Query psy12645
Match_columns 218
No_of_seqs 156 out of 1136
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 15:54:43 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12645.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12645hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3071|consensus 100.0 1.6E-50 3.4E-55 353.0 14.8 187 13-199 41-268 (274)
2 PF01151 ELO: GNS1/SUR4 family 100.0 1.2E-49 2.6E-54 345.7 8.3 195 1-197 3-250 (250)
3 PTZ00251 fatty acid elongase; 100.0 1.1E-46 2.3E-51 330.6 7.5 189 2-197 23-270 (272)
4 KOG3072|consensus 100.0 6.4E-43 1.4E-47 303.5 8.1 185 2-193 37-269 (282)
5 PRK00753 psbL photosystem II r 31.2 73 0.0016 19.8 2.9 26 161-186 13-38 (39)
6 CHL00038 psbL photosystem II p 29.0 1E+02 0.0022 19.1 3.3 26 161-186 12-37 (38)
7 COG5548 Small integral membran 28.1 14 0.0003 27.9 -0.8 21 10-30 62-82 (105)
8 PF14826 FACT-Spt16_Nlob: FACT 27.1 30 0.00065 28.2 0.9 27 76-109 48-74 (163)
9 PF02419 PsbL: PsbL protein; 22.1 1.5E+02 0.0033 18.3 3.1 24 163-186 13-36 (37)
10 PF11119 DUF2633: Protein of u 16.3 1.5E+02 0.0032 20.4 2.3 15 171-185 12-26 (59)
No 1
>KOG3071|consensus
Probab=100.00 E-value=1.6e-50 Score=352.96 Aligned_cols=187 Identities=36% Similarity=0.556 Sum_probs=168.6
Q ss_pred cccccccccccCCCCCccchhHHHHHHH----HhHHHHHhhhHhhhc-cCceeeecCCCCCCccccchhhhhhhhhhhhh
Q psy12645 13 KPGRDSSFKLGRDRPSYSLQAIIIIINV----ASSMPKIQAMDGAWY-RDYSLRCEPVDYSTTPKAMRVARGCWWYFFSK 87 (218)
Q Consensus 13 ~~~~~~~~~~Mk~Rkp~~Lk~~l~~yN~----ls~~~~~~~~~~~~~-~~~~~~C~~~~~~~~~~~~~~~~~~~~f~lSK 87 (218)
.+.+++||++|+||||++||.++.+||+ +|++++.+.....+. +.|++.|++++.++++..+++.+++|+||+||
T Consensus 41 l~v~~~G~~~m~nrkp~~l~~~~~vyN~~~vl~s~~i~~~~~~~~~~~~~y~l~c~~~~~~~~~~~~r~~~~~~~yylsK 120 (274)
T KOG3071|consen 41 LFVLKLGPKLMRNRKPLKLRGLSQVYNLGQVLLSAAIFLEGELWRWLKTAYNLRCQPCFPSDHEPKLRERFWSYLYYLSK 120 (274)
T ss_pred HHHHHhcHhhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccceEEEecCCCCCCcceeehHHHHHHHHHH
Confidence 4678999999999999999999999999 677776666665564 46999999999889999999999999999999
Q ss_pred hhhhhhheeeeeecCCCceeEEeeeccchhhhhhhhhceecCCcceeehhhhhhHH------------------------
Q psy12645 88 FTEFFDTFFFVMRKKYDQVSTLHVIHHGVMPLSTWFGVKFTPGGHSTFFGLLNTFI------------------------ 143 (218)
Q Consensus 88 ~~El~DTvf~VLRKK~~qlsFLHvYHH~~~~~~~w~~~~~~~~g~~~~~~~lNs~V------------------------ 143 (218)
++||+||+|||||||++||||||+|||++|++.+|.++++.++|++++.+.+|++|
T Consensus 121 flel~DTvFfVLRKk~rqlsFLHvyHH~~m~~~~~~~l~~~~~g~~~~~~~lNs~VHviMY~YYflsa~G~~v~~~lWWk 200 (274)
T KOG3071|consen 121 FLELLDTVFFVLRKKDRQLSFLHVYHHGVMAFLSYLWLKFYGGGHGFFAILLNSFVHVIMYGYYFLSAFGPRVQWYLWWK 200 (274)
