Query 027124
Match_columns 228
No_of_seqs 70 out of 72
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 05:18:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027124.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027124hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3236 Predicted membrane pro 100.0 3.7E-79 8.1E-84 527.7 19.2 221 1-228 1-225 (225)
2 PF09767 DUF2053: Predicted me 100.0 2.3E-69 4.9E-74 453.8 16.7 159 2-162 1-159 (159)
3 PF01889 DUF63: Membrane prote 59.2 1.5E+02 0.0033 27.4 13.6 107 58-172 13-119 (273)
4 COG0733 Na+-dependent transpor 48.5 93 0.002 30.8 8.2 63 163-225 165-242 (439)
5 PF10086 DUF2324: Putative mem 30.9 3.8E+02 0.0083 23.8 9.1 122 38-164 27-186 (223)
6 COG5196 ERD2 ER lumen protein 28.4 4.3E+02 0.0093 23.6 8.3 72 71-155 3-75 (214)
7 PF11712 Vma12: Endoplasmic re 27.9 3.3E+02 0.0072 22.1 7.2 37 129-165 68-104 (142)
8 PRK13183 psbN photosystem II r 25.0 41 0.00088 23.6 1.1 23 206-228 13-35 (46)
9 PF02468 PsbN: Photosystem II 22.9 89 0.0019 21.5 2.5 22 207-228 11-32 (43)
10 CHL00020 psbN photosystem II p 21.1 45 0.00098 23.0 0.7 23 206-228 10-32 (43)
11 PF14576 SEO_N: Sieve element 20.4 86 0.0019 29.4 2.6 54 28-84 124-183 (286)
No 1
>KOG3236 consensus Predicted membrane protein [Function unknown]
Probab=100.00 E-value=3.7e-79 Score=527.73 Aligned_cols=221 Identities=46% Similarity=0.699 Sum_probs=209.1
Q ss_pred CcchhhHhHHHHhhhceeeeeeccCccccccchhHHHHHHHHHHHHHHHHHHHhhccccCCCCCCchHHHHHHHHHHHHH
Q 027124 1 MTVFHFFNCAILTFGPHAVYYSATPLSEYDTLGTSVKAALVYLGTALVKLVCLATFLKVSETDNFDPYQELLKALIGFID 80 (228)
Q Consensus 1 MT~~HF~NC~aL~f~Py~i~Yk~s~LsEy~~~~~c~~a~~~Yl~TQl~Kml~LATf~P~~~~~~f~~~~e~lk~~v~~iD 80 (228)
||+|||+||++|+|+||+++||+||+|||+++|||+|+++.|++||++||+++|||||+.|++.||+++|++|+++|++|
T Consensus 1 mtlFhf~Ncfal~~~py~~~yk~sglsey~~~wkcv~a~~~yl~tqL~klL~lAtff~~~~s~~f~~~~e~LK~s~di~d 80 (225)
T KOG3236|consen 1 MTLFHFGNCFALAFAPYFITYKYSGLSEYSAFWKCVQAGGGYLFTQLVKMLILATFFPALESGGFDFVPEFLKCSADIAD 80 (225)
T ss_pred CceeeccceeecccCceEEEEeccCccccCcchHHHHHhHHHHHHHHHHHHHHHHhhhcccccccchHHHHHHhhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhccccCCCCCceeEeeehhhhhHHHHHhhhhhhhhccCCccchHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 027124 81 VAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWVGARGLEFTWDYLLQGLEANANLVLSISLAALGSLMW 160 (228)
Q Consensus 81 l~Gly~vL~~~~~~~~~~~~ril~~GlGWa~ae~v~trl~plwvgaRg~eF~Wkyi~~slesNi~Lv~~is~a~L~~~mw 160 (228)
++|+++++++.++ |+|+|++++|+||++||++++|+.||||||||+||||+|+|+|+|||.||+|+++++++ .||.
