Citrus Sinensis ID: 026691

---

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-----
Protein Sequence
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHcccccccHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHcccccccccccccHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEcccccccccccEEEEEccHHHHHHHHHcccccccccEEHHHccccccccccHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccHHHHHHHHHHHHccccccHHccHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWkadklhsrthvvlppveaassrrhviSCSSTALVAILTFncglaplpvqaedmsngqdekeEGVVGAIKslfdpnektksgkvlpKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWrgqktvageeSYVELEKAIRSLASFYskagpsaplpgevkSEILNDLDTAEKFL
Flexible Loop (DISEMBL)
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLppveaassrrHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKslfdpnektksgkvlpkaylKSARELVKTLreslkedpkdianfrrnadsakeSIRDylsnwrgqktvageesYVELEKAIRSLASFYSKAgpsaplpgevkseILNDLDTAEKFL
Low Complexity Region (SEG)
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Disordered region (IsUnstruct)
***DCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPV******************************************************************************YLSNWRGQKTVAGEESYVELEKAIRSLASF*****************************
Disordered Region (DISOPRED)
**EDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADK*******************HVISCSSTALVAILTFNCGLAPL****************GVVGAIKSLFD**********LPKAYLKSARELVKTLRESL********************IRDYL****************ELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Disordered Region (DISEMBL)
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAE***********GVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Disordered Region (DISPRO)
**EDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLP***AASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMS*******EGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Transmembrane Helix (TMHMM)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MREDCYFFNLVHLLFFQNYIIAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDxxxxxxxxxxxxxxxxxxxxxWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	235	2.2.26 [Sep-21-2011]
P74367	134	Photosystem II 11 kDa pro	N/A	no	0.434	0.761	0.298	3e-07
Q9LR64	174	Thylakoid lumenal protein	no	no	0.4	0.540	0.277	7e-06

>sp|P74367|PS11_SYNY3 Photosystem II 11 kDa protein OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=slr1645 PE=1 SV=2

 Score = 55.5 bits (132), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 31/104 (29%), Positives = 58/104 (55%), Gaps = 2/104 (1%)

Query: 130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
           SG  L   Y +    ++ TLRE++ + P+D  N +   D+A+  I DY+S +R +    G
Sbjct: 27  SGTGLTGNYSQDTLTVIATLREAI-DLPQDAPNRQEVQDTARGQINDYISRYRRKGDAGG 85

Query: 190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEK 233
            +S+  ++ A+ SLA +Y+  G + P+P ++K  +  +   AE+
Sbjct: 86  LKSFTTMQTALNSLAGYYTSYG-ARPIPEKLKKRLQLEFTQAER 128

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|Q9LR64|Y1360_ARATH Thylakoid lumenal protein At1g03610, chloroplastic OS=Arabidopsis thaliana GN=At1g03600 PE=1 SV=1

 Score = 51.2 bits (121), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 28/101 (27%), Positives = 56/101 (55%), Gaps = 7/101 (6%)

Query: 138 YLKSARELVKTLRESL---KEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYV 194
           Y+K    ++  +R +L   K DP    N        +E+   +++ +R +K + G+ S+ 
Sbjct: 74  YIKDTSAVISKVRSTLSMQKTDP----NVADAVAELREASNSWVAKYRKEKALLGKASFR 129

Query: 195 ELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           ++  A+ +++  Y   GP+AP+P + K+ IL +++TAEK L
Sbjct: 130 DIYSALNAVSGHYVSFGPTAPIPAKRKARILEEMETAEKAL 170

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	235
225432660	209	PREDICTED: uncharacterized protein LOC10	0.774	0.870	0.774	3e-73
147790522	230	hypothetical protein VITISV_022066 [Viti	0.774	0.791	0.694	2e-69
359477522	235	PREDICTED: uncharacterized protein LOC10	0.774	0.774	0.677	3e-69
255552187	204	conserved hypothetical protein [Ricinus	0.863	0.995	0.625	5e-65
224102063	204	predicted protein [Populus trichocarpa]	0.748	0.862	0.686	1e-61
388498828	208	unknown [Lotus japonicus]	0.765	0.865	0.673	4e-61
356526109	207	PREDICTED: uncharacterized protein LOC10	0.765	0.869	0.666	4e-61
449444118	206	PREDICTED: uncharacterized protein LOC10	0.876	1.0	0.6	4e-58
18390518	199	LOW PSII accumulation 19 protein [Arabid	0.668	0.788	0.674	7e-54
26451618	199	unknown protein [Arabidopsis thaliana]	0.668	0.788	0.668	1e-53

>gi|225432660|ref|XP_002282406.1| PREDICTED: uncharacterized protein LOC100259756 isoform 1 [Vitis vinifera] gi|297737050|emb|CBI26251.3| unnamed protein product [Vitis vinifera]

 Score =  280 bits (717), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 141/182 (77%), Positives = 157/182 (86%)

Query: 54  KLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEG 113
           KL SR H+VLP  E+ SSRRHV+  S  +LVAILTFN G  PLPV AED SNGQ++ E+G
Sbjct: 28  KLKSRCHIVLPSQESPSSRRHVLVGSGASLVAILTFNGGFLPLPVWAEDESNGQEDDEKG 87

Query: 114 VVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKES 173
           VVGAIKSLFDPNEK KSGKVLPKAYL SARE+VKTLRESLKEDPKDIA FRR AD+AKES
Sbjct: 88  VVGAIKSLFDPNEKIKSGKVLPKAYLNSAREVVKTLRESLKEDPKDIAKFRRTADAAKES 147

Query: 174 IRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEK 233
           IR+YLS+WRG++TV  EESY  LEKAIRSLASFYSKAGPSA LP EVKSEIL+DL+TAE+
Sbjct: 148 IREYLSSWRGKQTVVSEESYAMLEKAIRSLASFYSKAGPSAALPEEVKSEILDDLNTAEE 207

Query: 234 FL 235
           FL
Sbjct: 208 FL 209

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147790522|emb|CAN69770.1| hypothetical protein VITISV_022066 [Vitis vinifera]

 Score =  268 bits (684), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 141/203 (69%), Positives = 157/203 (77%), Gaps = 21/203 (10%)

Query: 54  KLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEG 113
           KL SR H+VLP  E+ SSRRHV+  S  +LVAILTFN G  PLPV AED SNGQ++ E+G
Sbjct: 28  KLKSRCHIVLPSQESPSSRRHVLVGSGASLVAILTFNGGFLPLPVWAEDESNGQEDDEKG 87

Query: 114 VVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKES 173
           VVGAIKSLFDPNEK KSGKVLPKAYL SARE+VKTLRESLKEDPKDIA FRR AD+AKES
Sbjct: 88  VVGAIKSLFDPNEKIKSGKVLPKAYLNSAREVVKTLRESLKEDPKDIAKFRRTADAAKES 147

