Citrus Sinensis ID: 023653

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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-------230-------240-------250-------260-------270-------28
Protein Sequence
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA
Secondary Structure (PSIPRED)
cccEEccccccccccccccccccccccccccccccccccccccccccEEEccccccccHHHHccccHHHHHHHHHHHHHHHHHHccccHHHHHHccccccccccccccEEEEcccccEEEccccccEEEEccccccccEEEEEEcccccccccccccccHHHHHHHHHHHHHHHccccccccccccEEEEccEEEcccccEEEEEEEEEEEccccccccccccccccccccccEEEEEEEEEccEEEEEEEEccccccHHHHHHHHHHHccEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccEEEEEEccccccccccccccccccccccccccccccccccccccEEEEEEccccccHHHcccccHHHHHHHHHHHHHHHHHHcccccHHHccccccccEEEcccccEEEEcccccEEEEcccccEEEEccccccccEEEEEEcccccccccHHHcccHHHHHHHHHHHHHccccccccccccHHHHHHHHccccccccEEEEEEEEEEEcccccEEEEcccccccEcccccEEEEEEEEEccEEEEEEEcccHHHHHHHHHHHHHHHHccEEEEccc
Coil and Loop (DISEMBL)
marmvmmqhqthpcfsiltstlsgfngaslHSQVRQqqqtplprealhvtasnekknpvmaatqfaVPRRNAMALILSSYifsdfgfrntaLAQQsvgfreyidtfdgysfkypqnwiqvrgagadifyrdpyvldenvsvelsspsssryksvedlgppkeaGRKVLRQYLTEFMStrlgvrresnilstssrvaddgRLYYLVEVNIKsfannnelavmpkdrvvnlewdrRYLSVLGvennrlyelrlqtpenvfveEENDLRQVIDSFRVNKVSA
Flexible Loop (DISEMBL)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHvtasnekknpvMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSvelsspsssryksvedlgppkeagrkVLRQYLTEfmstrlgvrresnilstssrvaddgrLYYLVEVNIKsfannnelavmpkdrvvnleWDRRYLSVlgvennrlyelrlqtpenvfveeendlrqvidsfrvnkvsa
Low Complexity Region (SEG)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELsspsssRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA
Disordered region (IsUnstruct)
************PCFSILTSTLSGF***********************************AATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENV***************************VLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVID*********
Disordered Region (DISOPRED)
*********QTHPCFSILTST*************************************************NAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSR***VEDLGPPKEAGRKVLRQYLT***********************DDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPEN**VEEENDLRQVIDSFRVNKV**
Disordered Region (DISEMBL)
**********THPCFSILTSTLSGFNGA**************PREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVS*****************GPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA
Disordered Region (DISPRO)
*ARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNP****TQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFM***********ILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVS*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA
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	279	2.2.26 [Sep-21-2011]
O23403	287	PsbP domain-containing pr	yes	no	0.752	0.731	0.742	8e-84
P82538	230	PsbP-like protein 1, chlo	no	no	0.555	0.673	0.262	1e-07
Q9SA52	378	Chloroplast stem-loop bin	no	no	0.229	0.169	0.523	3e-06

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

 Score =  310 bits (794), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 159/214 (74%), Positives = 182/214 (85%), Gaps = 4/214 (1%)

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 RESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN 243
           R++NILSTSSRVADDG+LYY VEVNIKS+ANNNELAVMP+DRV  LEW+RRYL+VLGVEN
Sbjct: 194 RQANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVEN 253

Query: 244 NRLYELRLQTPENVFVEEENDLRQVIDSFRVNKV 277
           +RLY +RLQTPE VF+EEE DLR+V+DSFRV K+
Sbjct: 254 DRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEKI 287

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 78/183 (42%), Gaps = 28/183 (15%)

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 SVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSF 212
           ++++ GPPK+    ++++ L            +   L  +S    DG+ YY  E  ++  
Sbjct: 132 TIKEFGPPKQIAETLIKKVLAP--------PNQKTTLIDASEHDVDGKTYYQFEFTVQ-- 181

Query: 213 ANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSF 272
           A N               + R  L  + V N   Y L     E  + + ++ L  V+DSF
Sbjct: 182 ARN---------------YTRHALGTITVFNGNFYTLTTGANERRWEKMKDRLHTVVDSF 226

Query: 273 RVN 275
           ++ 
Sbjct: 227 KIT 229

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

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 = 52.8 bits (125), Expect = 3e-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)

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	279
224124634	212	predicted protein [Populus trichocarpa]	0.759	1.0	0.896	1e-105
224124990	265	predicted protein [Populus trichocarpa]	0.770	0.811	0.869	1e-103
255542948	265	Thylakoid lumenal 21.5 kDa protein, chlo	0.838	0.883	0.793	1e-103
311335431	257	PsbP domain protein 1 [Gossypium hirsutu	0.842	0.914	0.788	1e-100
296089803	248	unnamed protein product [Vitis vinifera]	0.856	0.963	0.787	1e-100
359487555	282	PREDICTED: psbP domain-containing protei	0.856	0.847	0.787	1e-100
388502234	326	unknown [Lotus japonicus]	0.982	0.840	0.596	9e-99
449443516	258	PREDICTED: psbP domain-containing protei	0.749	0.810	0.845	6e-97
356505763	258	PREDICTED: psbP domain-containing protei	0.810	0.875	0.763	3e-95
356571066	227	PREDICTED: LOW QUALITY PROTEIN: psbP dom	0.756	0.929	0.774	3e-92

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

 Score =  385 bits (990), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 190/212 (89%), Positives = 206/212 (97%)

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 SNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNR 245
           SNILSTSSRVADDG+LYY VEVNIKS+ANNNELAVMP++RVV LEWDRRYLSVLGVENN+
Sbjct: 121 SNILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPRERVVRLEWDRRYLSVLGVENNQ 180

Query: 246 LYELRLQTPENVFVEEENDLRQVIDSFRVNKV 277
           LYELRLQTPENVFVEEENDLR+V+DSFRVNK+
Sbjct: 181 LYELRLQTPENVFVEEENDLRKVMDSFRVNKI 212

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 =  380 bits (976), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 187/215 (86%), Positives = 205/215 (95%)

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 ESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENN 244
           ESNI+STSSRVADDG+LYY VEVNIKS+ANNNELAVMP++RVV LEW+RRY+SVLGVENN
Sbjct: 171 ESNIISTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQERVVRLEWNRRYMSVLGVENN 230

Query: 245 RLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA 279
           RLYELRLQTPENVFVEEENDLRQV+DSFRVNKV+ 
Sbjct: 231 RLYELRLQTPENVFVEEENDLRQVMDSFRVNKVTV 265

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 =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 188/237 (79%), Positives = 213/237 (89%), Gaps = 3/237 (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 KEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAV 220
           +EAG+KVL+QYLTEFMSTRLGVRRES+ILSTSSRVADDG+LYY VEVNIKS+ANNNE+AV
Sbjct: 149 QEAGKKVLKQYLTEFMSTRLGVRRESDILSTSSRVADDGKLYYQVEVNIKSYANNNEMAV 208

Query: 221 MPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKV 277
           MP+DRVV LEW+RRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQV++SFRVNKV
Sbjct: 209 MPQDRVVRLEWNRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVMESFRVNKV 265

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 =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 190/241 (78%), Positives = 212/241 (87%), Gaps = 6/241 (2%)

Query: 40  TPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFR-NTALAQQSVG 98
           TP P  A  +     ++N    A+  ++PRRNAMALILS+YIFS+ G   N A A+ SVG
Sbjct: 22  TPFPPSASCLCT---RRNQSFQAS--SIPRRNAMALILSTYIFSEVGLHDNIAFAEPSVG 76

Query: 99  FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLG 158
           FREYIDTFDGYS KYPQNWIQVRGAGADIF+RDPYVLDEN+SVELSSPSSSRYK+VEDLG
Sbjct: 77  FREYIDTFDGYSLKYPQNWIQVRGAGADIFFRDPYVLDENLSVELSSPSSSRYKTVEDLG 136

Query: 159 PPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNEL 218
           PP+EAG+KVL+QYLTEFMSTRLGVRRESNILSTSSRVADDG+LYY VEVNIKS+AN NEL
Sbjct: 137 PPEEAGKKVLKQYLTEFMSTRLGVRRESNILSTSSRVADDGKLYYQVEVNIKSYANTNEL 196

Query: 219 AVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVS 278
           AVMP+DRV  LEW+RRYLSVLGVENNRLYELRLQTPE+VFVEEENDLRQV+DSFRVNKV+
Sbjct: 197 AVMPQDRVPRLEWNRRYLSVLGVENNRLYELRLQTPESVFVEEENDLRQVMDSFRVNKVA 256

Query: 279 A 279
            
Sbjct: 257 G 257

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 =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 189/240 (78%), Positives = 210/240 (87%), Gaps = 1/240 (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 PKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELA 219
           P+EAG+KVL+QYLTEFMSTRLGVRRESNI+STSSRVADDGR YY VEVNIKS+ANNNELA
Sbjct: 129 PQEAGKKVLQQYLTEFMSTRLGVRRESNIVSTSSRVADDGRTYYQVEVNIKSYANNNELA 188

Query: 220 VMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA 279
           VMP DRV  LEWDRRYLSVLGVENNRLYELRLQTPE+VF+EEEN+LRQV+DSFRVNK S 
Sbjct: 189 VMPTDRVTRLEWDRRYLSVLGVENNRLYELRLQTPESVFLEEENELRQVMDSFRVNKASG 248