T ss_pred HHHHHhheeeEEEccCCceEEEEEEecchHHHhhhheeEEeCCceeeeeeehhhhHHHHHHHHHHHHhhCcCccccchHH
Confidence 99999999999999999999999999999999999999999889999999999999
Q ss_pred ---------HHHHHHhhhhhe-ec-cCCCCchH-HHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCC
Q psy12645 144 ---------QFVCILIHAFQL-FF-IECDYPKA-FAWWIGGHAVMFYFLFSNFYKETYVKKPKKDGAA 199 (218)
Q Consensus 144 ---------QFv~~~~~~~~~-~~-~~C~~~~~-~~~~~~~~~~s~l~LF~nFy~~sY~k~~~~~~~~ 199 (218)
||++..+|..+. ++ +||.+|++ +++.+..+.++|+.||+|||+|+|+|++++++++
T Consensus 201 ky~t~vQlvqf~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~~~l~LF~nFY~~tY~k~~~~~~~~ 268 (274)
T KOG3071|consen 201 KYITIVQLVQFLILFVHTLYVHLFKPGCCFGIGAWAFNGSVINVSFLLLFSNFYIKTYKKPKKKKAKK 268 (274)
T ss_pred HHHHHHHHHHHHHHHHHHhheeeecCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchhh
Confidence 777888888877 55 58999998 7788789999999999999999999977666554
No 2
>PF01151 ELO: GNS1/SUR4 family; InterPro: IPR002076 This group of eukaryotic integral membrane proteins are evolutionary related, but exact function has not yet clearly been established. The proteins have from 290 to 435 amino acid residues. Structurally, they seem to be formed of three sections: a N-terminal region with two transmembrane domains, a central hydrophilic loop and a C-terminal region that contains from one to three transmembrane domains. Members of this family are involved in long chain fatty acid elongation systems that produce the 26-carbon precursors for ceramide and sphingolipid synthesis []. Predicted to be integral membrane proteins, in eukaryotes they are probably located on the endoplasmic reticulum. Yeast ELO3 (P40319 from SWISSPROT) affects plasma membrane H+-ATPase activity, and may act on a glucose-signalling pathway that controls the expression of several genes that are transcriptionally regulated by glucose such as PMA1 []. ; GO: 0016021 integral to membrane
Probab=100.00 E-value=1.2e-49 Score=345.73 Aligned_cols=195 Identities=33% Similarity=0.502 Sum_probs=166.8
Q ss_pred CCCCCcceeccc--cccccccccccCCCCCccchhHHHHHHH----HhHHHHHhhhHhhh-----ccCceeeecCCCCC-
Q psy12645 1 MANWPECRDSSF--KPGRDSSFKLGRDRPSYSLQAIIIIINV----ASSMPKIQAMDGAW-----YRDYSLRCEPVDYS- 68 (218)
Q Consensus 1 ~~~~~~~~~~~~--~~~~~~~~~~Mk~Rkp~~Lk~~l~~yN~----ls~~~~~~~~~~~~-----~~~~~~~C~~~~~~- 68 (218)
|+||...+..+. ++.++.||++||+|||++||+++.+||+ +|++++++.+.... .|.++..|++.+.+
T Consensus 3 ~~~~~~~~~~~~~Yl~~V~~g~~~m~~Rkp~~Lk~~~~~~N~~l~~~S~~~~~~~~~~~~~~~~~~g~~~~~C~~~~~~~ 82 (250)
