEEEC-----CCEEEEEEEE
T ss_pred             hhhcccccccccccccccceeEEEEeeeee-cCCEEEEEEEEEEecCCCCCcccEEEEEEE
Confidence            44443211    345668999999999999 79999999999998864    467777653

>d1tu1a_ d.107.1.3 (A:) Hypothetical protein PA0094 {Pseudomonas aeruginosa [TaxId: 287]}

class: Alpha and beta proteins (a+b)
fold: Mog1p/PsbP-like
superfamily: Mog1p/PsbP-like
family: PA0094-like
domain: Hypothetical protein PA0094
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=93.38  E-value=0.57  Score=34.52  Aligned_cols=92  Identities=8%  Similarity=0.014  Sum_probs=50.6

Q ss_pred             ccceeecCCCeeeecCCCceeecccccceEeeCCCCC-ccceEEEEeCCCCCCCCCcccCCChHHHHHHHHHHHhhhccc
Q 027282           99 FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVL-DENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMS  177 (225)
Q Consensus        99 f~~y~D~~dGYsf~yP~~W~~v~~~G~dv~f~d~~~~-~eNVsV~Isp~~~~~~~si~dlGsPeev~~~L~~~~~~~~~s  177 (225)
                      +..|.  .+.=+|.+|.+|.+-.+  ..+.+.|.... .-||.|...+..        +=.++++..++.++++-..   
T Consensus         3 ~~~Y~--~~Egs~~lP~gw~d~t~--ni~~~~~~~~~~~~~lvIsr~~l~--------~~~~l~~~~~~~~~~l~~~---   67 (144)
T d1tu1a_           3 MTLYR--LHEADLEIPDAWQDQSI--NIFKLPASGPAREASFVISRDASQ--------GDAPFADYVARQLENAEKQ---   67 (144)
T ss_dssp             EEEEE--CSSEEEEEETTSEECCB--EEEEECCBTTBCCEEEEEEEECCC--------TTSCHHHHHHHHHHHHHHH---
T ss_pred             CceeE--EcCEEEeCCCCceeCcc--eEEEecCCCCCcceEEEEEeecCC--------CCCCHHHHHHHHHHHHHhh---
Confidence            45565  44449999999985432  23344444322 235666666554        2336677777766665432   


Q ss_pred             cccCCcceeeEEecceeecCCCeeeEEEEEEEee
Q 027282          178 TRLGVRRESNILSTSSRVADDGRLYYLVEHVLKI  211 (225)
Q Consensus       178 t~~~~~~~a~ll~a~~r~~~dG~~YY~~Ey~v~s  211 (225)
                           ...-++++...-+ .+|.+-+.+||.-..
T Consensus        68 -----l~~~~~~~~~~~~-l~g~pa~~~~~t~~~   95 (144)
T d1tu1a_          68 -----LPGFKLHKRWDIN-IHGHAAVLLDYQWQR   95 (144)
T ss_dssp             -----STTCEEEEEEEEE-ETTEEEEEEEEEEEE
T ss_pred             -----CCCcEEEeeEecc-cCCCcEEEEEEEEee
Confidence                 1234445543333 566666666666544