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 =  370 bits (949), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 189/240 (78%), Positives = 210/240 (87%), Gaps = 1/240 (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 PKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELA 219
           P+EAG+KVL+QYLTEFMSTRLGVRRESNI+STSSRVADDGR YY VEVNIKS+ANNNELA
Sbjct: 163 PQEAGKKVLQQYLTEFMSTRLGVRRESNIVSTSSRVADDGRTYYQVEVNIKSYANNNELA 222

Query: 220 VMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA 279
           VMP DRV  LEWDRRYLSVLGVENNRLYELRLQTPE+VF+EEEN+LRQV+DSFRVNK S 
Sbjct: 223 VMPTDRVTRLEWDRRYLSVLGVENNRLYELRLQTPESVFLEEENELRQVMDSFRVNKASG 282

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 =  365 bits (938), Expect = 9e-99,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 234/327 (71%), Gaps = 53/327 (16%)

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 TSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELR 250
           TSSRVADDG+LYY VEVNIKS+A+NNELAVMP+DRVV LEWDRRYLSVLGVENN+LYELR
Sbjct: 238 TSSRVADDGKLYYQVEVNIKSYASNNELAVMPQDRVVRLEWDRRYLSVLGVENNQLYELR 297

Query: 251 LQTPENVFVEEENDLRQVIDSFRVNKV 277
           LQTPENVF EEE+DLR+V+DSFRVN++
Sbjct: 298 LQTPENVFQEEESDLRRVMDSFRVNQI 324

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

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 =  359 bits (922), Expect = 6e-97,   Method: Compositional matrix adjust.
 Identities = 181/214 (84%), Positives = 199/214 (92%), Gaps = 5/214 (2%)

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 SNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNR 245
           SNILSTSSR+ADDGR YY VEVNIKS+ANNNELAVMP+DRVV LEWDRRYLSVLGVEN+R
Sbjct: 165 SNILSTSSRMADDGRTYYQVEVNIKSYANNNELAVMPQDRVVRLEWDRRYLSVLGVENSR 224

Query: 246 LYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA 279
           LYELRLQTPENVFVEEENDLRQV+DSFRVNKV+A
Sbjct: 225 LYELRLQTPENVFVEEENDLRQVMDSFRVNKVNA 258

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  354 bits (908), Expect = 3e-95,   Method: Compositional matrix adjust.
 Identities = 181/237 (76%), Positives = 206/237 (86%), Gaps = 11/237 (4%)

Query: 43  PREALHVTASNEKKNPVMAATQFAVPRRNAMALILSSYIFSDFGFRNTALAQQSVGFREY 102
           PR +L +T  + K         FAVPRR A++LILSSY  S+ G    ALAQQS  FREY
Sbjct: 33  PRCSLSLTPQSAKA--------FAVPRRKALSLILSSYFLSEAGL---ALAQQSPVFREY 81

Query: 103 IDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKE 162
           ID FDGYSF+YP +WIQVRGAGADIF+RDP+VLDEN+S+E+SSPSSS+YKSVEDLGPP+E
Sbjct: 82  IDAFDGYSFQYPGSWIQVRGAGADIFFRDPFVLDENLSLEISSPSSSQYKSVEDLGPPQE 141

Query: 163 AGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMP 222
           AG+KVL+QYLTEFMSTRLGVRRESNILSTSSRVADDGRLYY VEVNIKS+ANNNELAVMP
Sbjct: 142 AGKKVLKQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYQVEVNIKSYANNNELAVMP 201

Query: 223 KDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVSA 279
           + RVV LEWDRRYLSVLGVENN+LYELRLQ PENVF EEENDLR+++DSFRVNK++A
Sbjct: 202 EARVVRLEWDRRYLSVLGVENNQLYELRLQVPENVFSEEENDLRRIMDSFRVNKIAA 258

Source: Glycine max

Species: Glycine max

Genus: Glycine

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 =  344 bits (882), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 168/217 (77%), Positives = 192/217 (88%), Gaps = 6/217 (2%)

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 VRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGV 241
           VRRESNILSTSSRV DDGRLYY +EVNIKS+ANNNELAVMP+DRVV LEWD RYLSVLGV
Sbjct: 133 VRRESNILSTSSRVTDDGRLYYQIEVNIKSYANNNELAVMPEDRVVRLEWDPRYLSVLGV 192

Query: 242 ENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNKVS 278
           ENN+LYELRLQ    VF EEEND+R+++DSFRVNK++
Sbjct: 193 ENNQLYELRLQX---VFSEEENDIRRIMDSFRVNKIA 226

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	279
TAIR|locus:2130295	287	PPD1 "PsbP-Domain Protein1" [A	0.752	0.731	0.714	9e-77
TAIR|locus:2203028	378	CRB "chloroplast RNA binding"	0.620	0.457	0.322	9.6e-10
TAIR|locus:2100681	230	PPL1 "PsbP-like protein 1" [Ar	0.387	0.469	0.260	4.2e-06

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

 Score = 773 (277.2 bits), Expect = 9.0e-77, P = 9.0e-77
 Identities = 153/214 (71%), Positives = 176/214 (82%)

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 RESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN 243
             R++NILSTSSRVADDG+LYY VEVNIKS+ANNNELAVMP+DRV  LEW+RRYL+VLGVEN
Sbjct:   194 RQANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVEN 253

Query:   244 NRLYELRLQTPENVFVEEENDLRQVIDSFRVNKV 277
             +RLY +RLQTPE VF+EEE DLR+V+DSFRV K+
Sbjct:   254 DRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEKI 287

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 = 9.6e-10, P = 9.6e-10
 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 = 113 (44.8 bits), Expect = 4.2e-06, Sum P(2) = 4.2e-06
 Identities = 31/119 (26%), Positives = 55/119 (46%)

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 SVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKS 211
             ++++ GPPK+    ++++ L           +++ ++  S    D G+ YY  E  +++
Sbjct:   132 TIKEFGPPKQIAETLIKKVLAP-------PNQKTTLIDASEHDVD-GKTYYQFEFTVQA 182

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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O23403	PPD1_ARATH	No assigned EC number	0.7429	0.7526	0.7317	yes	no

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	279
PLN00059	286	PLN00059, PLN00059, PsbP domain-containing protein	1e-107
pfam01789	163	pfam01789, PsbP, PsbP	1e-54

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

 Score =  312 bits (799), Expect = e-107
 Identities = 160/213 (75%), Positives = 183/213 (85%), Gaps = 4/213 (1%)

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 RESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN 243
           RE+NILSTSSRVADDG+LYY VEVNIKS+ANNNELAVMP+DRV  LEW+RRYL+VLGVEN
Sbjct: 194 REANILSTSSRVADDGKLYYQVEVNIKSYANNNELAVMPQDRVARLEWNRRYLAVLGVEN 253

Query: 244 NRLYELRLQTPENVFVEEENDLRQVIDSFRVNK 276
           +RLY +RLQTPE VF+EEE DLR+V+DSFRV K
Sbjct: 254 DRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEK 286

Length = 286

>gnl|CDD|216701 pfam01789, PsbP, PsbP

 Score =  174 bits (442), Expect = 1e-54
 Identities = 61/179 (34%), Positives = 86/179 (48%), Gaps = 25/179 (13%)

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 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNN 216
           LG P+E G ++LR  L    S R     E+ +L  S R  D G+ YY +E  ++      
Sbjct: 67  LGSPEEVGERLLRGVLAPEGSGR-----EAELLEASEREVD-GKTYYDLEYLVRLADG-- 118

Query: 217 ELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVN 275
                          DR  L+ + V+  +LY L  QT E  + + +    +V+DSF V 
Sbjct: 119 --------------GDRHELATVTVDRGKLYTLAAQTNEKRWFKVKKLFERVVDSFSVA 163

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	279
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	100.0
PLN00067	263	PsbP domain-containing protein 6; Provisional	100.0
PLN00066	262	PsbP domain-containing protein 4; Provisional	100.0
PLN03152	241	hypothetical protein; Provisional	99.95
PF08786	130	DUF1795: Domain of unknown function (DUF1795); Int	98.08
COG5435	147	Uncharacterized conserved protein [Function unknow	94.11
PRK11615	185	hypothetical protein; Provisional	94.04
PF10738	175	Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR	91.25

>PLN00059 PsbP domain-containing protein 1; Provisional

Probab=100.00  E-value=8.8e-57  Score=403.77  Aligned_cols=214  Identities=73%  Similarity=1.122  Sum_probs=194.8