T Consensus 81 l~Gl~li~s~~~~---~~~~k~~~~gLGWafA~sVlhRlipLWVGARG~eFtW~yVl~~LesN~~Lv~~I~la~l-~w~i 156 (225)
T KOG3236|consen 81 LIGLHLIMSRFPG---KGEVKFVVAGLGWAFAESVLHRLIPLWVGARGTEFTWDYVLQSLESNANLVQIISLAAL-GWMI 156 (225)
T ss_pred HhhHHHHHhcCCC---CCceeEEEeechHHHHHHHHHhhhHhhccccCceeEHHHHHHHhccCccHhhhhHHHHH-HHHh
Confidence 9999999999999 46999999999999999999999999999999999999999999999999999999999 8999
Q ss_pred HhcCCCCcchhHHHHHHHHHhhhhhHHHHHHhhc---CCcchhhHHHHHHHHHHHHHHHHHHHH-hcCCCCC
Q 027124 161 LRKNKPKTLIPIIYACAGIVATMPSITSYLRRGL---GWQFPKVVGFELFTSLVMAFISWQLFS-ACQRPSA 228 (228)
Q Consensus 161 ~R~~~~~~~~p~v~~l~~~~~~~~~i~~~~~~~~---~w~~~~~l~~~~~~s~~~~~~tl~~y~-~~~~~~~ 228 (228)
+|+|+++..+|.|..++..++++.++.|...|.. ||. .+++|+++|++||++|+|+|+ .+|||+.
T Consensus 157 tr~d~~~~~~p~Vsli~~~aV~~a~~~~~~~hl~~l~gW~---~v~f~~a~s~vmaf~t~~ly~~l~qr~sl 225 (225)
T KOG3236|consen 157 TRTDLKFLFRPAVSLILACAVFKAFVPETTSHLKSLGGWH---FVAFRAAVSLVMAFITLQLYSALCQRPSL 225 (225)
T ss_pred eeccccccccchhHHHHHHHHHHHHHHHHHHHHHhcccHH---HHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 9999999987777777777776666666666644 888 899999999999999999999 8999974
No 2
>PF09767 DUF2053: Predicted membrane protein (DUF2053); InterPro: IPR019164 This family of proteins is conserved from plants to humans. The function is unknown although some annotation suggests that it is a transmembrane protein.
Probab=100.00 E-value=2.3e-69 Score=453.80 Aligned_cols=159 Identities=44% Similarity=0.817 Sum_probs=154.8
Q ss_pred cchhhHhHHHHhhhceeeeeeccCccccccchhHHHHHHHHHHHHHHHHHHHhhccccCCCCCCchHHHHHHHHHHHHHH
Q 027124 2 TVFHFFNCAILTFGPHAVYYSATPLSEYDTLGTSVKAALVYLGTALVKLVCLATFLKVSETDNFDPYQELLKALIGFIDV 81 (228)
Q Consensus 2 T~~HF~NC~aL~f~Py~i~Yk~s~LsEy~~~~~c~~a~~~Yl~TQl~Kml~LATf~P~~~~~~f~~~~e~lk~~v~~iDl 81 (228)
|||||+||++|+|+||+++||+||||||+++|+|+|++++|++||+|||+++|||+|++|+++||+++|++|+++|++|+
T Consensus 1 t~~hf~nC~aL~~~Py~i~Yk~s~LsE~~~~~~~~~~~~~Y~~tql~Kml~lATf~P~~~~~~~~~~~eilk~~~d~~Dl 80 (159)
T PF09767_consen 1 TFFHFINCLALAYGPYFIVYKYSGLSEYGAFWKCLQAGIGYILTQLCKMLLLATFFPSSDSSTFDFIQEILKSSVDLIDL 80 (159)
T ss_pred CeehHHHHHHHHhccCeeeecccCccccccHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccchHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccccCCCCCceeEeeehhhhhHHHHHhhhhhhhhccCCccchHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Q 027124 82 AGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWVGARGLEFTWDYLLQGLEANANLVLSISLAALGSLMWL 161 (228)
Q Consensus 82 ~Gly~vL~~~~~~~~~~~~ril~~GlGWa~ae~v~trl~plwvgaRg~eF~Wkyi~~slesNi~Lv~~is~a~L~~~mw~ 161 (228)
+|+|+++++ +..+.|+|+|++++|+||++||+++||++|+|+||||.||||||+|+|+|||+++++++++++| +|||+
T Consensus 81 ~gi~~il~~-~~~~~~~~~ril~~glGWa~ae~l~tr~~plwvgarg~eF~wkyi~~sl~SNi~li~~is~a~L-vwl~~ 158 (159)
T PF09767_consen 81 IGIYLILSS-KANAGKGESRILAIGLGWAFAESLLTRFLPLWVGARGSEFDWKYIQMSLESNISLIQTISLAAL-VWLWT 158 (159)
T ss_pred HHHHHHHhC-cccCCCcceeEEEEeeeeehHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHH-HHHHc
Confidence 999999999 3334589999999999999999999999999999999999999999999999999999999999 99999
Q ss_pred h
Q 027124 162 R 162 (228)
Q Consensus 162 R 162 (228)
|
T Consensus 159 R 159 (159)
T PF09767_consen 159 R 159 (159)
T ss_pred C
Confidence 8
No 3
>PF01889 DUF63: Membrane protein of unknown function DUF63; InterPro: IPR002749 These proteins of unknown function are found in archaebacteria and are probably transmembrane proteins.