T PF01151_consen 3 MSNPWFPILIVVLYLLFVFLGPRFMKNRKPFNLKTLIIVYNLFLVVFSAYMFYGILPALFSSLFKGGLYSSFCQPVDFDP 82 (250)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHhhCCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccCCCC
Confidence 345555444444 7788999999999999999999999999 78899888885321 25688999654332
Q ss_pred CccccchhhhhhhhhhhhhhhhhhhheeeeeecCCCceeEEeeeccchhhhhhhhhceecCCcceeehhhhhhHH-----
Q psy12645 69 TTPKAMRVARGCWWYFFSKFTEFFDTFFFVMRKKYDQVSTLHVIHHGVMPLSTWFGVKFTPGGHSTFFGLLNTFI----- 143 (218)
Q Consensus 69 ~~~~~~~~~~~~~~f~lSK~~El~DTvf~VLRKK~~qlsFLHvYHH~~~~~~~w~~~~~~~~g~~~~~~~lNs~V----- 143 (218)
+++...++..|.|+|++||++|++||+|+||||| |+||||||||++|++.+|..+++.|+|+.++.+++|++|
T Consensus 83 ~~~~~~~~~~~~~~fylSK~~EllDTvflvLrkK--~lsfLHvYHH~~~~~~~w~~~~~~~~~~~~~~~~~N~~VH~iMY 160 (250)
T PF01151_consen 83 DSYSSGRVGFWYWLFYLSKYYELLDTVFLVLRKK--QLSFLHVYHHASTLLYCWISYKYGPGGQIWFIAALNSFVHVIMY 160 (250)
T ss_pred cccccchHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHhhhhhhhhhhhheeeeccccchhHHHHHHHHHHHHHH
Confidence 3445557889999999999999999999999999 999999999999999999999998888888899999999
Q ss_pred ---------------------------HHHHHHhhhhheecc------CC---CCchHHHHHHHHHHHHHHHHHHHHHHH
Q psy12645 144 ---------------------------QFVCILIHAFQLFFI------EC---DYPKAFAWWIGGHAVMFYFLFSNFYKE 187 (218)
Q Consensus 144 ---------------------------QFv~~~~~~~~~~~~------~C---~~~~~~~~~~~~~~~s~l~LF~nFy~~ 187 (218)
||++++++..+.... +| ++|.....++.++++++++||.|||+|
T Consensus 161 ~YY~l~a~g~~~~~~~~k~~IT~~Qi~QF~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~~~s~l~LF~~Fy~~ 240 (250)
T PF01151_consen 161 SYYFLSALGIRKVPRWWKKYITSLQIVQFVIGIVHTVYALYYYFFPGGDCDTSGYPKFNAILGLVYYVSYLYLFINFYIK 240 (250)
T ss_pred HHHHHHhcccccchhHHHHHHhHHhhhhhHHHHHHHHHHhheeccCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999888766543 89 677999999999999999999999999
Q ss_pred hhcCCCCCCC
Q psy12645 188 TYVKKPKKDG 197 (218)
Q Consensus 188 sY~k~~~~~~ 197 (218)
+|.+|++|||
T Consensus 241 ~Y~~~~~~k~ 250 (250)
T PF01151_consen 241 SYIKKKKKKK 250 (250)
T ss_pred HhCcCCCCCC
Confidence 9999887764
No 3
>PTZ00251 fatty acid elongase; Provisional
Probab=100.00 E-value=1.1e-46 Score=330.64 Aligned_cols=189 Identities=21% Similarity=0.213 Sum_probs=151.1
Q ss_pred CCCCcceeccc--cccccccccccC----CCCCcc-chhHHHHHHH----HhHHHHHhhhH----hhh-ccCceeeecCC
Q psy12645 2 ANWPECRDSSF--KPGRDSSFKLGR----DRPSYS-LQAIIIIINV----ASSMPKIQAMD----GAW-YRDYSLRCEPV 65 (218)
Q Consensus 2 ~~~~~~~~~~~--~~~~~~~~~~Mk----~Rkp~~-Lk~~l~~yN~----ls~~~~~~~~~----~~~-~~~~~~~C~~~ 65 (218)
+||..+...+. ++.+..||++|| +|||++ ||+++++||+ +|++++++.+. ..+ .+.++..|++.