Q ss_pred             cccccchhHHHHHHHH-HHHHhhhcCCccccccccCCCcccceeCCCceEEeccCCceEecccccceEEeCCCCCCccEE
Q 023653           62 ATQFAVPRRNAMALIL-SSYIFSDFGFRNTALAQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVS  140 (279)
Q Consensus        62 ~~~~~~~RR~~l~~~~-sa~~~~~~~~~~~a~a~~~~gf~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~~~nVs  140 (279)
                      .+.++++||++|+..+ .+.++......+.|++.++ ||+.|.|+.|||+|+||.||+++++.|+|++|+|+++.+|||+
T Consensus        72 ~~~~~~~rr~~~~~~l~~~~~~~s~~~~~~a~a~~~-~l~~y~D~~DGY~FlYP~GWi~V~~~G~DVvFrD~Ie~~ENVS  150 (286)
T PLN00059         72 KQVCAVGRRKSMMMGLLMSGLIVSEANLPTAFASIP-VFREYIDTFDGYSFKYPQNWIQVRGAGADIFFRDPVVLDENLS  150 (286)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHHhhcCchhhcCCc-ccceeEcCCCCeEEeCCCCCeEeccCCCceEEeccCccccceE
Confidence            4468999999976443 2334333333346777654 8999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCccccceeecceeeeCCCceEEEEEEEeecccccccccc
Q 023653          141 VELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAV  220 (279)
Q Consensus       141 V~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~  220 (279)
                      |+|+|+++.++++|+|||+|+|||++|+++++++||+++.|++++++||++.+|++.||++||+|||.++.++++|++|+
T Consensus       151 V~ISs~sss~~~sLeDLGsP~eVgerLlkqvLa~f~str~GsgReaeLVsA~~Re~~DGktYY~lEY~Vks~~~~n~~~~  230 (286)
T PLN00059        151 VEFSSPSSSKYTSLEDLGSPEEVGKRVLRQYLTEFMSTRLGVKREANILSTSSRVADDGKLYYQVEVNIKSYANNNELAV  230 (286)
T ss_pred             EEEecCCcccCCChHHcCCHHHHHHHHHHHHhcccccccCCCCcceEEEEeeeEEccCCcEEEEEEEEEEcCcccccccc
Confidence            99999885568999999999999999999999999999999999999999999986699999999999999999999999


Q ss_pred             CCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHHHHhcceeeee
Q 023653          221 MPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRVNK  276 (279)
Q Consensus       221 ~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~~vv~SFrv~~  276 (279)
                      ++.+|.|.++|.||+|++++|.|||||||++|+||+||.|+++.|++|++||+|++
T Consensus       231 ~~qdr~~~~~w~RH~LA~v~V~nGkLYTL~~qtpE~RW~kvk~~f~~V~dSF~V~~  286 (286)
T PLN00059        231 MPQDRVARLEWNRRYLAVLGVENDRLYSIRLQTPEKVFLEEEKDLRRVMDSFRVEK  286 (286)
T ss_pred             cccccccccccceeeEEEEEEeCCEEEEEEcCCcHHHHHHHHHHHHHHHhheeecC
Confidence            99999999999999999999999999999999999999999999999999999975

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

Probab=100.00  E-value=5e-53  Score=380.67  Aligned_cols=235  Identities=23%  Similarity=0.298  Sum_probs=191.9

Q ss_pred             CcchhhhhccccCccccccccccccccCccchhhhhcccCCCccccceeeccccccccccccccccchhHHHHHHHHHH-
Q 023653            1 MARMVMMQHQTHPCFSILTSTLSGFNGASLHSQVRQQQQTPLPREALHVTASNEKKNPVMAATQFAVPRRNAMALILSS-   79 (279)
Q Consensus         1 m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~as~~k~~~i~~~~~~~~~RR~~l~~~~sa-   79 (279)
                      ||+++||+||++++.+...++.+..+ .         +.....++.+.+|.++..       +...++||.+|++++++ 
T Consensus         1 ~a~~~~~~~~~~~~~~~~~~~~~~~~-~---------~~~~~~~~~~~~~~~~~~-------~~~~~srr~~l~~~~ga~   63 (260)
T PLN00042          1 MASTACFLHQSALKSAAALASSSSAS-A---------RAVSASRPSQVVCRAQEE-------DNSAVSRRAALALLAGAA   63 (260)
T ss_pred             Ccchhhhhhcccccchhhhccccccc-c---------cccCCCCCcceeeecccc-------ccccccHHHHHHHHHHHH
Confidence            99999999999997663332221111 1         124445556667766521       33678999999988776 


Q ss_pred             HHhhhcCCcccccccc---------CCCcccceeCCCceEEeccCCceEec---ccccceEEeCCCCCCccEEEEEeCCC
Q 023653           80 YIFSDFGFRNTALAQQ---------SVGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPS  147 (279)
Q Consensus        80 ~~~~~~~~~~~a~a~~---------~~gf~~y~D~~dgYsf~yP~~W~~~~---~~G~d~~f~d~~~~~~nVsV~i~p~~  147 (279)
                      ++.+.+.|+.+||+++         ..||.+|.  .|||+|+||.+|++++   .+|+|++|+|+++.++||+|+|+|++
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            3345788999998763         78999996  5999999999999654   46999999999999999999999986


Q ss_pred             CCCCCccccCCChHH----HHHHHHHHHhhhhhhcccCCcc------ccceeecceeeeCCCceEEEEEEEeeccccccc
Q 023653          148 SSRYKSVEDLGPPKE----AGRKVLRQYLTEFMSTRLGVRR------ESNILSTSSRVADDGRLYYLVEVNIKSFANNNE  217 (279)
Q Consensus       148 ~~~~~si~dlGspee----va~~ll~~~~~~~~st~~g~~~------~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~  217 (279)
                         +++|+|||+|||    |++.|.++.+.+  .|+.++++      .++||++++++ +||++||+|||.+++      
T Consensus       142 ---k~sI~dlGsPee~l~~vgylL~kq~~a~--~t~s~~Gf~p~~vata~Lleas~re-~dGk~YY~lE~~~~~------  209 (260)
T PLN00042        142 ---KKSITDYGSPEEFLSKVSYLLGKQAYSG--ETASEGGFDANAVATAAVLESSTQE-VGGKPYYYLSVLTRT------  209 (260)
T ss_pred             ---cCCHhhcCCHHHHHHHHHHHHHhhhccC--ccccccCcCcccccceeEEEeeeEE-eCCeEEEEEEEEEec------
Confidence               689999999999    777788888876  45555554      67899999998 799999999999998      


Q ss_pred             cccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHh-hHHHHHHhcceee
Q 023653          218 LAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEE-ENDLRQVIDSFRV  274 (279)
Q Consensus       218 ~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~-~~~l~~vv~SFrv  274 (279)
                          |++    ++++||+|+++||.|||||||++|+||+||+|+ ++.|+.|++||+|
T Consensus       210 ----ad~----d~~~RH~LatatV~~GkLYtl~aqa~EkRW~K~~~k~l~~v~~SFsV  259 (260)
T PLN00042        210 ----ADG----DEGGKHQLITATVSDGKLYICKAQAGDKRWFKGARKFVEGAASSFSV  259 (260)
T ss_pred             ----CCC----CCCCceEEEEEEEECCEEEEEEecCchhhhhHHHHHHHHHHHhceec
Confidence                776    789999999999999999999999999999998 5579999999997

>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=100.00  E-value=2.3e-40  Score=286.39  Aligned_cols=158  Identities=44%  Similarity=0.718  Sum_probs=141.1

Q ss_pred             cccCCCcccceeCCCceEEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHh
Q 023653           93 AQQSVGFREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYL  172 (279)
Q Consensus        93 a~~~~gf~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~  172 (279)
                      +.+..||++|.|+.+||+|.||.+|+++++.|+|++|+|+.+..+||+|+|+|++.  .++|+|||+|++|++.|++..+
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  4499999999999999999888


Q ss_pred             hhhhhcccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEee
Q 023653          173 TEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQ  252 (279)
Q Consensus       173 ~~~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~q  252 (279)
                      .++     ++++.++||++.+++ .||++||+|||.+++          |+      ++.||+|+++++.+||||+|++|
T Consensus        95 ~~~-----~~~~~a~li~a~~~~-~~g~~yY~~Ey~~~~----------~~------~~~rh~l~~~tv~~g~lY~l~~~  152 (175)
T PF01789_consen   95 ASP-----GSGREAELISASERE-VDGKTYYEYEYTVQS----------PN------EGRRHNLAVVTVKNGKLYTLTAQ  152 (175)
T ss_dssp             CHC-----TSSEEEEEEEEEEEE-ETTEEEEEEEEEEEE----------TT------EEEEEEEEEEEEETTEEEEEEEE
T ss_pred             ccc-----cCCcceEEEEeeeee-cCCccEEEEEEEecc----------CC------CcccEEEEEEEEECCEEEEEEEE
Confidence            753     445889999999999 689999999999988          32      37999999999999999999999


Q ss_pred             cCccccHHhhHHHHHHhcceee
Q 023653          253 TPENVFVEEENDLRQVIDSFRV  274 (279)
Q Consensus       253 a~e~~W~k~~~~l~~vv~SFrv  274 (279)
                      ++|++|+++++.|++|++||+|
T Consensus       153 a~e~~w~k~~~~l~~iv~SF~v  174 (175)
T PF01789_consen  153 APESRWDKVEPKLRKIVDSFRV  174 (175)
T ss_dssp             EEHHHHHTCHHHHHHHHHC-EE
T ss_pred             cCHHHHHHHHHHHHHHHhcEEe
Confidence            9999999999999999999998

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=100.00  E-value=8.9e-39  Score=287.65  Aligned_cols=183  Identities=17%  Similarity=0.222  Sum_probs=148.2