Query: 174 IRDYLSNWRGQKTVAGE---------------------ESYVELEKAIRSLASFYSKAGP 212
           IR+YLS+WRG++TV  E                     ESY  LEKAIRSLASFYSKAGP
Sbjct: 148 IREYLSSWRGKQTVVSEVCILQKHFWFLRWIPVVTVXHESYAMLEKAIRSLASFYSKAGP 207

Query: 213 SAPLPGEVKSEILNDLDTAEKFL 235
           SA LP EVKSEIL+DL+TAE+FL
Sbjct: 208 SAALPEEVKSEILDDLNTAEEFL 230

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359477522|ref|XP_003631991.1| PREDICTED: uncharacterized protein LOC100259756 isoform 2 [Vitis vinifera]

 Score =  267 bits (682), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 141/208 (67%), Positives = 157/208 (75%), Gaps = 26/208 (12%)

Query: 54  KLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEG 113
           KL SR H+VLP  E+ SSRRHV+  S  +LVAILTFN G  PLPV AED SNGQ++ E+G
Sbjct: 28  KLKSRCHIVLPSQESPSSRRHVLVGSGASLVAILTFNGGFLPLPVWAEDESNGQEDDEKG 87

Query: 114 VVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKES 173
           VVGAIKSLFDPNEK KSGKVLPKAYL SARE+VKTLRESLKEDPKDIA FRR AD+AKES
Sbjct: 88  VVGAIKSLFDPNEKIKSGKVLPKAYLNSAREVVKTLRESLKEDPKDIAKFRRTADAAKES 147

Query: 174 IRDYLSNWRGQKTV--------------------------AGEESYVELEKAIRSLASFY 207
           IR+YLS+WRG++TV                            EESY  LEKAIRSLASFY
Sbjct: 148 IREYLSSWRGKQTVVSEYKGSLQLSSTAYHTRTEHFAERLGNEESYAMLEKAIRSLASFY 207

Query: 208 SKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           SKAGPSA LP EVKSEIL+DL+TAE+FL
Sbjct: 208 SKAGPSAALPEEVKSEILDDLNTAEEFL 235

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255552187|ref|XP_002517138.1| conserved hypothetical protein [Ricinus communis] gi|223543773|gb|EEF45301.1| conserved hypothetical protein [Ricinus communis]

 Score =  253 bits (646), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 135/216 (62%), Positives = 160/216 (74%), Gaps = 13/216 (6%)

Query: 21  IAFFVSASLCTSFLMLSFI-NLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCS 79
           +A  ++  LC S    + I N  C      W+ D + S   V L       SRRH++ CS
Sbjct: 1   MAVILALKLCPSVTCKTSIPNNNCKLQ---WRCDTVPSSPAVTL-------SRRHILLCS 50

Query: 80  STALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYL 139
           ++ L  IL  NC   PLPV+AED SN Q+EK +GV+G IKSLFDPNEKTKSGK+LPKAYL
Sbjct: 51  ASFLT-ILNLNCISTPLPVRAEDESNAQEEK-DGVIGTIKSLFDPNEKTKSGKLLPKAYL 108

Query: 140 KSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKA 199
           KSAR++VKTLR+SLKEDPKD+  FRR AD+AKESIR+YL +WRGQ+ V  EESY+ELEKA
Sbjct: 109 KSARDVVKTLRDSLKEDPKDVTQFRRTADAAKESIREYLGSWRGQEKVVREESYIELEKA 168

Query: 200 IRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           IRSLASFYSKAGPSAPLP EVKSEILNDL  AE+FL
Sbjct: 169 IRSLASFYSKAGPSAPLPEEVKSEILNDLSAAEEFL 204

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224102063|ref|XP_002312530.1| predicted protein [Populus trichocarpa] gi|118485936|gb|ABK94813.1| unknown [Populus trichocarpa] gi|222852350|gb|EEE89897.1| predicted protein [Populus trichocarpa]

 Score =  241 bits (616), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 125/182 (68%), Positives = 148/182 (81%), Gaps = 6/182 (3%)

Query: 54  KLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEG 113
           KL+SR + VL    A  SRRHV+  S++  V +LT NC L PL  +A+     ++EK++G
Sbjct: 29  KLNSRCNAVLSSQAALPSRRHVLVFSAS-FVTVLTLNCFLTPLQARAK-----EEEKDDG 82

Query: 114 VVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKES 173
           V GAIKSLFDPNEKTKSGK+LPKAYLK+ARE+VK LRESLKED KDIA FRR AD+AKES
Sbjct: 83  VAGAIKSLFDPNEKTKSGKLLPKAYLKAAREVVKNLRESLKEDTKDIAKFRRTADAAKES 142

Query: 174 IRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEK 233
           IR+YL +WRGQ+ V  EESYVELEKAIRSLASFYS+AGPSA LP EV+SEILNDL+TAE+
Sbjct: 143 IREYLGSWRGQEKVVREESYVELEKAIRSLASFYSRAGPSAQLPEEVRSEILNDLNTAEE 202

Query: 234 FL 235
           FL
Sbjct: 203 FL 204

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388498828|gb|AFK37480.1| unknown [Lotus japonicus]

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 124/184 (67%), Positives = 148/184 (80%), Gaps = 4/184 (2%)

Query: 53  DKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCG-LAPLPVQAEDMSNGQDEKE 111
           DKL  R+++ LPP+EA+SSRRH++    T+LV   T  CG L+PL   AE+ S  +++ +
Sbjct: 28  DKLQFRSNIALPPLEASSSRRHLLLSVGTSLV---TMTCGGLSPLMASAEENSADKEDDD 84

Query: 112 EGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAK 171
           +GVVGAIKSLFDPNEK+KSGKVLPKAYLKSARE+VKTLRESL E P D A FRR AD+AK
Sbjct: 85  KGVVGAIKSLFDPNEKSKSGKVLPKAYLKSAREVVKTLRESLNEVPDDNAKFRRTADAAK 144

Query: 172 ESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTA 231
           ESIRDYL  WRG + VA EESY  LEKAIRSLA FYS+AGPSAPLP EVK+EIL+ L+TA
Sbjct: 145 ESIRDYLGGWRGNQDVAQEESYDMLEKAIRSLAKFYSRAGPSAPLPEEVKTEILDYLNTA 204

Query: 232 EKFL 235
           E+FL
Sbjct: 205 EEFL 208

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526109|ref|XP_003531662.1| PREDICTED: uncharacterized protein LOC100805317 [Glycine max]

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 122/183 (66%), Positives = 148/183 (80%), Gaps = 3/183 (1%)

Query: 53  DKLHSRTHVVLPPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEE 112
           DK+ SR+++ LPP EA+SSRRH++     +L   LT  CGL+P  V AE+ S  ++E+++
Sbjct: 28  DKMQSRSNIALPPSEASSSRRHLLIGVGPSL---LTLTCGLSPPTVWAEEKSGDKEEEDK 84

Query: 113 GVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKE 172
           GV+GAIKSLFDPNEKTKSGKVLPKAYL+SARE+VKTLRESL E   D A FRR ADSAKE
Sbjct: 85  GVIGAIKSLFDPNEKTKSGKVLPKAYLRSAREVVKTLRESLNEGTDDNAKFRRTADSAKE 144

Query: 173 SIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAE 232
           SIR+YL +WRG + VA EESYV LEK IRSLA++YSKAGPSAPL  EVKSEIL+ L+TAE
Sbjct: 145 SIREYLGSWRGNQIVAQEESYVILEKVIRSLANYYSKAGPSAPLSHEVKSEILDYLNTAE 204

Query: 233 KFL 235
           +FL
Sbjct: 205 EFL 207

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449444118|ref|XP_004139822.1| PREDICTED: uncharacterized protein LOC101211891 [Cucumis sativus] gi|449492573|ref|XP_004159036.1| PREDICTED: uncharacterized LOC101211891 [Cucumis sativus]

 Score =  230 bits (586), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 129/215 (60%), Positives = 157/215 (73%), Gaps = 9/215 (4%)

Query: 21  IAFFVSASLCTSFLMLSFINLFCFFTASLWKADKLHSRTHVVLPPVEAASSRRHVISCSS 80
           +A F+ A +C + +     +L   +        KL SR+ VVLP  E    RRH++  + 
Sbjct: 1   MAAFIHAKICPTTISTLDRSLISEY------GRKLPSRSRVVLPYQEVC--RRHLV-WNG 51

Query: 81  TALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLK 140
            +LV  LTFN GL P   QAE+M N  +E++ GV+G IKS+FDPNEKTKSGK+LPKAYLK
Sbjct: 52  MSLVVFLTFNNGLTPSSAQAEEMPNNMEEEDNGVIGTIKSIFDPNEKTKSGKILPKAYLK 111

Query: 141 SARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAI 200
           SARE+VKTLRESL+EDPKD A FRR AD+AKESIRDYLSNW G++TV  EESYV LEKAI
Sbjct: 112 SAREVVKTLRESLQEDPKDGAKFRRTADAAKESIRDYLSNWLGKQTVVQEESYVVLEKAI 171

Query: 201 RSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           RSLA FY+KAGPSAPLP  VKS+IL+DLD  E+ L
Sbjct: 172 RSLAGFYAKAGPSAPLPEAVKSDILDDLDKVEESL 206

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18390518|ref|NP_563737.1| LOW PSII accumulation 19 protein [Arabidopsis thaliana] gi|8778732|gb|AAF79740.1|AC005106_21 T25N20.4 [Arabidopsis thaliana] gi|13877959|gb|AAK44057.1|AF370242_1 unknown protein [Arabidopsis thaliana] gi|23296694|gb|AAN13149.1| unknown protein [Arabidopsis thaliana] gi|332189712|gb|AEE27833.1| LOW PSII accumulation 19 protein [Arabidopsis thaliana]

 Score =  216 bits (549), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 112/166 (67%), Positives = 133/166 (80%), Gaps = 9/166 (5%)

Query: 72  RRHVISC--SSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTK 129
           RR  + C   +++ +A + F+       +QA+      DE E GVVGA K+LFDPNE+TK
Sbjct: 41  RRGFLKCVVGASSFMATIEFSG------LQAQASEEKLDEGE-GVVGAFKTLFDPNERTK 93

Query: 130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
           SGK LPKAYLKSARE+VKT+RESLKE+PKD A FRR+AD+AKESIRDYLSNWRGQKTVAG
Sbjct: 94  SGKELPKAYLKSAREVVKTMRESLKENPKDNAKFRRSADAAKESIRDYLSNWRGQKTVAG 153

Query: 190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           EESYVELE  IR+LA FYSKAGPSAPLP EVK+EIL+DL+ AE+FL
Sbjct: 154 EESYVELENVIRALAKFYSKAGPSAPLPDEVKTEILDDLNKAEEFL 199

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|26451618|dbj|BAC42906.1| unknown protein [Arabidopsis thaliana]

 Score =  215 bits (547), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 111/166 (66%), Positives = 133/166 (80%), Gaps = 9/166 (5%)

Query: 72  RRHVISC--SSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTK 129
           RR  + C   +++ +A + F+       +QA+      DE E GVVGA K+LFDPNE+TK
Sbjct: 41  RRGFLKCVVGASSFMATIEFSG------LQAQASEEKLDEGE-GVVGAFKTLFDPNERTK 93

Query: 130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
           SGK LPKAYLKSARE+VKT+RESLKE+P+D A FRR+AD+AKESIRDYLSNWRGQKTVAG
Sbjct: 94  SGKELPKAYLKSAREVVKTMRESLKENPRDNAKFRRSADAAKESIRDYLSNWRGQKTVAG 153

Query: 190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           EESYVELE  IR+LA FYSKAGPSAPLP EVK+EIL+DL+ AE+FL
Sbjct: 154 EESYVELENVIRALAKFYSKAGPSAPLPDEVKTEILDDLNKAEEFL 199

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	235
TAIR|locus:505006101	199	LPA19 "AT1G05385" [Arabidopsis	0.668	0.788	0.686	1.2e-51
UNIPROTKB|P74367	134	slr1645 "Photosystem II 11 kDa	0.434	0.761	0.298	3.3e-09
TAIR|locus:2020788	174	PSB27 "AT1G03600" [Arabidopsis	0.412	0.557	0.265	9.6e-09

TAIR|locus:505006101 LPA19 "AT1G05385" [Arabidopsis thaliana (taxid:3702)]

 Score = 536 (193.7 bits), Expect = 1.2e-51, P = 1.2e-51
 Identities = 114/166 (68%), Positives = 134/166 (80%)

Query:    72 RRHVISC--SSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTK 129
             RR  + C   +++ +A + F+ GL     QA+      DE E GVVGA K+LFDPNE+TK
Sbjct:    41 RRGFLKCVVGASSFMATIEFS-GL-----QAQASEEKLDEGE-GVVGAFKTLFDPNERTK 93

Query:   130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
             SGK LPKAYLKSARE+VKT+RESLKE+PKD A FRR+AD+AKESIRDYLSNWRGQKTVAG
Sbjct:    94 SGKELPKAYLKSAREVVKTMRESLKENPKDNAKFRRSADAAKESIRDYLSNWRGQKTVAG 153