T Consensus 23 ~~~~~~~~i~~~Yl~~V~~Gp~~M~~~~~~Rkp~~~Lr~~l~~yNl~l~v~s~~~~~~~~~~~~~~~~~~g~~~~~C~~~ 102 (272)
T PTZ00251 23 SNVDICVYIAAAYLTFVFKGPQLVDAIFHGNPPVPLIKKCWALWNIGLSVFSMYGVYRVVPPLLNNLRKYGLHDTLCTFR 102 (272)
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHhhccccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceeeecCC
Confidence 45555555554 666679999997 599999 9999999999 77787777753 333 35578889743
Q ss_pred CCCCcc-ccchhhhhhhhhhhhhhhhhhhheeeeeecCCCceeEEeeeccchhhhhhhhhceecCCcceee-hhhhhhHH
Q psy12645 66 DYSTTP-KAMRVARGCWWYFFSKFTEFFDTFFFVMRKKYDQVSTLHVIHHGVMPLSTWFGVKFTPGGHSTF-FGLLNTFI 143 (218)
Q Consensus 66 ~~~~~~-~~~~~~~~~~~f~lSK~~El~DTvf~VLRKK~~qlsFLHvYHH~~~~~~~w~~~~~~~~g~~~~-~~~lNs~V 143 (218)
+ ++ ...++..|+|+|++||++||+||+|+||||| |+||||||||++|++++|..+. ++++..+ ++++|++|
T Consensus 103 ~---~~~~~~~~~~~~~~f~lsK~~El~DTvF~VLRKK--qvsFLHvYHH~~~~~~~w~~~~--~g~~~~~~~~~lNs~V 175 (272)
T PTZ00251 103 E---DEFYTGKVGVAMGLFSISKVPEFGDTFFLIMGGK--KLPFLSWFHHVTIFLYAWMSYQ--QGSSIWICAAAMNYFV 175 (272)
T ss_pred C---CcchhHHHHHHHHHHHHHHHHHHHhHhhhhhcCC--CchHHHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHH
Confidence 2 23 2346789999999999999999999999999 9999999999999999999764 4443333 58999999
Q ss_pred --------------------------------HHHHHHhhhhheec--------cCCCCch-HHHHHHHHHHHHHHHHHH
Q psy12645 144 --------------------------------QFVCILIHAFQLFF--------IECDYPK-AFAWWIGGHAVMFYFLFS 182 (218)
Q Consensus 144 --------------------------------QFv~~~~~~~~~~~--------~~C~~~~-~~~~~~~~~~~s~l~LF~ 182 (218)
||++++++..+.+. .+|+++. .....+.+++++|++||+
T Consensus 176 H~iMY~YY~lsa~g~~~~~~~~kk~IT~lQi~Qfv~~~~~~~~~~~~~~~~~~~~~C~~~~~~~~~~~~~~~~s~l~LF~ 255 (272)
T PTZ00251 176 HSIMYFYFALSEAGFKKLVKPFAMYITLLQITQMVGGLFVSGYVIVQKLTKGDPKGCSGTTMATARGQLMIYIFNFYLFS 255 (272)
T ss_pred HHHHHHHHHHHhcCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCCCchHHHHHHHHHHHHHHHHHHH
Confidence 99999887765542 3699887 667777889999999999
Q ss_pred HHHHHhhcCCCCCCC
Q psy12645 183 NFYKETYVKKPKKDG 197 (218)
Q Consensus 183 nFy~~sY~k~~~~~~ 197 (218)
|||+|+|.++|++++
T Consensus 256 ~Fy~~~Y~~~~~~~~ 270 (272)
T PTZ00251 256 EMFVKGYVLPRKAKA 270 (272)
T ss_pred HHHHHHhCCCCCCCC
Confidence 999999998765554
No 4
>KOG3072|consensus
Probab=100.00 E-value=6.4e-43 Score=303.53 Aligned_cols=185 Identities=19% Similarity=0.267 Sum_probs=154.9
Q ss_pred CCCCcceeccc--cccccccccccCCCCCccchhHHHHHHH-HhHHHHHhhhHh-------hh-ccCceeeecCCCCCCc
Q psy12645 2 ANWPECRDSSF--KPGRDSSFKLGRDRPSYSLQAIIIIINV-ASSMPKIQAMDG-------AW-YRDYSLRCEPVDYSTT 70 (218)