Q ss_pred             ccchhHHHHHHHHHHHHhhhcCC-ccccc-------ccc---CCCcccce-----------eCCCceEEeccCCceEecc
Q 023653           65 FAVPRRNAMALILSSYIFSDFGF-RNTAL-------AQQ---SVGFREYI-----------DTFDGYSFKYPQNWIQVRG  122 (279)
Q Consensus        65 ~~~~RR~~l~~~~sa~~~~~~~~-~~~a~-------a~~---~~gf~~y~-----------D~~dgYsf~yP~~W~~~~~  122 (279)
                      ....||++|.+++.+.+++.... +..|.       ..+   .+||-.|.           +...||+|+||.+|+++++
T Consensus        41 ~~~~rr~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~lp~~~~~~~~~~f~~~~~~tpalra~~i~gY~FlyP~gW~~v~V  120 (263)
T PLN00067         41 VVIHRRELLLGLALAPLILIAPEPPAEAREVEVGSYLPPSPSDPSFVLFKASPKDTPALRAGNVQPYQFILPPTWKQTRV  120 (263)
T ss_pred             chhHHHHHHhhhhhhhhhhccCCchhhhheehhhcccCCCCCCCceEEEecCCCCCcccccCCcccceEeCCCCCcCccc
Confidence            34789999877755444433322 22222       112   55777765           3355899999999999888


Q ss_pred             c----c-----------cceEEeCCCCCCccEEEEEeCCC---CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcc
Q 023653          123 A----G-----------ADIFYRDPYVLDENVSVELSSPS---SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR  184 (279)
Q Consensus       123 ~----G-----------~d~~f~d~~~~~~nVsV~i~p~~---~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~  184 (279)
                      +    |           +|++|+|+.  ++||+|+|.|+.   .++.++|+|||+|++|+++|.+.+.+       ++.+
T Consensus       121 s~~~sGnycqp~c~~p~~dv~F~D~~--dgnVSVIVSPV~r~t~k~~~sIeDlGsPeeVl~~Lg~~v~g-------~~~~  191 (263)
T PLN00067        121 ANILSGNYCQPKCAEPWVEVKFEDEK--QGKVQVVASPLIRLTNKPNATIEEIGSPEKLIASLGPFVTG-------NSYD  191 (263)
T ss_pred             cccccCccccccccCCCceEEEeCCC--CCCEEEEEecccccccCCCCChHHccCHHHHHHHhhHHhhc-------CCCC
Confidence            5    4           799999965  669999999973   12468999999999999999877665       4567


Q ss_pred             ccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHH
Q 023653          185 ESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEEND  264 (279)
Q Consensus       185 ~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~  264 (279)
                      +.+||++++++ .||++||+|||.++.          +       +++||+|+++++++|+||||++|++|+||+|+++.
T Consensus       192 ~~eLLeAs~re-~dGktYY~~E~~tp~----------a-------~~gRHnLataTV~~GkLYtf~asanEkRW~K~k~~  253 (263)
T PLN00067        192 PDELLETSVEK-IGDQTYYKYVLETPF----------A-------LTGSHNLAKATAKGNTVVLFVVSASDKQWQSSEKT  253 (263)
T ss_pred             CcceEEeeeEe-eCCeEEEEEEEEecC----------C-------CCCceEEEEEEEECCEEEEEEecCCHHHHHHHHHH
Confidence            88999999998 799999999999976          3       37999999999999999999999999999999999


Q ss_pred             HHHHhcceee
Q 023653          265 LRQVIDSFRV  274 (279)
Q Consensus       265 l~~vv~SFrv  274 (279)
                      |++|++||+|
T Consensus       254 l~~V~dSFsV  263 (263)
T PLN00067        254 LKAILDSFQA  263 (263)
T ss_pred             HHHHHHhccC
Confidence            9999999986

>PLN00066 PsbP domain-containing protein 4; Provisional

Probab=100.00  E-value=8.9e-36  Score=270.56  Aligned_cols=180  Identities=26%  Similarity=0.380  Sum_probs=144.1

Q ss_pred             ccchhHHHHHHHHHHHHhhhcCCccccc--------------ccc-CCCcccceeC-------------CCceEEeccCC
Q 023653           65 FAVPRRNAMALILSSYIFSDFGFRNTAL--------------AQQ-SVGFREYIDT-------------FDGYSFKYPQN  116 (279)
Q Consensus        65 ~~~~RR~~l~~~~sa~~~~~~~~~~~a~--------------a~~-~~gf~~y~D~-------------~dgYsf~yP~~  116 (279)
                      ..++||.+|+.+++++..+.++.+..++              .+| ..||++|..+             ..+|+|+||.+
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            4579999999776653333333333332              122 4567777754             35799999999


Q ss_pred             ceEeccc-----ccceEEeCCCCCCccEEEEEeCCC-----CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccc
Q 023653          117 WIQVRGA-----GADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRES  186 (279)
Q Consensus       117 W~~~~~~-----G~d~~f~d~~~~~~nVsV~i~p~~-----~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a  186 (279)
                      |+++.++     |+++.|++..+.++||+|+|.|+.     ..++++|+|||+|++|++.|++++++.       ..+++
T Consensus       123 W~ev~VS~~d~gg~~vd~Rf~~~~~~nvsVvVspv~rla~~~~~~~sI~dLGspeeVi~~l~~~v~g~-------~~~e~  195 (262)
T PLN00066        123 WEEVPVSIADLGGTEIDLRFASDKEGRLKVVVAPVLRFADNLGDNATIEEIGPPEKVISGFGPELIGE-------PVEEG  195 (262)
T ss_pred             CeEeecccccCCCCceEEEeccCCCccEEEEEeccccccccccCCCChHHcCCHHHHHHHHHHHhcCC-------Ccccc
Confidence            9998876     655555544468889999999985     124789999999999999999887764       24688


Q ss_pred             ceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHH
Q 023653          187 NILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLR  266 (279)
Q Consensus       187 ~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~  266 (279)
                      +|+++.+++ .||++||+|||   .                     ||+|+++||.+||||||++|+||+||+|+++.|+
T Consensus       196 eLl~a~~re-~dGktYY~~E~---~---------------------rH~LasaTV~~GrLYt~~asape~rW~k~~~~lr  250 (262)
T PLN00066        196 KVLSMEVAE-HSGRTYYQFEL---P---------------------PHTLVTATAAGNRVYIFSVTANGLQWKRHYKDLK  250 (262)
T ss_pred             ceeEeeeee-cCCcEEEEEEE---e---------------------CceEEEEEEECCEEEEEEeecchHhhHHHHHHHH
Confidence            999999887 79999999999   2                     5999999999999999999999999999999999


Q ss_pred             HHhcceeeee
Q 023653          267 QVIDSFRVNK  276 (279)
Q Consensus       267 ~vv~SFrv~~  276 (279)
                      +|++||+|+.
T Consensus       251 ~v~dSF~V~~  260 (262)
T PLN00066        251 RIAKSFRVVT  260 (262)
T ss_pred             HHhhceeeec
Confidence            9999999964

>PLN03152 hypothetical protein; Provisional

Probab=99.95  E-value=2.1e-27  Score=209.09  Aligned_cols=175  Identities=21%  Similarity=0.262  Sum_probs=125.5

Q ss_pred             ccchhHHHHHHHHHHHHhhhcCC--cccccccc-------------CCCcccceeCCCceEEeccCCceEecc-----c-
Q 023653           65 FAVPRRNAMALILSSYIFSDFGF--RNTALAQQ-------------SVGFREYIDTFDGYSFKYPQNWIQVRG-----A-  123 (279)
Q Consensus        65 ~~~~RR~~l~~~~sa~~~~~~~~--~~~a~a~~-------------~~gf~~y~D~~dgYsf~yP~~W~~~~~-----~-  123 (279)
                      +..+||+++.-.++..++++..+  ...+++++             ...+-.|.  ++||++.||..+...-.     + 
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            45577777765555444444333  23333432             11233343  89999999987765221     1 


Q ss_pred             ----c-------cceEEeCCCCCCccEEEEEeCCC-----CCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCc-ccc
Q 023653          124 ----G-------ADIFYRDPYVLDENVSVELSSPS-----SSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVR-RES  186 (279)
Q Consensus       124 ----G-------~d~~f~d~~~~~~nVsV~i~p~~-----~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~-~~a  186 (279)
                          |       -.++|..+ |+.|||||+|.|++     ..+.++|.|||+|+||++.++     +     .|.. ..+
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                1       13577765 89999999999986     113789999999999996553     2     1211 134


Q ss_pred             ceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHHhhHHHH
Q 023653          187 NILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLR  266 (279)
Q Consensus       187 ~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~  266 (279)
                      ..++. +++ .||++||+|||.+.                     .||.|++++|.+||||||+++++|+||+|++++|+
T Consensus       176 R~iel-~~E-~dGKtYY~lEy~v~---------------------~RH~LaTVaVsrGKLYTl~aSt~EkRW~Kvk~kfr  232 (241)
T PLN03152        176 RTIKV-KEE-EGIRTYYFYEFGRD---------------------EQHVALVATVNSGKAYIAGATAPESKWDDDGVKLR  232 (241)
T ss_pred             ceeee-eee-cCCceeEEEEEEeC---------------------CcEEEEEEEEcCCeEEEEecCCchhchHHHHHHHH
Confidence            44444 345 79999999999972                     69999999999999999999999999999999999


Q ss_pred             HHhcceeee
Q 023653          267 QVIDSFRVN  275 (279)
Q Consensus       267 ~vv~SFrv~  275 (279)
                      .+++||+|+
T Consensus       233 ~aa~SFsV~  241 (241)
T PLN03152        233 SAAISLTVL  241 (241)
T ss_pred             HHHhheeeC
Confidence            999999985

>PF08786 DUF1795: Domain of unknown function (DUF1795); InterPro: IPR014894 This is a bacterial protein of unknown function

Probab=98.08  E-value=0.00019  Score=58.78  Aligned_cols=127  Identities=12%  Similarity=0.072  Sum_probs=83.5