Query:   190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
             EESYVELE  IR+LA FYSKAGPSAPLP EVK+EIL+DL+ AE+FL
Sbjct:   154 EESYVELENVIRALAKFYSKAGPSAPLPDEVKTEILDDLNKAEEFL 199

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009543 "chloroplast thylakoid lumen" evidence=IDA

GO:0010207 "photosystem II assembly" evidence=IMP

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

UNIPROTKB|P74367 slr1645 "Photosystem II 11 kDa protein" [Synechocystis sp. PCC 6803 substr. Kazusa (taxid:1111708)]

 Score = 137 (53.3 bits), Expect = 3.3e-09, P = 3.3e-09
 Identities = 31/104 (29%), Positives = 58/104 (55%)

Query:   130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
             SG  L   Y +    ++ TLRE++ + P+D  N +   D+A+  I DY+S +R +    G
Sbjct:    27 SGTGLTGNYSQDTLTVIATLREAI-DLPQDAPNRQEVQDTARGQINDYISRYRRKGDAGG 85

Query:   190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEK 233
              +S+  ++ A+ SLA +Y+  G + P+P ++K  +  +   AE+
Sbjct:    86 LKSFTTMQTALNSLAGYYTSYG-ARPIPEKLKKRLQLEFTQAER 128

GO:0030096 "plasma membrane-derived thylakoid photosystem II" evidence=IDA

TAIR|locus:2020788 PSB27 "AT1G03600" [Arabidopsis thaliana (taxid:3702)]

 Score = 133 (51.9 bits), Expect = 9.6e-09, P = 9.6e-09
 Identities = 26/98 (26%), Positives = 54/98 (55%)

Query:   138 YLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELE 197
             Y+K    ++  +R +L     D  N        +E+   +++ +R +K + G+ S+ ++ 
Sbjct:    74 YIKDTSAVISKVRSTLSMQKTD-PNVADAVAELREASNSWVAKYRKEKALLGKASFRDIY 132

Query:   198 KAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
              A+ +++  Y   GP+AP+P + K+ IL +++TAEK L
Sbjct:   133 SALNAVSGHYVSFGPTAPIPAKRKARILEEMETAEKAL 170


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.133   0.384    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      235       235   0.00088  113 3  11 22  0.40    33
                                                     32  0.43    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  3
  No. of states in DFA:  606 (64 KB)
  Total size of DFA:  176 KB (2102 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  24.73u 0.11s 24.84t   Elapsed:  00:00:01
  Total cpu time:  24.73u 0.11s 24.84t   Elapsed:  00:00:01
  Start:  Sat May 11 02:02:36 2013   End:  Sat May 11 02:02:37 2013

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0030095 "chloroplast photosystem II" evidence=ISS

GO:0009543 "chloroplast thylakoid lumen" evidence=IDA

GO:0009579 "thylakoid" evidence=IDA

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

GO:0010206 "photosystem II repair" evidence=IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009657 "plastid organization" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00019989001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (209 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	235
PLN00061	150	PLN00061, PLN00061, photosystem II protein Psb27;	8e-88
pfam13326	110	pfam13326, PSII_Pbs27, Photosystem II Pbs27	2e-36
TIGR03044	135	TIGR03044, PS_II_psb27, photosystem II protein Psb	4e-10
PLN00064	166	PLN00064, PLN00064, photosystem II protein Psb27;	2e-09

>gnl|CDD|215043 PLN00061, PLN00061, photosystem II protein Psb27; Provisional

 Score =  256 bits (655), Expect = 8e-88
 Identities = 116/151 (76%), Positives = 128/151 (84%), Gaps = 2/151 (1%)

Query: 82  ALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKS 141
           +  A LT N  + PL  +AE+    + E+ EGVVGAIKSLFDPNEKTKSGK LPKAYLKS
Sbjct: 2   SFAASLTLNGQMTPLQARAEE--EAKVEEGEGVVGAIKSLFDPNEKTKSGKKLPKAYLKS 59

Query: 142 ARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIR 201
           ARE+VKTLRESLKEDPKD A FRR AD+AKESIR+YL NWRGQKTVA EESYVELEKAIR
Sbjct: 60  AREVVKTLRESLKEDPKDEAKFRRTADAAKESIREYLGNWRGQKTVAEEESYVELEKAIR 119

Query: 202 SLASFYSKAGPSAPLPGEVKSEILNDLDTAE 232
           SLASFYSKAGPSAPLP +VKSEIL+DL+ AE
Sbjct: 120 SLASFYSKAGPSAPLPEDVKSEILDDLNKAE 150

Length = 150

>gnl|CDD|205506 pfam13326, PSII_Pbs27, Photosystem II Pbs27

 Score =  123 bits (312), Expect = 2e-36
 Identities = 45/116 (38%), Positives = 62/116 (53%), Gaps = 8/116 (6%)

Query: 120 SLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLS 179
           ++  P  K      L   Y+K    +V+TLRE+L E PKD  N    A  A+E I DY+S
Sbjct: 3   AVAAPAAK------LTGDYVKDTLAVVETLRETL-ELPKDDPNRAEAAAEARELINDYVS 55

Query: 180 NWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
            +R   +VAG  S+  +  A+ SLA  YS  G   PLP ++K  +L +L  AEK L
Sbjct: 56  RYRRGPSVAGLASFTTMYTALNSLAGHYSSYGN-RPLPEKLKERLLKELKKAEKAL 110

This family of proteins contains Pbs27, a highly conserved component of photosystem II. Pbs27 is comprised of four helices arranged in a right handed up-down-up-down fold, with a less ordered region located at the N-terminus. Length = 110

>gnl|CDD|234098 TIGR03044, PS_II_psb27, photosystem II protein Psb27

 Score = 55.8 bits (135), Expect = 4e-10
 Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 2/91 (2%)

Query: 145 LVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLA 204
           +++TLRE++   P D  N       A++ I DY+S +R +  V G  S+  ++ A+ SLA
Sbjct: 44  VIQTLREAIDL-PDDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLA 102

Query: 205 SFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
             Y K+  + PLP ++K  +  +L  AEK L
Sbjct: 103 GHY-KSYANRPLPEKLKERLEKELKKAEKAL 132

Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single family models, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences from Arabidopsis are not, at this time, assigned as functionally equivalent photosystem II proteins [Energy metabolism, Photosynthesis]. Length = 135

>gnl|CDD|215045 PLN00064, PLN00064, photosystem II protein Psb27; Provisional

 Score = 54.6 bits (131), Expect = 2e-09
 Identities = 40/178 (22%), Positives = 75/178 (42%), Gaps = 49/178 (27%)

Query: 64  PPVEAASSRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFD 123
           PP      RR  +S ++T L +       L   P  A       DE+             
Sbjct: 28  PPRRNHLLRREFLSLATTILTSAAL----LPVAPAFA-----ASDEE------------- 65