Probab=59.15 E-value=1.5e+02 Score=27.43 Aligned_cols=107 Identities=22% Similarity=0.266 Sum_probs=72.0
Q ss_pred ccCCCCCCchHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCceeEeeehhhhhHHHHHhhhhhhhhccCCccchHHHHH
Q 027124 58 KVSETDNFDPYQELLKALIGFIDVAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWVGARGLEFTWDYLL 137 (228)
Q Consensus 58 P~~~~~~f~~~~e~lk~~v~~iDl~Gly~vL~~~~~~~~~~~~ril~~GlGWa~ae~v~trl~plwvgaRg~eF~Wkyi~ 137 (228)
|.-.+++|++.+|+.-+++=.+-+.++|..+++. +++-|.|+.-+.+=|-..-+.++-+-. +.-.+..|.|+.
T Consensus 13 pi~~~~GYn~Vnt~~YaiiL~~~v~~v~~ll~~l---~i~id~~f~~al~P~m~~G~~lRvleD----~g~~~~p~~~L~ 85 (273)
T PF01889_consen 13 PIYYGPGYNPVNTLTYAIILGVAVIGVYKLLKRL---RIKIDERFVLALIPFMLFGGALRVLED----AGAIPPPLSYLF 85 (273)
T ss_pred ccccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHc---CCCCchhhhhhhhhHHHHHHHHHhhee----cccCCCcchhhe
Confidence 5566789999999999999999999999999873 446788988888888888877766655 223444666654
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHHHhcCCCCcchhH
Q 027124 138 QGLEANANLVLSISLAALGSLMWLRKNKPKTLIPI 172 (228)
Q Consensus 138 ~slesNi~Lv~~is~a~L~~~mw~R~~~~~~~~p~ 172 (228)
-+=--- -++.-++.+++.+-.+.+++.++..++.
T Consensus 86 iTP~IY-f~vf~~~~~~l~vs~~l~~~~~~y~~~~ 119 (273)
T PF01889_consen 86 ITPGIY-FLVFFIAIAALLVSVKLERRGKDYYRPL 119 (273)
T ss_pred eCcHHH-HHHHHHHHHHHHHHHHHHhCCCchhhhH
Confidence 432221 2344555566544445544444445554
No 4
>COG0733 Na+-dependent transporters of the SNF family [General function prediction only]
Probab=48.47 E-value=93 Score=30.84 Aligned_cols=63 Identities=17% Similarity=0.099 Sum_probs=41.7
Q ss_pred cCCCCcch---hHHHHHHHHHhh----hhhHHHHHHhhc--------CCcchhhHHHHHHHHHHHHHHHHHHHHhcCC
Q 027124 163 KNKPKTLI---PIIYACAGIVAT----MPSITSYLRRGL--------GWQFPKVVGFELFTSLVMAFISWQLFSACQR 225 (228)
Q Consensus 163 ~~~~~~~~---p~v~~l~~~~~~----~~~i~~~~~~~~--------~w~~~~~l~~~~~~s~~~~~~tl~~y~~~~~ 225 (228)
|.-+|.++ |.++.++.+.+. .|...|.++..+ .+..|.----++.+|+++|...+..|++-=+
T Consensus 165 ~GIEk~~kimMP~Lfvl~i~Lvi~~~tLpGA~~G~~f~l~PD~s~l~~~~v~~~AlGQ~FFsLSlG~g~mitYsSYL~ 242 (439)
T COG0733 165 KGIEKANKIMMPLLFVLFIILVIRAVTLPGAMEGLKFLFKPDFSKLTDPKVWLAALGQAFFSLSLGFGIMITYSSYLS 242 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHcCccHHHHHHHHhcCCHHHcCchhhHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 44445443 887777666664 555566655533 2444445556789999999999999987533
No 5
>PF10086 DUF2324: Putative membrane peptidase family (DUF2324); InterPro: IPR011397 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins (with several transmembrane segments).