Q ss_pred             EEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccccee
Q 023653          110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNIL  189 (279)
Q Consensus       110 sf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll  189 (279)
                      +|.+|.+|.....  +...+.|+.....|+.|.-.+++.  .      .+.++..++.++++-.        .-..-.++
T Consensus         3 ~~~lP~~~~D~t~--nv~~~~~~~~~~~slvIsR~~l~~--g------~tl~~~~~~q~~~l~~--------~l~~~~~~   64 (130)
T PF08786_consen    3 SLTLPDGWQDRTM--NVLVLPDSGGSGPSLVISRDPLPD--G------ETLEDYLQRQLAQLRK--------QLPGFQLV   64 (130)
T ss_dssp             EEEEETTSEE--B--EEEEE--BTTB-EEEEEEEE---T--T------S-HHHHHHHHHHHHHC--------CSTT-EEE
T ss_pred             eEeCCCcceeceE--EEEEccCCCCCcceEEEEeccCCC--C------CCHHHHHHHHHHHHHh--------hCCCcEEE
Confidence            5788999998554  223444543334455555555442  2      3555666665544322        12245566


Q ss_pred             ecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEEC-CEEEEEEeecCccccHHhhHHHHHH
Q 023653          190 STSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN-NRLYELRLQTPENVFVEEENDLRQV  268 (279)
Q Consensus       190 ~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~-gkLYtl~~qa~e~~W~k~~~~l~~v  268 (279)
                      +...-+ .+|.+.+.++|.-..                 ....-|+..++...+ +++|+++.+++....+..++.++.+
T Consensus        65 ~~~~~~-l~~~~a~~l~~~~~~-----------------~g~~v~Q~q~~~~~~~~~~l~~T~t~~~~~~~~~~~~~~~i  126 (130)
T PF08786_consen   65 ERQPIT-LGGRPARELEYSFRS-----------------GGQPVYQRQAAVLLPGRRVLVFTYTAPGPFTEEQRAHWEAI  126 (130)
T ss_dssp             EEEEEE-ETTEEEEEEEEEEEE-----------------TTCEEEEEEEEEEEC-CCEEEEEEEEECCCHHHHHHHHHHH
T ss_pred             eeEEEE-eCCCCeEEEEEEEee-----------------CCEEEEEEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHHHH
Confidence            654444 789999999999976                 235678888888888 9999999999999999999999999


Q ss_pred             hcce
Q 023653          269 IDSF  272 (279)
Q Consensus       269 v~SF  272 (279)
                      ++||
T Consensus       127 ~~Sf  130 (130)
T PF08786_consen  127 LKSF  130 (130)
T ss_dssp             HCT-
T ss_pred             HhcC
Confidence            9998

It forms an antiparallel beta sheet structure and contains some alpha helical regions. ; PDB: 1TU1_A 3LYD_A.

>COG5435 Uncharacterized conserved protein [Function unknown]

Probab=94.11  E-value=2.5  Score=35.95  Aligned_cols=135  Identities=17%  Similarity=0.120  Sum_probs=79.4

Q ss_pred             EEeccCCceEecccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcccccee
Q 023653          110 SFKYPQNWIQVRGAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNIL  189 (279)
Q Consensus       110 sf~yP~~W~~~~~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~~a~ll  189 (279)
                      .|.+|..|.-..+    -.|.-...+..-++.+|+--......     .. .+..++.+..+-.    + .+   .-++.
T Consensus        10 ~l~lP~~w~DrSv----Nvf~~~~~gt~~~sfvIsRd~~~~g~-----~~-~~y~~rql~~l~k----~-Lp---gy~~~   71 (147)
T COG5435          10 TLELPAAWQDRSV----NVFVSGDNGTSGFSFVISRDPLEPGD-----TF-PEYVQRQLALLRK----Q-LP---GYELH   71 (147)
T ss_pred             eEcCcchhccceE----EEEEecCCCcceeEEEEecCCCCCCC-----cH-HHHHHHHHHHHHh----h-CC---CeEEe
Confidence            5789999997544    23333333345566666432211111     12 2233333322221    1 11   23444


Q ss_pred             ecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcce-EEEEEEEEECCEEEEEEeecCccccHHhhHHHHHH
Q 023653          190 STSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDR-RYLSVLGVENNRLYELRLQTPENVFVEEENDLRQV  268 (279)
Q Consensus       190 ~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~r-H~l~~~tv~~gkLYtl~~qa~e~~W~k~~~~l~~v  268 (279)
                      ...+-+ ++|..-...+|.-..          |.     .+++| +++.++.-.++++-+++++++..-=++.++....+
T Consensus        72 ~~~e~~-v~~~aa~~~~y~w~~----------~~-----~~~r~v~q~~~~i~~g~~vLifT~Tt~~~ftp~q~~~~~~~  135 (147)
T COG5435          72 HRREIE-VGGAAAPLLDYQWTS----------PE-----GEQRRVQQRQVFIERGDTVLIFTLTTPGEFTPSQKKAWEQV  135 (147)
T ss_pred             eccccc-cCccccceeEEEeec----------CC-----CCCceEEEEEeecccCCeEEEEEecCCCCCCHHHHHHHHHH
Confidence            444333 778877777777765          31     13344 45555555678999999999999999999999999


Q ss_pred             hcceeeeeec
Q 023653          269 IDSFRVNKVS  278 (279)
Q Consensus       269 v~SFrv~~~~  278 (279)
                      +.||....-+
T Consensus       136 I~Sf~p~~~~  145 (147)
T COG5435         136 IQSFVPNPPE  145 (147)
T ss_pred             HHhcCCCCCC
Confidence            9999876543

>PRK11615 hypothetical protein; Provisional

Probab=94.04  E-value=3.8  Score=36.02  Aligned_cols=133  Identities=14%  Similarity=0.201  Sum_probs=83.7

Q ss_pred             CCceEEeccCCceEeccc-cc----ceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhccc
Q 023653          106 FDGYSFKYPQNWIQVRGA-GA----DIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRL  180 (279)
Q Consensus       106 ~dgYsf~yP~~W~~~~~~-G~----d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~  180 (279)
                      ..+.+|.+|.++....+. |+    --.|-|+.  ...+-++|-+.+     +-++   .+..+.+|..+--.       
T Consensus        47 dGKl~FtLPag~sdqsgk~Gtq~nn~~vYad~t--g~kavIVi~gD~-----~~~~---Ld~la~rl~~qQr~-------  109 (185)
T PRK11615         47 DGKLSFTLPADMSDQSGKLGTQANNMHVYADAT--GQKAVIVILGDD-----TNED---LAVLAKRLEDQQRS-------  109 (185)
T ss_pred             ccEEEEEcCCccccccccccccccceEEEEcCC--CCEEEEEEeCCC-----Chhh---HHHHHHHHHHHHHh-------
Confidence            567999999999965432 32    23777742  334443342221     1112   24445555443221       


Q ss_pred             CCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccccHH
Q 023653          181 GVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVE  260 (279)
Q Consensus       181 g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~W~k  260 (279)
                       ....-.++.-+.-+ ++|+++++++-.+...           |      ..--.-++++..+++|-||.+..|.+.-.+
T Consensus       110 -rdp~lqvvsnK~i~-i~G~~~qQLDS~~t~~-----------G------qk~~SSvvL~~v~~rl~tlQitlpA~nqqq  170 (185)
T PRK11615        110 -RDPQLQVVTNKAIE-LKGHKLQQLDSIISAK-----------G------QTAYSSVVLGKVDNQLLTMQITLPADNQQQ  170 (185)
T ss_pred             -hCcCceeecceeEE-ECCeeeEEeeeeeecC-----------C------ceEEEEEEEEeeCCeEEEEEEecCCCCHHH
Confidence             12234455555555 7999999999888651           1      223334456677999999999999999888


Q ss_pred             hhHHHHHHhcceee
Q 023653          261 EENDLRQVIDSFRV  274 (279)
Q Consensus       261 ~~~~l~~vv~SFrv  274 (279)
                      .....+.|+++..+
T Consensus       171 aq~~ae~ii~tl~~  184 (185)
T PRK11615        171 AQTTAENIINTLVI  184 (185)
T ss_pred             HHHHHHHHHhheec
Confidence            88889999988654

>PF10738 Lpp-LpqN: Probable lipoprotein LpqN; InterPro: IPR019674 This protein is conserved in Mycobacteriaceae and is likely to be a lipoprotein []

Probab=91.25  E-value=7  Score=34.15  Aligned_cols=132  Identities=17%  Similarity=0.120  Sum_probs=74.3

Q ss_pred             eEEeccCCceEeccccc---ceEEeCC-C--CCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCC
Q 023653          109 YSFKYPQNWIQVRGAGA---DIFYRDP-Y--VLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGV  182 (279)
Q Consensus       109 Ysf~yP~~W~~~~~~G~---d~~f~d~-~--~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~  182 (279)
                      -++-.|.+|........   -....++ .  .-.-|+.|++..+.       .+|- |+|+.+.=-.+...         
T Consensus        33 v~lP~P~GW~~~~~~~~~~a~~vi~~~~~~~~~~Pnavv~V~kL~-------G~~D-p~e~l~~a~~d~~~---------   95 (175)
T PF10738_consen   33 VSLPTPPGWEPAPDPNPPWAYAVIVDPQADGGFPPNAVVTVSKLT-------GDFD-PAEALEHAPADAQN---------   95 (175)
T ss_pred             EeccCCcCcccCCCCCCCceEEEEEeccccCCCCCceEEEEEecc-------CCCC-HHHHHHhchhhHhh---------
Confidence            56777899999654321   1222222 1  12357777777665       2333 55544321111111         