Query: 124 PNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKD------IANFRRNADSAKESIRDY 177
                         Y+K  ++++  +R ++  D  D      +A  R  ++S       +
Sbjct: 66  --------------YVKETKDVIGKVRSTINMDKTDPNVADAVAELRETSNS-------W 104

Query: 178 LSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           ++ +R +K + G  S+ ++  A+ +++  Y   GP+AP+P + K+ IL ++DTAEK L
Sbjct: 105 VAKYRREKALLGRPSFRDMYSALNAVSGHYISFGPTAPIPAKRKARILEEMDTAEKAL 162

Length = 166

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	235
PLN00061	150	photosystem II protein Psb27; Provisional	100.0
PLN00064	166	photosystem II protein Psb27; Provisional	100.0
PF13326	145	PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF	100.0
TIGR03044	135	PS_II_psb27 photosystem II protein Psb27. Members	100.0
TIGR02811	66	formate_TAT formate dehydrogenase region TAT targe	93.34
PF10518	26	TAT_signal: TAT (twin-arginine translocation) path	86.21
PF07240	85	Turandot: Stress-inducible humoral factor Turandot	81.54
smart00040	121	CSF2 Granulocyte-macrophage colony-simulating fact	81.31
TIGR01409	29	TAT_signal_seq Tat (twin-arginine translocation) p	80.98

>PLN00061 photosystem II protein Psb27; Provisional

Probab=100.00  E-value=2.3e-62  Score=409.04  Aligned_cols=148  Identities=78%  Similarity=1.098  Sum_probs=143.2

Q ss_pred             HHHHHHhhccCCCchhhhccccCCCCccccccccchhcccCCCCcccCCCCCchHHHHHHHHHHHHHHHHhcCCCCCchH
Q 026691           83 LVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIAN  162 (235)
Q Consensus        83 ~~~~~~~~~~~~P~~~~A~~e~~~~~~~~~g~~~~~~~~fdp~~~tkSg~~LPkdY~kdT~~VV~tLReaLelDp~D~~~  162 (235)
                      ++++++++|...|++++|++|+  +.+++|||||||||+|||||+||||+.||++|++||++||++||++|+++|+|+++
T Consensus         3 ~~~~~~~~~~~~~~~~~a~~e~--~~~~~~~~~~~~~~~fdp~e~tksg~~Lpg~Y~kdtr~VV~tLresl~l~p~D~~~   80 (150)
T PLN00061          3 FAASLTLNGQMTPLQARAEEEA--KVEEGEGVVGAIKSLFDPNEKTKSGKKLPKAYLKSAREVVKTLRESLKEDPKDEAK   80 (150)
T ss_pred             HHHHHHHhcCCCCCcchHHHHh--cccccccHHHHHHHhcCccccccccccCchHHHHHHHHHHHHHHHHHccCCcchHH
Confidence            3578899999999999999997  57778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhcCCCCCCChhHHHHHHHHHHHHH
Q 026691          163 FRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAE  232 (235)
Q Consensus       163 ~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSfGp~rPLPeklK~RLLqEL~~AE  232 (235)
                      +++++++||++|||||++|||+++|+|++||+||+||||+|||||++|||+||||||+|+||++||++||
T Consensus        81 ~~~aa~~Ake~IndYisryR~~~~V~gl~SfttMqtALnsLAghYssyGpnrPLPe~lK~Rll~EL~~AE  150 (150)
T PLN00061         81 FRRTADAAKESIREYLGNWRGQKTVAEEESYVELEKAIRSLASFYSKAGPSAPLPEDVKSEILDDLNKAE  150 (150)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCccccccchHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHhccC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999997

>PLN00064 photosystem II protein Psb27; Provisional

Probab=100.00  E-value=4.6e-43  Score=296.69  Aligned_cols=98  Identities=27%  Similarity=0.555  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCchHHHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhcCCCCCC
Q 026691          137 AYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPL  216 (235)
Q Consensus       137 dY~kdT~~VV~tLReaLelDp~D~~~~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSfGp~rPL  216 (235)
                      +|.+||.+||++||++|+| |+|++++.++++++|++||||||||||+++|+|++||+|||||||+|||||+||||+|||
T Consensus        65 ~Y~~DT~aVi~~lr~tI~L-~~ddp~~a~a~aeaR~~iNdyvSrYRr~~~v~Gl~SFttMyTALNaLAGHY~SfgpnrPl  143 (166)
T PLN00064         65 EYVKETKDVIGKVRSTINM-DKTDPNVADAVAELRETSNSWVAKYRREKALLGRPSFRDMYSALNAVSGHYISFGPTAPI  143 (166)
T ss_pred             ChHHHHHHHHHHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCcccCcccHHHHHHHHHHHHHHhhccCCCCCC
Confidence            4999999999999999999 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHHHHhcC
Q 026691          217 PGEVKSEILNDLDTAEKFL  235 (235)
Q Consensus       217 PeklK~RLLqEL~~AEkaL  235 (235)
                      |+|+|+||+|||++||++|
T Consensus       144 PeKlK~RL~qE~~~AEkal  162 (166)
T PLN00064        144 PAKRKARILEEMDTAEKAL  162 (166)
T ss_pred             cHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999986

>PF13326 PSII_Pbs27: Photosystem II Pbs27; PDB: 2KND_A 2KMF_A 2Y6X_A

Probab=100.00  E-value=1e-43  Score=294.38  Aligned_cols=145  Identities=41%  Similarity=0.562  Sum_probs=93.0

Q ss_pred             hhHHHHHhhhhhHHHHHHhhccCCCchhhhccccCCCCccccccccchhcccCCCCcccCCCCCchHHHHHHHHHHHHHH
Q 026691           71 SRRHVISCSSTALVAILTFNCGLAPLPVQAEDMSNGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLR  150 (235)
Q Consensus        71 ~RR~~L~~~~~~~~~~~~~~~~~~P~~~~A~~e~~~~~~~~~g~~~~~~~~fdp~~~tkSg~~LPkdY~kdT~~VV~tLR  150 (235)
                      +||++|...+..++++ ++.+..+++.+++..+..       +    ++|. |||+      .|+++|++||++||++||
T Consensus         1 ~rr~~l~~~~~~~~al-~l~~~~~~l~~~~l~~c~-------~----~~s~-~~~~------~l~~~Y~~dt~~vv~~lr   61 (145)
T PF13326_consen    1 SRRRLLLAASSALLAL-TLSARGAALAVIALTACR-------A----AKSG-DPNA------GLTGDYVKDTRAVVKTLR   61 (145)
T ss_dssp             ---------------------------------S------------------S--S------S--S-CHHHHHHHHHHHH
T ss_pred             CcchhhhHHHHHHHHH-HHhhhhHHHHhhcchhhh-------h----cccC-Cccc------cccchHHHHHHHHHHHHH
Confidence            6899998887775443 444444555444422211       0    4444 6655      455679999999999999


Q ss_pred             HHhcCCCCCchHHHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhcCCCCCCChhHHHHHHHHHHH
Q 026691          151 ESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDT  230 (235)
Q Consensus       151 eaLelDp~D~~~~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSfGp~rPLPeklK~RLLqEL~~  230 (235)
                      ++|++ |+|++++++++++||++|||||++|||+++|+|++||++||+|||+|||||++|||++|||+|+|+||++||++
T Consensus        62 ~~l~l-~~d~~~~~~~~~~ar~~in~~vs~YRr~~~v~g~~Sf~~m~tAln~LaghY~s~g~raPlP~k~k~rll~el~~  140 (145)
T PF13326_consen   62 EALEL-DKDDPNRAEAAAEARELINDYVSRYRRGPSVSGLPSFTTMYTALNALAGHYSSYGNRAPLPEKLKERLLKELDQ  140 (145)
T ss_dssp             HHHCS--TT-TTHHHHHHHHHHHHHHHHCCCCCCHHCCTSHHHHHHHHHHHHHHHHCHHHTTS-S--HHHHHHHHHHHHH
T ss_pred             HHHcC-CCCCccHHHHHHHHHHHHHHHHHHhCCCCCcCCcchHHHHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHH
Confidence            99998 78999999999999999999999999999999999999999999999999999998889999999999999999


Q ss_pred             HHhcC
Q 026691          231 AEKFL  235 (235)
Q Consensus       231 AEkaL  235 (235)
                      ||++|
T Consensus       141 Ae~aL  145 (145)
T PF13326_consen  141 AEKAL  145 (145)
T ss_dssp             HHHHH
T ss_pred             HHhcC
Confidence            99986

>TIGR03044 PS_II_psb27 photosystem II protein Psb27

Probab=100.00  E-value=1.9e-42  Score=285.63  Aligned_cols=103  Identities=31%  Similarity=0.522  Sum_probs=99.9

Q ss_pred             CCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhc
Q 026691          131 GKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA  210 (235)
Q Consensus       131 g~~LPkdY~kdT~~VV~tLReaLelDp~D~~~~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSf  210 (235)
                      .+.|+++|.+||++||++||++|++ |+|++++++++++||++|||||+||||+++|+|++||+|||||||+|||||++|
T Consensus        30 ~~~Ltg~Y~~DT~~Vi~tlr~~i~l-pkd~p~~~~a~~~ar~~indyvsrYRr~~~v~g~~SFttm~TALNsLAGHY~sy  108 (135)
T TIGR03044        30 KTRLTGDYVEDTLAVIQTLREAIDL-PDDDPNKSEAQAEARQLINDYISRYRRRPRVNGLSSFTTMQTALNSLAGHYKSY  108 (135)
T ss_pred             cccccchHHHHHHHHHHHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCCcCCcccHHHHHHHHHHHHHHhccC
Confidence            3578999999999999999999999 999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCChhHHHHHHHHHHHHHhcC
Q 026691          211 GPSAPLPGEVKSEILNDLDTAEKFL  235 (235)
Q Consensus       211 Gp~rPLPeklK~RLLqEL~~AEkaL  235 (235)
                      | +||||||+|+||+|||++||++|
T Consensus       109 ~-~rPlPeklk~Rl~~El~~AE~al  132 (135)
T TIGR03044       109 A-NRPLPEKLKERLEKELKKAEKAL  132 (135)
T ss_pred             C-CCCCCHHHHHHHHHHHHHHHHHH
Confidence            5 99999999999999999999986

Members of this family are the Psb27 protein of the cyanobacterial photosynthetic supracomplex, photosystem II. Although most protein components of both cyanobacterial and chloroplast versions of photosystem II are closely related and described together by single model families, this family is strictly bacterial. Some uncharacterized proteins with highly divergent sequences, from Arabidopsis, score between trusted and noise cutoffs for this model but are not at this time assigned as functionally equivalent photosystem II proteins.

>TIGR02811 formate_TAT formate dehydrogenase region TAT target

Probab=93.34  E-value=0.12  Score=38.58  Aligned_cols=16  Identities=25%  Similarity=0.360  Sum_probs=12.1

Q ss_pred             chhhhhHHHHHhhhhh
Q 026691           67 EAASSRRHVISCSSTA   82 (235)
Q Consensus        67 ~~~~~RR~~L~~~~~~   82 (235)
                      ....+||+||.+.+++
T Consensus         6 ~~~~sRR~Flk~lg~~   21 (66)
T TIGR02811         6 KADPSRRDLLKGLGVG   21 (66)
T ss_pred             cCCccHHHHHHHHHHH
Confidence            3356899999987764

Members of this uncharacterized protein family are all small, extending 70 or fewer residues from their respective likely start codons. All have the twin-arginine-dependent tranport (TAT) signal sequence at the N-terminus and a conserved 20-residue C-terminal region that includes the motif Y-[HRK]-X-[TS]-X-H-[IV]-X-X-[YF]-Y. The TAT signal sequence suggests a bound cofactor. All members are encoded near genes for subunits of formate dehydrogenase, and may themselves be a subunit or accessory protein.

>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []

Probab=86.21  E-value=0.73  Score=28.61  Aligned_cols=13  Identities=31%  Similarity=0.417  Sum_probs=11.0

Q ss_pred             hhhHHHHHhhhhh
Q 026691           70 SSRRHVISCSSTA   82 (235)
Q Consensus        70 ~~RR~~L~~~~~~   82 (235)
                      .+||+||.++++.
T Consensus         2 ~sRR~fLk~~~a~   14 (26)
T PF10518_consen    2 LSRRQFLKGGAAA   14 (26)
T ss_pred             CcHHHHHHHHHHH
Confidence            4899999999765

Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].

>PF07240 Turandot: Stress-inducible humoral factor Turandot; InterPro: IPR010825 This family consists of several Drosophila species specific Turandot proteins

Probab=81.54  E-value=3.3  Score=32.68  Aligned_cols=35  Identities=26%  Similarity=0.386  Sum_probs=29.9

Q ss_pred             HHHHHHHHhhHhhcCCCCCCChhHHHHHHHHHHHH
Q 026691          197 EKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTA  231 (235)
Q Consensus       197 ~TALNsLAGHYsSfGp~rPLPeklK~RLLqEL~~A  231 (235)
                      ..=+.+|.+||..|.|.-||++..|+++...+++=
T Consensus         9 ~rni~eLi~fY~ky~~~~~L~~~~r~~~d~~i~~y   43 (85)
T PF07240_consen    9 IRNIQELIAFYEKYSPRLPLTPQDRQRIDRFIRRY   43 (85)
T ss_pred             HhhHHHHHHHHHHcCccCCCCHHHHHHHHHHHHHH
Confidence            34467899999999999999999999998887653

The Turandot A (TotA) gene encodes a humoral factor, which is secreted from the fat body and accumulates in the body fluids. TotA is strongly induced upon bacterial challenge, as well as by other types of stress such as high temperature, mechanical pressure, dehydration, UV irradiation, and oxidative agents. It is also upregulated during metamorphosis and at high age. Flies that overexpress TotA show prolonged survival and retain normal activity at otherwise lethal temperatures. Although TotA is only induced by severe stress, it responds to a much wider range of stimuli than heat shock genes such as hsp70 or immune genes such as Cecropin A1 [].