Q Consensus 2 ~~~~~~~~~~~--~~~~~~~~~~Mk~Rkp~~Lk~~l~~yN~-ls~~~~~~~~~~-------~~-~~~~~~~C~~~~~~~~ 70 (218)
++|+..+.-|. ++.++.||++|+|||||||++++.+||. +++++..+.++. .. .|.....|+..++..+
T Consensus 37 ~~~~~si~is~~Y~v~if~~q~fM~~RkpF~L~~pL~lWn~~La~FSi~g~lr~~~~~~~~~~~~Gf~~s~C~~~~~~~~ 116 (282)
T KOG3072|consen 37 EHWPLSIHISIAYLVLIFGGQNFMKNRKPFQLTKPLNLWNFCLAAFSILGALRTIPEFLAVFRAAGFKGSYCDANNLGLS 116 (282)
T ss_pred hccchhHHHHHHHHHHHHHHHHHHhcCCCCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhheeeeecccCCcc
Confidence 57888877776 8999999999999999999999999999 777766555543 23 3557889998875543
Q ss_pred cccchhhhhhhhhhhhhhhhhhhheeeeeecCCCceeEEeeeccchhhhhhhhhceecCCcceeehhhhhhHH-------
Q psy12645 71 PKAMRVARGCWWYFFSKFTEFFDTFFFVMRKKYDQVSTLHVIHHGVMPLSTWFGVKFTPGGHSTFFGLLNTFI------- 143 (218)
Q Consensus 71 ~~~~~~~~~~~~f~lSK~~El~DTvf~VLRKK~~qlsFLHvYHH~~~~~~~w~~~~~~~~g~~~~~~~lNs~V------- 143 (218)
. .++|+|+|.+||..|++||+|+||||| |++|||||||+++++++|.++.... +.+.|++.+|.+|
T Consensus 117 ~----~~fW~~~fvlSK~~ElgDT~FiVLRKr--PliFlHWYHHi~~~iy~~~~y~~~~-a~~rw~i~mNy~vHa~MY~Y 189 (282)
T KOG3072|consen 117 V----SGFWSWLFVLSKAPELGDTIFIVLRKR--PLIFLHWYHHILVLIYAWHSYIEKV-AWGRWFIWMNYLVHAFMYSY 189 (282)
T ss_pred h----HHHHHHHHHHHhhhhhhceeEEEeccC--ccEEEechhhheeeeeeeeecccCC-cCceEEEEEehhHHHHHHHH
Confidence 3 469999999999999999999999999 8999999999999999999998643 3458999999999
Q ss_pred ------------------------HHHHHHhhhhhe---ec-cC--CCCchHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q psy12645 144 ------------------------QFVCILIHAFQL---FF-IE--CDYPKAFAWWIGGHAVMFYFLFSNFYKETYVKKP 193 (218)
Q Consensus 144 ------------------------QFv~~~~~~~~~---~~-~~--C~~~~~~~~~~~~~~~s~l~LF~nFy~~sY~k~~ 193 (218)
||+++....... .. .+ |+.+.....++.+++++|++||+|||+++|+++.
T Consensus 190 Y~lrsl~ir~Pk~vam~iTtlQi~Qm~i~~~i~~~v~~~~~~~~~~c~~s~~~~~l~~~my~syfvLf~~Ff~~aYi~~g 269 (282)
T KOG3072|consen 190 YALRSLGIRLPKSVAMAITTLQIVQMVIGCYIGTHVYYVKHTHQLLCQQSYKNLSLCFLMYISYFVLFANFFYQAYIKKG 269 (282)
T ss_pred HHHHHcCCCCChHHHHHHHHHHHHHHHHHHheeeEEEEEEecCCeeeeeeccchhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 888876543322 22 22 9999988999999999999999999999999974
No 5
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=31.24 E-value=73 Score=19.85 Aligned_cols=26 Identities=12% Similarity=0.144 Sum_probs=21.3
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHH
Q psy12645 161 DYPKAFAWWIGGHAVMFYFLFSNFYK 186 (218)
Q Consensus 161 ~~~~~~~~~~~~~~~s~l~LF~nFy~ 186 (218)
+..+...+++........+||+++|.