Q ss_pred             ccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEE--ECC--EEEEEEeecCcccc
Q 023653          183 RRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGV--ENN--RLYELRLQTPENVF  258 (279)
Q Consensus       183 ~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv--~~g--kLYtl~~qa~e~~W  258 (279)
                      ....+.++.+..+ .+|-+-+.+|-+-+.          .       ...+|....+.|  .++  +|..|++++.+.+=
T Consensus        96 l~g~~~~~~s~~~-~~GfpS~~i~GtY~~----------~-------g~~~~~~~r~VV~~~~~~~Ylvqltvt~~~~qa  157 (175)
T PF10738_consen   96 LPGFRELDGSPSD-FSGFPSSQIEGTYDK----------D-------GMRLHTSQRTVVIPGDDQRYLVQLTVTTTADQA  157 (175)
T ss_pred             CcCcccccCCccc-cCCCceeEEEEEEee----------C-------CEEeEeEEEEEEEeCCCcEEEEEEEeeccccch
Confidence            0112244444434 689899988855443          1       123333333222  244  56667888899999


Q ss_pred             HHhhHHHHHHhcceeee
Q 023653          259 VEEENDLRQVIDSFRVN  275 (279)
Q Consensus       259 ~k~~~~l~~vv~SFrv~  275 (279)
                      ....+..+.|++.|+|.
T Consensus       158 ~~~~~a~~aI~~g~~It  174 (175)
T PF10738_consen  158 VALADATEAIDEGFTIT  174 (175)
T ss_pred             hhhhhHHHHHHcCCEec
Confidence            99999999999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	279
2xb3_A	165	The Structure Of Cyanobacterial Psbp Length = 165		1e-16
2lnj_A	170	Solution Structure Of Cyanobacterial Psbp (Cyanop)		7e-07

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

Iteration: 1
 Score = 83.6 bits (205), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/178 (30%), Positives = 90/178 (50%), Gaps = 21/178 (11%)
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 LGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNN 216
           LG P+E G ++LR  +    S      R S +++ +S+ ADD + YY++E  +       
Sbjct: 65  LGSPEEVGDRLLRNIIAPSES-----GRSSALIAATSQKADD-KTYYILEYAV------- 111
Query: 217 ELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFRV 274
               +P D   N    R  LS + V   ++Y L +  PE  + + E+  + ++ SF V
Sbjct: 112 ---TLPGDG--NTAQQRHNLSSIAVSRGKVYTLSVSAPEERWPKVEDQFKTIVSSFTV 164

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

Iteration: 1
 Score = 50.8 bits (120), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 35/112 (31%), Positives = 57/112 (50%), Gaps = 12/112 (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 EDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVE 206
            DLG   + G + ++              R++ +++  +R  +DG++YY +E
Sbjct: 72  TDLGTATDVGYRFMKTVNDASQGD-----RQAELINAEAR-DEDGQVYYTLE 117

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	279
2xb3_A	165	PSBP protein; photosynthesis, zinc-binding, photos	1e-38
2vu4_A	273	Oxygen-evolving enhancer protein 2; kDa protein, t	2e-37
1v2b_A	177	23-kDa polypeptide of photosystem II oxygen- evolv	6e-35
2lnj_A	170	SLL1418 protein, putative uncharacterized protein	4e-34
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

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

 Score =  132 bits (332), Expect = 1e-38
 Identities = 52/183 (28%), Positives = 94/183 (51%), Gaps = 21/183 (11%)

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

Query: 152 KSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKS 211
           KS+E+LG P+E G ++LR  +    S R      S +++ +S+ AD  + YY++E  +  
Sbjct: 60  KSLEELGSPEEVGDRLLRNIIAPSESGR-----SSALIAATSQKAD-DKTYYILEYAVTL 113

Query: 212 FANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDS 271
             + N                R  LS + V   ++Y L +  PE  + + E+  + ++ S
Sbjct: 114 PGDGNT------------AQQRHNLSSIAVSRGKVYTLSVSAPEERWPKVEDQFKTIVSS 161

Query: 272 FRV 274
           F V
Sbjct: 162 FTV 164

>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 =  123 bits (308), Expect = 6e-35
 Identities = 35/194 (18%), Positives = 66/194 (34%), Gaps = 32/194 (16%)

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  --KSITDFGSPEQFLSQVDYLLGRQAYSGKTDSEGGFESDAVAIANVLETSTAEVG-GKQ 116

Query: 202 YYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENV-FVE 260
           YY + +  ++   N              E  +  L    V + +LY  + Q  +   F  
Sbjct: 117 YYYLSILTRTADGN--------------EGGKHQLVTATVNDGKLYICKAQAGDKRWFKG 162

Query: 261 EENDLRQVIDSFRV 274
            +  +     SF +
Sbjct: 163 AKKFVENTATSFSL 176

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

 Score =  121 bits (303), Expect = 4e-34
 Identities = 46/181 (25%), Positives = 78/181 (43%), Gaps = 28/181 (15%)

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

Query: 214 NNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENVFVEEENDLRQVIDSFR 273
           N                 +R  L+ +     +L    L T E+ +   ++    V  SF 
Sbjct: 125 N----------------VERHDLASVTTNRGKLITFDLSTAEDRWDTVKSLFDTVASSFH 168

Query: 274 V 274
           V
Sbjct: 169 V 169

>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 = 49.9 bits (118), Expect = 4e-07
 Identities = 55/365 (15%), Positives = 96/365 (26%), Gaps = 119/365 (32%)

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 RYKSVEDLGPPKEAGRKVLRQY---LTE-----FMSTRLGVRRES--------NILSTS- 192
           R+K V D           L  +   LT       +   L  R +         N    S 
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 193 --SRVADD-GRLYYLVEVN-------IKSFANN----------NELAVMPKD-----RVV 227
               + D          VN       I+S  N           + L+V P        ++
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392

Query: 228 NLEWD--------------RRYLSVLGVENNRLYEL-RLQTPENVFVEEENDL-RQVIDS 271
           +L W                +Y  V          +  +     V +E E  L R ++D 
Sbjct: 393 SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452

Query: 272 FRVNK 276
           + + K
Sbjct: 453 YNIPK 457

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	279
2xb3_A	165	PSBP protein; photosynthesis, zinc-binding, photos	100.0
1v2b_A	177	23-kDa polypeptide of photosystem II oxygen- evolv	100.0
2lnj_A	170	SLL1418 protein, putative uncharacterized protein	100.0
1tu1_A	148	Hypothetical protein PA0094; structural genomics,	98.32
3lyd_A	161	Uncharacterized protein; PSI-2, MCSG, GEBA, genomi	97.39

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

Probab=100.00  E-value=1.2e-39  Score=277.73  Aligned_cols=160  Identities=32%  Similarity=0.639  Sum_probs=144.3

Q ss_pred             CCCcccceeCCCceEEeccCCceEeccc-ccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhh
Q 023653           96 SVGFREYIDTFDGYSFKYPQNWIQVRGA-GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTE  174 (279)
Q Consensus        96 ~~gf~~y~D~~dgYsf~yP~~W~~~~~~-G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~  174 (279)
                      +.||++|.|+.+||+|+||.+|++++++ |+|++|+|+.+..+||+|+|+|++.  +++|++||+|++|++.|+++.+++
T Consensus         5 ~~g~~~~~D~~~gysf~~P~~W~~~~~~~g~~v~f~d~~~~~~~v~V~v~p~~~--~~~l~~~G~~e~va~~l~~~~~~~   82 (165)
T 2xb3_A            5 TSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDVVFHDIIETTENVSVVVNTVAS--TKSLEELGSPEEVGDRLLRNIIAP   82 (165)
T ss_dssp             -CCEEEEEETTTTEEEEEETTEEEECCCTTEEEEEEESSCTTSEEEEEEEECSS--CCCSGGGCCHHHHHHHHHHHTTSC
T ss_pred             CCCceEEEcCCCCEEEEcCCCCeEecCCCCceEEEECcccCCceEEEEEecCCC--CCChHHcCCHHHHHHHHHHHhhcC
Confidence            5789999999999999999999999997 9999999999989999999999883  789999999999999999988864


Q ss_pred             hhhcccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecC
Q 023653          175 FMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTP  254 (279)
Q Consensus       175 ~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~  254 (279)
                           +++++.++|+++.+++ .||++||+|||++++          |++++  +++.||+|+++++.+||||+|++|+|
T Consensus        83 -----~~~~~~~~l~~a~~r~-~~G~~yY~~Ey~~~~----------~~~~~--~~~~rh~l~~~~v~~g~lY~l~~sap  144 (165)
T 2xb3_A           83 -----SESGRSSALIAATSQK-ADDKTYYILEYAVTL----------PGDGN--TAQQRHNLSSIAVSRGKVYTLSVSAP  144 (165)
T ss_dssp             -----TTSSCEEEEEEEEEEE-ETTEEEEEEEEEEEC----------C-------CCEEEEEEEEEEETTEEEEEEEEEE
T ss_pred             -----CCCCcceEEEEeeeee-cCCceEEEEEEEEec----------CCCcc--CccccEEEEEEEEECCEEEEEEEecC
Confidence                 2667899999999997 799999999999988          54222  45899999999999999999999999