>smart00040 CSF2 Granulocyte-macrophage colony-simulating factor (GM-CSF)

Probab=81.31  E-value=2.8  Score=35.00  Aligned_cols=25  Identities=28%  Similarity=0.511  Sum_probs=22.3

Q ss_pred             hhHHHHHHHHHHHHhhHhhcCCCCC
Q 026691          191 ESYVELEKAIRSLASFYSKAGPSAP  215 (235)
Q Consensus       191 ~SFttM~TALNsLAGHYsSfGp~rP  215 (235)
                      -|++.+..+|+-+|.||..+-|..|
T Consensus        68 Gslt~Lkg~LtmmA~hYkq~CppTp   92 (121)
T smart00040       68 GSLTKLKGPLTMMASHYKQHCPPTP   92 (121)
T ss_pred             ccHHHhhcHHHHHHHHHHhcCCCCC
Confidence            4899999999999999999977655

GM-CSF stimulates the development of and the cytotoxic activity of white blood cells.

>TIGR01409 TAT_signal_seq Tat (twin-arginine translocation) pathway signal sequence

Probab=80.98  E-value=1.5  Score=27.53  Aligned_cols=12  Identities=33%  Similarity=0.506  Sum_probs=10.2

Q ss_pred             hhHHHHHhhhhh
Q 026691           71 SRRHVISCSSTA   82 (235)
Q Consensus        71 ~RR~~L~~~~~~   82 (235)
                      +||+||..++.+
T Consensus         2 sRR~Flk~~~~~   13 (29)
T TIGR01409         2 SRRDFLKGAAAA   13 (29)
T ss_pred             chhhhHHHHHHH
Confidence            799999999654

Members with small amino acid side chains at the -1 and -3 positions from the C-terminus of the model should be predicted to be cleaved as are Sec pathway signal sequences. Members are almost exclusively bacterial, although archaeal sequences are also found. A large fraction of the members of this family may have bound redox-active cofactors.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	235
2kmf_A	115	Solution Structure Of Psb27 From Cyanobacterial Pho		5e-08
2knd_A	110	Psb27 Structure From Synechocystis Length = 110		5e-08

>pdb|2KMF|A Chain A, Solution Structure Of Psb27 From Cyanobacterial Photosystem Ii Length = 115

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 59/106 (55%), Gaps = 2/106 (1%)
Query: 130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
           SG  L   Y +    ++ TLRE++ + P+D  N +   D+A+  I DY+S +R +    G
Sbjct: 8   SGTGLTGNYSQDTLTVIATLREAI-DLPQDAPNRQEVQDTARGQINDYISRYRRKGDAGG 66
Query: 190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
            +S+  ++ A+ SLA +Y+  G + P+P ++K  +  +   AE+ +
Sbjct: 67  LKSFTTMQTALNSLAGYYTSYG-ARPIPEKLKKRLQLEFTQAERSI 111

>pdb|2KND|A Chain A, Psb27 Structure From Synechocystis Length = 110

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 31/106 (29%), Positives = 59/106 (55%), Gaps = 2/106 (1%)
Query: 130 SGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAG 189
           SG  L   Y +    ++ TLRE++ + P+D  N +   D+A+  I DY+S +R +    G
Sbjct: 3   SGTGLTGNYSQDTLTVIATLREAI-DLPQDAPNRQEVQDTARGQINDYISRYRRKGDAGG 61
Query: 190 EESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
            +S+  ++ A+ SLA +Y+  G + P+P ++K  +  +   AE+ +
Sbjct: 62  LKSFTTMQTALNSLAGYYTSYG-ARPIPEKLKKRLQLEFTQAERSI 106

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	235
2kmf_A	115	Photosystem II 11 kDa protein; PSB27, structure, h	7e-35
2y6x_A	113	PSB27, photosystem II 11 KD protein; photosynthesi	3e-27
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05

>2kmf_A Photosystem II 11 kDa protein; PSB27, structure, helical bundle, cyanobacteria, photosynthesis; NMR {Synechocystis SP} PDB: 2knd_A Length = 115

 Score =  119 bits (300), Expect = 7e-35
 Identities = 32/112 (28%), Positives = 59/112 (52%), Gaps = 2/112 (1%)

Query: 124 PNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRG 183
           P     SG  L   Y +    ++ TLRE++ + P+D  N +   D+A+  I DY+S +R 
Sbjct: 2   PLGSCDSGTGLTGNYSQDTLTVIATLREAI-DLPQDAPNRQEVQDTARGQINDYISRYRR 60

Query: 184 QKTVAGEESYVELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           +    G +S+  ++ A+ SLA +Y+  G   P+P ++K  +  +   AE+ +
Sbjct: 61  KGDAGGLKSFTTMQTALNSLAGYYTSYGA-RPIPEKLKKRLQLEFTQAERSI 111

>2y6x_A PSB27, photosystem II 11 KD protein; photosynthesis; 1.60A {Thermosynechococcus elongatus} Length = 113

 Score =  100 bits (249), Expect = 3e-27
 Identities = 24/102 (23%), Positives = 53/102 (51%), Gaps = 2/102 (1%)

Query: 134 LPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESY 193
           L   + +    L+ +LRE++   P++  N +     A++ + D+ + +R   ++    S+
Sbjct: 8   LTGNFREDTLALISSLREAI-ALPENDPNKKAAQAEARKKLNDFFALYRRDDSLRSLSSF 66

Query: 194 VELEKAIRSLASFYSKAGPSAPLPGEVKSEILNDLDTAEKFL 235
           + ++ A+ SLA  YS + P+ PLP ++K+ +  +    E  L
Sbjct: 67  MTMQTALNSLAGHYS-SYPNRPLPEKLKARLEQEFKQVELAL 107

>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 = 42.9 bits (100), Expect = 5e-05
 Identities = 34/190 (17%), Positives = 63/190 (33%), Gaps = 34/190 (17%)

Query: 52  ADKLHSRTHVVLPPVEAASSRRHV----ISCS---STALVAILTFNCGLAPLPVQAEDMS 104
             K +    +VL  V    + +      +SC    +T    +  F        +  +  S
Sbjct: 239 KSKPYENCLLVLLNV---QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295