T Consensus 13 ELNRTSLy~GlLlifvl~vLFssYff 38 (39)
T PRK00753 13 ELNRTSLYLGLLLVFVLGILFSSYFF 38 (39)
T ss_pred eechhhHHHHHHHHHHHHHHHHhhcc
Confidence 34567788899888999999999874
No 6
>CHL00038 psbL photosystem II protein L
Probab=28.98 E-value=1e+02 Score=19.11 Aligned_cols=26 Identities=19% Similarity=0.372 Sum_probs=21.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHH
Q psy12645 161 DYPKAFAWWIGGHAVMFYFLFSNFYK 186 (218)
Q Consensus 161 ~~~~~~~~~~~~~~~s~l~LF~nFy~ 186 (218)
+..+...+++........+||++++.
T Consensus 12 ELNRTSLy~GLLlifvl~vlfssyff 37 (38)
T CHL00038 12 ELNRTSLYWGLLLIFVLAVLFSNYFF 37 (38)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHhc
Confidence 34567788898888899999999875
No 7
>COG5548 Small integral membrane protein [Function unknown]
Probab=28.15 E-value=14 Score=27.85 Aligned_cols=21 Identities=19% Similarity=-0.029 Sum_probs=17.4
Q ss_pred ccccccccccccccCCCCCcc
Q psy12645 10 SSFKPGRDSSFKLGRDRPSYS 30 (218)
Q Consensus 10 ~~~~~~~~~~~~~Mk~Rkp~~ 30 (218)
.|-.+.+..+.|+||.|||..
T Consensus 62 ~s~~Ll~~~~~R~~~sRKpvP 82 (105)
T COG5548 62 VSAALLVFFALRLVRSRKPVP 82 (105)
T ss_pred HHHHHHHhcchhccccCCCcc
Confidence 444777889999999999975
No 8
>PF14826 FACT-Spt16_Nlob: FACT complex subunit SPT16 N-terminal lobe domain; PDB: 3BIQ_A 3BIT_A 3BIP_A 3CB6_A 3CB5_A.
Probab=27.07 E-value=30 Score=28.18 Aligned_cols=27 Identities=33% Similarity=0.427 Sum_probs=16.3
Q ss_pred hhhhhhhhhhhhhhhhhhheeeeeecCCCceeEE
Q psy12645 76 VARGCWWYFFSKFTEFFDTFFFVMRKKYDQVSTL 109 (218)
Q Consensus 76 ~~~~~~~f~lSK~~El~DTvf~VLRKK~~qlsFL 109 (218)
.+.-.|++= +||-||++++.+++ +.||
T Consensus 48 ~aLq~WLlG----YEfpdTiiv~tk~~---i~~l 74 (163)
T PF14826_consen 48 TALQTWLLG----YEFPDTIIVFTKKK---IHFL 74 (163)
T ss_dssp HHHHHHHHS----S--SSEEEEEETTE---EEEE
T ss_pred HHHHHHHhc----ccHhhhhhhhcCCE---EEEE
Confidence 344456653 39999999888665 6554
No 9
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 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. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=22.08 E-value=1.5e+02 Score=18.33 Aligned_cols=24 Identities=17% Similarity=0.325 Sum_probs=19.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHH
Q psy12645 163 PKAFAWWIGGHAVMFYFLFSNFYK 186 (218)
Q Consensus 163 ~~~~~~~~~~~~~s~l~LF~nFy~ 186 (218)
.+...+++........+||++++.
T Consensus 13 NRTSLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 13 NRTSLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHhHHHHHHHHHHHHHHhhhhhc
Confidence 455678888888889999999875
No 10
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=16.27 E-value=1.5e+02 Score=20.39 Aligned_cols=15 Identities=20% Similarity=0.248 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHH
Q psy12645 171 GGHAVMFYFLFSNFY 185 (218)
Q Consensus 171 ~~~~~s~l~LF~nFy 185 (218)
++..+||++||++|=
T Consensus 12 iVLLISfiIlfgRl~ 26 (59)
T PF11119_consen 12 IVLLISFIILFGRLI 26 (59)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345678999998653
Done!