Q ss_pred             ccccHHhhHHHHHHhcceeee
Q 023653          255 ENVFVEEENDLRQVIDSFRVN  275 (279)
Q Consensus       255 e~~W~k~~~~l~~vv~SFrv~  275 (279)
                      |++|+++++.|++|++||+|+
T Consensus       145 e~~w~~~~~~l~~v~~SF~v~  165 (165)
T 2xb3_A          145 EERWPKVEDQFKTIVSSFTVY  165 (165)
T ss_dssp             GGGHHHHHHHHHHHHHTCEEC
T ss_pred             HHHhHHHHHHHHHHHhhEEeC
Confidence            999999999999999999985

>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=100.00  E-value=5e-40  Score=284.28  Aligned_cols=161  Identities=21%  Similarity=0.352  Sum_probs=129.8

Q ss_pred             cCCCcccceeCCCceEEeccCCceEec---ccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHH----HHHHH
Q 023653           95 QSVGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKE----AGRKV  167 (279)
Q Consensus        95 ~~~gf~~y~D~~dgYsf~yP~~W~~~~---~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspee----va~~l  167 (279)
                      ++.||++|.  .|||+|+||.+|++++   .+|+|++|+|+.+..+||+|+|+|++   .++|+|||+|++    |++.|
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            467999998  9999999999999755   45999999999999999999999986   589999999999    56677


Q ss_pred             HHHHhhhh-hhc---ccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEEC
Q 023653          168 LRQYLTEF-MST---RLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVEN  243 (279)
Q Consensus       168 l~~~~~~~-~st---~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~  243 (279)
                      +++++.+. ++.   .+++.++++||++++++ .||++||+|||.+++          |++    +|+.||+|++++|++
T Consensus        80 ~~~~~~~~~~~~~gf~~~~~~~a~ll~a~~r~-~~G~~YY~~E~~~~~----------~~g----~e~~rH~l~~~tv~~  144 (177)
T 1v2b_A           80 GRQAYSGKTDSEGGFESDAVAIANVLETSTAE-VGGKQYYYLSILTRT----------ADG----NEGGKHQLVTATVND  144 (177)
T ss_dssp             ------------------CCCEEEEEEEEEEE-ETTEEEEEEEEEEEC-------------------CCEEEEEEEEEET
T ss_pred             HHHhhcccccccCCcccCcccceEEEEeEEEE-eCCeEEEEEEEEEec----------CCC----CccccEEEEEEEEEC
Confidence            77777641 000   12345889999999999 699999999999998          654    578999999999999


Q ss_pred             CEEEEEEeecCccccHHh-hHHHHHHhcceeee
Q 023653          244 NRLYELRLQTPENVFVEE-ENDLRQVIDSFRVN  275 (279)
Q Consensus       244 gkLYtl~~qa~e~~W~k~-~~~l~~vv~SFrv~  275 (279)
                      ||||+|++|++|+||++. ++.|++|++||+|.
T Consensus       145 gkLY~l~~~a~e~~W~k~~~~~l~~v~~SF~v~  177 (177)
T 1v2b_A          145 GKLYICKAQAGDKRWFKGAKKFVENTATSFSLA  177 (177)
T ss_dssp             TEEEEEEEEEEGGGCSTTTTHHHHHHHHTCEEC
T ss_pred             CEEEEEEEecCHHHhhhhHHHHHHHHHhheecC
Confidence            999999999999999995 99999999999983

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

Probab=100.00  E-value=5.9e-40  Score=281.57  Aligned_cols=158  Identities=28%  Similarity=0.489  Sum_probs=145.8

Q ss_pred             ccCCCcccceeCCCceEEeccCCceEeccc----ccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHH
Q 023653           94 QQSVGFREYIDTFDGYSFKYPQNWIQVRGA----GADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLR  169 (279)
Q Consensus        94 ~~~~gf~~y~D~~dgYsf~yP~~W~~~~~~----G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~  169 (279)
                      ..+.||++|.|+.|||+|+||++|++++++    |+|++|+|+.+..+||+|+|+|++.  .++|+|||+|++|+++|++
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            346789999999999999999999998877    9999999999999999999999973  5899999999999999999


Q ss_pred             HHhhhhhhcccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEE
Q 023653          170 QYLTEFMSTRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYEL  249 (279)
Q Consensus       170 ~~~~~~~st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl  249 (279)
                      +++++     .++++.++||++.+++ .||++||+|||++++          |+      ++.||+|+++++++|+||+|
T Consensus        87 ~~~~~-----~~~~~~a~li~a~~~~-~~G~~yY~~Ey~~~~----------~~------~~~rh~l~~~~v~~gklY~l  144 (170)
T 2lnj_A           87 TVNDA-----SQGDRQAELINAEARD-EDGQVYYTLEYRVLV----------GD------NVERHDLASVTTNRGKLITF  144 (170)
Confidence            98875     2678899999999997 899999999999987          43      47999999999999999999


Q ss_pred             EeecCccccHHhhHHHHHHhcceeee
Q 023653          250 RLQTPENVFVEEENDLRQVIDSFRVN  275 (279)
Q Consensus       250 ~~qa~e~~W~k~~~~l~~vv~SFrv~  275 (279)
                      ++|+||++|++.++.|++|++||+|+
T Consensus       145 ~~~ape~~w~~~~~~l~~v~~SF~v~  170 (170)
T 2lnj_A          145 DLSTAEDRWDTVKSLFDTVASSFHVY  170 (170)
Confidence            99999999999999999999999985

>1tu1_A Hypothetical protein PA0094; structural genomics, PSI, PROT structure initiative, midwest center for structural genomic unknown function; 1.95A {Pseudomonas aeruginosa} SCOP: d.107.1.3

Probab=98.32  E-value=3e-05  Score=64.13  Aligned_cols=139  Identities=11%  Similarity=0.070  Sum_probs=91.7

Q ss_pred             cccceeCCCceEEeccCCceEecccccceEEeCCCCCC--ccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhh
Q 023653           99 FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVLD--ENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFM  176 (279)
Q Consensus        99 f~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~~--~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~  176 (279)
                      |..|.  .+.++|.+|.+|....   .-+.+.......  -|+.|...++.+  .      .+.++..++-+++.-..  
T Consensus         3 m~~y~--~~Egsl~lP~gw~D~t---~nv~~~~~~~~~g~~~lvIsR~~~~~--~------~~l~~~~~~q~~~l~~~--   67 (148)
T 1tu1_A            3 MTLYR--LHEADLEIPDAWQDQS---INIFKLPASGPAREASFVISRDASQG--D------APFADYVARQLENAEKQ--   67 (148)
T ss_dssp             EEEEE--CSSEEEEEETTSEECC---BEEEEECCBTTBCCEEEEEEEECCCT--T------SCHHHHHHHHHHHHHHH--
T ss_pred             CceEE--ECCEEEeCCCCcEeee---EEEEEcCCCCCCCceEEEEEeccCCC--C------CCHHHHHHHHHHHHHhh--
Confidence            55665  7889999999999533   223332221111  455555555442  1      24444444443333221  


Q ss_pred             hcccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCcc
Q 023653          177 STRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPEN  256 (279)
Q Consensus       177 st~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~  256 (279)
                            ...-.++.....+ .+|.+--.+||.-..                 .+..+|.+-++.+..+++|.++.+++..
T Consensus        68 ------l~~y~~~~~~~~~-l~g~~a~~~e~~~~~-----------------~g~~~~Q~q~~~~~~~~~l~~t~t~~~~  123 (148)
T 1tu1_A           68 ------LPGFKLHKRWDIN-IHGHAAVLLDYQWQR-----------------EGRDLMLRQVFIERRPAVLITTLTTTPA  123 (148)
T ss_dssp             ------STTCEEEEEEEEE-ETTEEEEEEEEEEEE-----------------TTEEEEEEEEEECCSSSEEEEEEEECGG
T ss_pred             ------CcCcEEeeeEeEE-EcCCcEEEEEEEEcc-----------------CCEEEEEEEEEEEECCeEEEEEEEcCCC
Confidence                  1123344433333 478888888888875                 2467999999999877999999999999


Q ss_pred             ccHHhhHHHHHHhcceeeee
Q 023653          257 VFVEEENDLRQVIDSFRVNK  276 (279)
Q Consensus       257 ~W~k~~~~l~~vv~SFrv~~  276 (279)
                      .|+..++.++.|++||+.-.
T Consensus       124 ~~~~~~~~~~~i~~Sf~~~~  143 (148)
T 1tu1_A          124 DLPHHEPAWKQAMQTLVPRP  143 (148)
T ss_dssp             GHHHHHHHHHHHHHTCEECC
T ss_pred             CCHHHHHHHHHHHHhcccCC
Confidence            99999999999999999753

>3lyd_A Uncharacterized protein; PSI-2, MCSG, GEBA, genomic encyclopae bacteria and archaea, structural genomics, protein structur initiative; HET: MSE; 1.45A {Jonesia denitrificans}

Probab=97.39  E-value=0.007  Score=50.98  Aligned_cols=133  Identities=13%  Similarity=0.100  Sum_probs=86.0