Probab=30.90 E-value=3.8e+02 Score=23.77 Aligned_cols=122 Identities=20% Similarity=0.268 Sum_probs=70.4
Q ss_pred HHHHHHH-HHHHHHHHHhhccccCCC-CCC----chHHHHHHHHHHHHHH----HHHHHHHhhccccCCCCCceeEeeeh
Q 027124 38 AALVYLG-TALVKLVCLATFLKVSET-DNF----DPYQELLKALIGFIDV----AGLYFALTQLTHRNISQNHKFQAVGL 107 (228)
Q Consensus 38 a~~~Yl~-TQl~Kml~LATf~P~~~~-~~f----~~~~e~lk~~v~~iDl----~Gly~vL~~~~~~~~~~~~ril~~Gl 107 (228)
++..+.+ .|+.+..+....++.... ... -.+.-..-.+.++.+= +|..+.+.+... .+.+-+..|+
T Consensus 27 Ga~~F~v~~~vle~~l~~~~~~~~~~~~~~~~~~~l~~ly~~l~AGiFEE~gR~i~~k~l~kk~~~----~~~~al~~Gl 102 (223)
T PF10086_consen 27 GALVFFVFAQVLELPLHQIVLSPNADGLIWTSNPILYALYGGLMAGIFEETGRYIGFKYLLKKRRD----WSDDALAYGL 102 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcchhhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc----hhhHHHHHHc
Confidence 4445554 577777777766554322 211 1122233334444444 455554443221 1224788999
Q ss_pred hhhhHHHHHhhhh---h----hhhccCCc-c--------------------chHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 027124 108 GWAFADSVLHRLA---P----LWVGARGL-E--------------------FTWDYLLQGLEANANLVLSISLAALGSLM 159 (228)
Q Consensus 108 GWa~ae~v~trl~---p----lwvgaRg~-e--------------------F~Wkyi~~slesNi~Lv~~is~a~L~~~m 159 (228)
|.+..|.++=-.+ + .+.-.+|. | =.|.+....+|==..++.|++++.+ +|.
T Consensus 103 GhGg~Eailvg~~~~l~~~v~~~~in~g~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~ERi~Al~~hi~lSvl-V~~ 181 (223)
T PF10086_consen 103 GHGGIEAILVGGLSLLNNLVLAMMINSGSLDQLLEQPAELLEQIQSALASLPPWSFLLGGVERIFALLFHIGLSVL-VWY 181 (223)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhhHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHH-HHH
Confidence 9999998765432 2 22222332 1 2577888888888999999999998 766
Q ss_pred HHhcC
Q 027124 160 WLRKN 164 (228)
Q Consensus 160 w~R~~ 164 (228)
--|++
T Consensus 182 av~~~ 186 (223)
T PF10086_consen 182 AVRQR 186 (223)
T ss_pred HHHhC
Confidence 55655
No 6
>COG5196 ERD2 ER lumen protein retaining receptor [Intracellular trafficking and secretion]
Probab=28.39 E-value=4.3e+02 Score=23.64 Aligned_cols=72 Identities=15% Similarity=0.235 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhc-cccCCCCCceeEeeehhhhhHHHHHhhhhhhhhccCCccchHHHHHHHHhhhHHHHHH
Q 027124 71 LLKALIGFIDVAGLYFALTQL-THRNISQNHKFQAVGLGWAFADSVLHRLAPLWVGARGLEFTWDYLLQGLEANANLVLS 149 (228)
Q Consensus 71 ~lk~~v~~iDl~Gly~vL~~~-~~~~~~~~~ril~~GlGWa~ae~v~trl~plwvgaRg~eF~Wkyi~~slesNi~Lv~~ 149 (228)
..+.+.|+..+..+...++++ ..|+.+|-+ .-----.+-+..+|.+.+. +|.|+-+++++- .++..
T Consensus 3 ~Fr~lGD~~Hlasi~vLih~ik~tr~csGlS----lKtq~Ly~lVfitRYldLf------~f~~~slYn~lM---ki~FI 69 (214)
T COG5196 3 TFRFLGDFLHLASIAVLIHKIKRTRSCSGLS----LKTQFLYSLVFITRYLDLF------DFYARSLYNSLM---KILFI 69 (214)
T ss_pred HHHHHhHHHHHHHHHHHHHHhhhcceeccee----hHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHH---HHHHH
Confidence 356788889999999888883 444433210 0011224455678888886 788888887764 44445
Q ss_pred HHHHHH
Q 027124 150 ISLAAL 155 (228)
Q Consensus 150 is~a~L 155 (228)
.+.+..