Query: 105 NGQDEKEEGVVGAIKSLFDPNEKTKSGKVLPKAYLKSARELVKTLRESLKEDPKDIANFR 164
                 E      +KSL       +    LP+  L +    +  + ES+++      N++
Sbjct: 296 MTLTPDE------VKSLLLKYLDCRPQD-LPREVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 165 R-NADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAGP-SAPLPGEVKS 222
             N D     I         + ++   E   E  K    L+ F     P SA +P  + S
Sbjct: 349 HVNCDKLTTII---------ESSLNVLEPA-EYRKMFDRLSVF-----PPSAHIPTILLS 393

Query: 223 EILNDLDTAE 232
            I  D+  ++
Sbjct: 394 LIWFDVIKSD 403

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	235
2kmf_A	115	Photosystem II 11 kDa protein; PSB27, structure, h	100.0
2y6x_A	113	PSB27, photosystem II 11 KD protein; photosynthesi	100.0
2pq4_B	35	Periplasmic nitrate reductase precursor; NAPD/NAPA	83.38

>2kmf_A Photosystem II 11 kDa protein; PSB27, structure, helical bundle, cyanobacteria, photosynthesis; NMR {Synechocystis SP} PDB: 2knd_A

Probab=100.00  E-value=7.9e-43  Score=280.02  Aligned_cols=103  Identities=29%  Similarity=0.564  Sum_probs=100.2

Q ss_pred             CCCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhc
Q 026691          131 GKVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKA  210 (235)
Q Consensus       131 g~~LPkdY~kdT~~VV~tLReaLelDp~D~~~~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSf  210 (235)
                      .+.||++|++||++||++||++|++ |+|++++++++++||++|||||++|||++.|+|++||++||||||+|||||++|
T Consensus         9 ~~~L~~~Y~~dT~~Vv~~lr~~l~l-~~d~~~~~~a~~~ar~~ind~vsrYRr~~~v~g~~Sf~tm~tAlNaLAGHY~s~   87 (115)
T 2kmf_A            9 GTGLTGNYSQDTLTVIATLREAIDL-PQDAPNRQEVQDTARGQINDYISRYRRKGDAGGLKSFTTMQTALNSLAGYYTSY   87 (115)
T ss_dssp             CSSCCSCHHHHHHHHHHHHHHHHHS-CTTCTTHHHHHHHHHHHHHHHHHHTHHHHCSSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccCCccHHHHHHHHHHHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCCccccchHHHHHHHHHHHHHHHhhc
Confidence            5679999999999999999999998 889999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCChhHHHHHHHHHHHHHhcC
Q 026691          211 GPSAPLPGEVKSEILNDLDTAEKFL  235 (235)
Q Consensus       211 Gp~rPLPeklK~RLLqEL~~AEkaL  235 (235)
                      | ++|||+|+|+||++||++||++|
T Consensus        88 g-~~PlPek~k~Rl~~el~~AE~al  111 (115)
T 2kmf_A           88 G-ARPIPEKLKKRLQLEFTQAERSI  111 (115)
T ss_dssp             S-SCCCCHHHHHHHHHHHHHHHHHH
T ss_pred             C-CCCCCHHHHHHHHHHHHHHHHHH
Confidence            8 99999999999999999999986

>2y6x_A PSB27, photosystem II 11 KD protein; photosynthesis; 1.60A {Thermosynechococcus elongatus}

Probab=100.00  E-value=2.2e-42  Score=276.84  Aligned_cols=102  Identities=23%  Similarity=0.434  Sum_probs=99.2

Q ss_pred             CCCchHHHHHHHHHHHHHHHHhcCCCCCchHHHHhHHHHHHHHHHHHHhhhCCCCCCCchhHHHHHHHHHHHHhhHhhcC
Q 026691          132 KVLPKAYLKSARELVKTLRESLKEDPKDIANFRRNADSAKESIRDYLSNWRGQKTVAGEESYVELEKAIRSLASFYSKAG  211 (235)
Q Consensus       132 ~~LPkdY~kdT~~VV~tLReaLelDp~D~~~~~~aa~~AKe~InDyVSrYRr~~~V~G~~SFttM~TALNsLAGHYsSfG  211 (235)
                      +.||++|++||++||++||++|+| |+|++++++++++||++|||||++|||++.|+|++||+|||||||+|||||++||
T Consensus         6 ~~L~~~Y~~dT~~Vv~~lr~~l~l-~~d~~~~~~a~~~ar~~ind~vsrYRr~~~v~g~~Sfttm~tAlNaLAGHY~s~g   84 (113)
T 2y6x_A            6 TGLTGNFREDTLALISSLREAIAL-PENDPNKKAAQAEARKKLNDFFALYRRDDSLRSLSSFMTMQTALNSLAGHYSSYP   84 (113)
T ss_dssp             CCCCSCHHHHHHHHHHHHHHHHHS-CTTCTTHHHHHHHHHHHHHHHHHHHTTCHHHHTSHHHHHHHHHHHHHHHHHHHCT
T ss_pred             cCCCccHHHHHHHHHHHHHHHHcC-CCCCccHHHHHHHHHHHHHHHHHHhcCCCCccccchHHHHHHHHHHHHHHHhhcC
Confidence            469999999999999999999999 7899999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCChhHHHHHHHHHHHHHhcC
Q 026691          212 PSAPLPGEVKSEILNDLDTAEKFL  235 (235)
Q Consensus       212 p~rPLPeklK~RLLqEL~~AEkaL  235 (235)
                       ++|||+|+|+||++||++||++|
T Consensus        85 -~~PlPek~k~Rl~~el~~AE~al  107 (113)
T 2y6x_A           85 -NRPLPEKLKARLEQEFKQVELAL  107 (113)
T ss_dssp             -TSCCCHHHHHHHHHHHHHHHHHH
T ss_pred             -CCCCCHHHHHHHHHHHHHHHHHH
Confidence             99999999999999999999986

>2pq4_B Periplasmic nitrate reductase precursor; NAPD/NAPA1-35, mixed beta-alpha sandwich structure, protein- peptide complex, alpha-helix; NMR {Escherichia coli}

Probab=83.38  E-value=0.68  Score=29.83  Aligned_cols=13  Identities=31%  Similarity=0.434  Sum_probs=10.6

Q ss_pred             hhhHHHHHhhhhh
Q 026691           70 SSRRHVISCSSTA   82 (235)
Q Consensus        70 ~~RR~~L~~~~~~   82 (235)
                      .+||+||.+++++
T Consensus         3 lsRR~FLK~~aaa   15 (35)
T 2pq4_B            3 LSRRSFMKANAVA   15 (35)
T ss_dssp             CCSHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH
Confidence            4799999988654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00