Q ss_pred             ceEEeccCCceEecccccceEEeCCC-C--CCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhhcccCCcc
Q 023653          108 GYSFKYPQNWIQVRGAGADIFYRDPY-V--LDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMSTRLGVRR  184 (279)
Q Consensus       108 gYsf~yP~~W~~~~~~G~d~~f~d~~-~--~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~st~~g~~~  184 (279)
                      ++++-.|.+|......|.-+...+.. .  -.-|+-|++.-...       |+  .|+ +..=+.++.+.        -.
T Consensus        19 ~~~v~~P~gWe~~~~~~~~~~~~~~~~~~~F~pN~vVtv~r~~~-------~~--~e~-~r~el~~~~~~--------lp   80 (161)
T 3lyd_A           19 GFTVPIPETWQPDPTMGTQFAARPHTPPQGFTPNIIGTVRRAAT-------GA--LHN-QRTELDQRATQ--------LP   80 (161)
T ss_dssp             EEEEECCTTEEECTTSSSSEEEEESSCCSSSCCEEEEEEEEECT-------TH--HHH-HHHHHHHHHTT--------ST
T ss_pred             eeeccCCCCceEcCCCCceEEeccCCCCCCccccEEEEEEecCc-------HH--HHH-HHHHHHHHHhh--------CC
Confidence            48999999999987666544333222 1  33588888776552       22  232 23333444331        11


Q ss_pred             ccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceE---EEEEEEEECCEEEEE--EeecCccccH
Q 023653          185 ESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRR---YLSVLGVENNRLYEL--RLQTPENVFV  259 (279)
Q Consensus       185 ~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH---~l~~~tv~~gkLYtl--~~qa~e~~W~  259 (279)
                      .-++++-...+ .+|.+-|..||.-..          |       +.+.+   ...++...++..|.+  ++++.+.+-+
T Consensus        81 ~~~~~~r~~~~-~~G~pa~~iey~y~~----------~-------~~g~~aq~~~~vvve~~~v~~vv~lt~T~~~~q~~  142 (161)
T 3lyd_A           81 DYAERGRTETT-VDGFPAYHIEYAYRH----------H-------GTITIAQMITLVEVSHPHAVDIIQLTATCAGDQTA  142 (161)
T ss_dssp             TCEEEEEEEEE-ETTEEEEEEEEEEEE----------T-------TTEEEEEEEEEEEEECSSCEEEEEEEEEEEGGGHH
T ss_pred             CcEeecccccc-cCCcccEEEEEEEec----------C-------CCceEeeEEEEEEEecCCEEEEEEEEEEeccccch
Confidence            23344433334 799999999999654          3       23445   234444456777777  9999999999


Q ss_pred             HhhHHHHHHhcceeeee
Q 023653          260 EEENDLRQVIDSFRVNK  276 (279)
Q Consensus       260 k~~~~l~~vv~SFrv~~  276 (279)
                      ...+.++.|++||++..
T Consensus       143 ~~~~d~q~iv~sl~v~p  159 (161)
T 3lyd_A          143 DYWDTFRLMHADLTVQP  159 (161)
T ss_dssp             HHHHHHHHHHHTCEEET
T ss_pred             HHHHHHHHHhheeEecc
Confidence            99999999999999974

---

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	279
d1v2ba_	171	d.107.1.2 (A:) Oxygen-evolving enhancer protein Ps	3e-34

>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 =  119 bits (300), Expect = 3e-34
 Identities = 35/189 (18%), Positives = 65/189 (34%), Gaps = 32/189 (16%)

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 VNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPEN-VFVEEENDL 265
           +  ++   N              E  +  L    V + +LY  + Q  +   F   +  +
Sbjct: 116 ILTRTADGN--------------EGGKHQLVTATVNDGKLYICKAQAGDKRWFKGAKKFV 161

Query: 266 RQVIDSFRV 274
                SF +
Sbjct: 162 ENTATSFSL 170

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	279
d1v2ba_	171	Oxygen-evolving enhancer protein PsbP {Common toba	100.0
d1tu1a_	144	Hypothetical protein PA0094 {Pseudomonas aeruginos	98.69

>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=100.00  E-value=1.1e-38  Score=271.62  Aligned_cols=158  Identities=20%  Similarity=0.349  Sum_probs=128.8

Q ss_pred             CCcccceeCCCceEEeccCCceEec---ccccceEEeCCCCCCccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHH--
Q 023653           97 VGFREYIDTFDGYSFKYPQNWIQVR---GAGADIFYRDPYVLDENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQY--  171 (279)
Q Consensus        97 ~gf~~y~D~~dgYsf~yP~~W~~~~---~~G~d~~f~d~~~~~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~--  171 (279)
                      .+|++|.|  |||+|+||++|+++.   ..|+|++|+|+.+..+||+|+|+|+.   +++|++||+|+++++.++..+  
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            36899986  899999999999765   34899999999999999999999875   789999999999887764433  


Q ss_pred             --hhhhhh----cccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCE
Q 023653          172 --LTEFMS----TRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNR  245 (279)
Q Consensus       172 --~~~~~s----t~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gk  245 (279)
                        +...+.    ++.+..+.++|+++++++ .||++||+|||.+++          |++    .+++||+|++++|.+||
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~a~v~~a~~~~-~~G~~YY~~Ey~~~~----------~~~----~~~~rh~l~~~~v~~gr  140 (171)
T d1v2ba_          76 QAYSGKTDSEGGFESDAVAIANVLETSTAE-VGGKQYYYLSILTRT----------ADG----NEGGKHQLVTATVNDGK  140 (171)
T ss_dssp             ----------------CCCEEEEEEEEEEE-ETTEEEEEEEEEEEC-------------------CCEEEEEEEEEETTE
T ss_pred             hhhcccccccccccccccceeEEEEeeeee-cCCEEEEEEEEEEec----------CCC----CCcccEEEEEEEEeCCE
Confidence              322111    123556789999999998 799999999999988          554    47899999999999999


Q ss_pred             EEEEEeecCccccHHh-hHHHHHHhcceee
Q 023653          246 LYELRLQTPENVFVEE-ENDLRQVIDSFRV  274 (279)
Q Consensus       246 LYtl~~qa~e~~W~k~-~~~l~~vv~SFrv  274 (279)
                      ||||++|+||++|++. ++.|++|++||+|
T Consensus       141 LYtl~~~~pe~~w~~~~~~~l~~~v~SF~v  170 (171)
T d1v2ba_         141 LYICKAQAGDKRWFKGAKKFVENTATSFSL  170 (171)
T ss_dssp             EEEEEEEEEGGGCSTTTTHHHHHHHHTCEE
T ss_pred             EEEEEEecCHHHhhhhhHHHHHHHHhceEe
Confidence            9999999999999985 5679999999998

>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=98.69  E-value=4.7e-07  Score=72.47  Aligned_cols=140  Identities=9%  Similarity=0.028  Sum_probs=97.3

Q ss_pred             cccceeCCCceEEeccCCceEecccccceEEeCCCCC-CccEEEEEeCCCCCCCCccccCCChHHHHHHHHHHHhhhhhh
Q 023653           99 FREYIDTFDGYSFKYPQNWIQVRGAGADIFYRDPYVL-DENVSVELSSPSSSRYKSVEDLGPPKEAGRKVLRQYLTEFMS  177 (279)
Q Consensus        99 f~~y~D~~dgYsf~yP~~W~~~~~~G~d~~f~d~~~~-~~nVsV~i~p~~~~~~~si~dlGspeeva~~ll~~~~~~~~s  177 (279)
                      +..|.  .+.=+|.+|.+|.....  +.+.+.+.... ..|+.|...++.        +=.++++..++.+.++-..   
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            44554  34458999999986433  22233343222 235655555544        2336667677665554431   


Q ss_pred             cccCCccccceeecceeeeCCCceEEEEEEEeeccccccccccCCccccccCCcceEEEEEEEEECCEEEEEEeecCccc
Q 023653          178 TRLGVRRESNILSTSSRVADDGRLYYLVEVNIKSFANNNELAVMPKDRVVNLEWDRRYLSVLGVENNRLYELRLQTPENV  257 (279)
Q Consensus       178 t~~g~~~~a~ll~a~~r~~~dG~~YY~~Ey~~~~~~~~~~~~~~p~~~~~~~~~~rH~l~~~tv~~gkLYtl~~qa~e~~  257 (279)
                           ...-++++....+ .+|.+-+.+||.-..                 .+...|+..++.+.++++|+|+++++...
T Consensus        68 -----l~~~~~~~~~~~~-l~g~pa~~~~~t~~~-----------------~~~~v~Q~q~~~~~~~~~~~lt~t~~~~~  124 (144)
T d1tu1a_          68 -----LPGFKLHKRWDIN-IHGHAAVLLDYQWQR-----------------EGRDLMLRQVFIERRPAVLITTLTTTPAD  124 (144)
T ss_dssp             -----STTCEEEEEEEEE-ETTEEEEEEEEEEEE-----------------TTEEEEEEEEEECCSSSEEEEEEEECGGG
T ss_pred             -----CCCcEEEeeEecc-cCCCcEEEEEEEEee-----------------CCEeEEEEEEEEEeCCCEEEEEEecCCcC
Confidence                 1235566654444 789999999999976                 24678999999999999999999999999


Q ss_pred             cHHhhHHHHHHhcceeeee
Q 023653          258 FVEEENDLRQVIDSFRVNK  276 (279)
Q Consensus       258 W~k~~~~l~~vv~SFrv~~  276 (279)
                      |+...+.++.+++||+..+
T Consensus       125 ~~~~~~~~~~il~Sf~p~p  143 (144)
T d1tu1a_         125 LPHHEPAWKQAMQTLVPRP  143 (144)
T ss_dssp             HHHHHHHHHHHHHTCEECC
T ss_pred             CHHHHHHHHHHHHhCccCC
Confidence            9999999999999998754