T Consensus 70 ~s~~yI 75 (214)
T COG5196 70 GSQVYI 75 (214)
T ss_pred HHHHHH
Confidence 555554
No 7
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=27.88 E-value=3.3e+02 Score=22.14 Aligned_cols=37 Identities=11% Similarity=0.112 Sum_probs=29.8
Q ss_pred ccchHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhcCC
Q 027124 129 LEFTWDYLLQGLEANANLVLSISLAALGSLMWLRKNK 165 (228)
Q Consensus 129 ~eF~Wkyi~~slesNi~Lv~~is~a~L~~~mw~R~~~ 165 (228)
.+-+||-+.+.+..=+|.+.++..+....|.|.++.-
T Consensus 68 ~~~~~k~~~~qls~v~Nilvsv~~~~~~~~~~~~~~~ 104 (142)
T PF11712_consen 68 PAQELKSVKRQLSTVFNILVSVFAVFFAGWYWAGYSF 104 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3578999999888888888888888877898987543
No 8
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=25.01 E-value=41 Score=23.55 Aligned_cols=23 Identities=17% Similarity=0.468 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCC
Q 027124 206 LFTSLVMAFISWQLFSACQRPSA 228 (228)
Q Consensus 206 ~~~s~~~~~~tl~~y~~~~~~~~ 228 (228)
.+..+.+|+..+.+|.+.|.|+.
T Consensus 13 ~i~~lL~~~TgyaiYtaFGppSk 35 (46)
T PRK13183 13 TILAILLALTGFGIYTAFGPPSK 35 (46)
T ss_pred HHHHHHHHHhhheeeeccCCccc
Confidence 46677899999999999999974
No 9
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 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 PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=22.95 E-value=89 Score=21.55 Aligned_cols=22 Identities=18% Similarity=0.520 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHhcCCCCC
Q 027124 207 FTSLVMAFISWQLFSACQRPSA 228 (228)
Q Consensus 207 ~~s~~~~~~tl~~y~~~~~~~~ 228 (228)
+..+.+|+..+.+|.+.|.|+.
T Consensus 11 i~~~lv~~Tgy~iYtaFGppSk 32 (43)
T PF02468_consen 11 ISCLLVSITGYAIYTAFGPPSK 32 (43)
T ss_pred HHHHHHHHHhhhhhheeCCCcc
Confidence 5567889999999999998873
No 10
>CHL00020 psbN photosystem II protein N
Probab=21.09 E-value=45 Score=23.01 Aligned_cols=23 Identities=26% Similarity=0.670 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCC
Q 027124 206 LFTSLVMAFISWQLFSACQRPSA 228 (228)
Q Consensus 206 ~~~s~~~~~~tl~~y~~~~~~~~ 228 (228)
.+.++.+|+..+.+|.+.|.|+.
T Consensus 10 ~i~~ll~~~Tgy~iYtaFGppSk 32 (43)
T CHL00020 10 FISGLLVSFTGYALYTAFGQPSK 32 (43)
T ss_pred HHHHHHHHhhheeeeeccCCchh
Confidence 45677889999999999999973
No 11
>PF14576 SEO_N: Sieve element occlusion N-terminus
Probab=20.39 E-value=86 Score=29.39 Aligned_cols=54 Identities=20% Similarity=0.229 Sum_probs=38.8
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHhhccccC------CCCCCchHHHHHHHHHHHHHHHHH
Q 027124 28 EYDTLGTSVKAALVYLGTALVKLVCLATFLKVS------ETDNFDPYQELLKALIGFIDVAGL 84 (228)
Q Consensus 28 Ey~~~~~c~~a~~~Yl~TQl~Kml~LATf~P~~------~~~~f~~~~e~lk~~v~~iDl~Gl 84 (228)
||+.||-..|- |--.||.|.+.+---+|.- ....|+.+++++|...|+...+-=
T Consensus 124 ~YGeFwlLaq~---~~~n~LakSlA~LkqlP~i~~~~~~lk~r~~~ln~LVk~mldV~~cIie 183 (286)
T PF14576_consen 124 EYGEFWLLAQI---YPTNPLAKSLAILKQLPDILEHSDSLKPRFDALNNLVKAMLDVTKCIIE 183 (286)
T ss_pred HhhhHHHHhhh---cccCHHHHHHHHHhcchhhhhhhhcccchhHHHHHHHHHHHHHHHHHHH
Confidence 67777776664 6667999999777777742 125677888999988888776543
Done!