Query 039593
Match_columns 144
No_of_seqs 22 out of 24
Neff 1.8
Searched_HMMs 46136
Date Fri Mar 29 11:09:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039593.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039593hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11169 DUF2956: Protein of u 84.2 0.72 1.6E-05 35.0 1.9 15 125-139 88-102 (103)
2 PF03189 Otopetrin: Otopetrin; 72.9 13 0.00029 32.6 6.5 75 61-139 243-329 (441)
3 PF00211 Guanylate_cyc: Adenyl 61.1 2.6 5.6E-05 29.9 -0.1 44 16-61 104-151 (184)
4 cd03381 PAP2_glucose_6_phospha 55.7 94 0.002 25.5 8.0 74 54-134 67-149 (235)
5 PF08636 Pkr1: ER protein Pkr1 52.0 14 0.00031 26.4 2.4 28 46-75 16-43 (75)
6 PF14037 YoqO: YoqO-like prote 50.0 11 0.00023 29.1 1.6 25 113-141 23-47 (117)
7 cd07302 CHD cyclase homology d 45.2 7.3 0.00016 26.3 0.1 40 16-55 99-142 (177)
8 KOG1519 Predicted mitochondria 43.9 12 0.00026 32.5 1.2 55 33-89 190-252 (297)
9 smart00044 CYCc Adenylyl- / gu 43.8 9 0.0002 27.7 0.4 40 16-55 134-177 (194)
10 cd03384 PAP2_wunen PAP2, wunen 42.9 1.4E+02 0.0029 22.1 7.5 78 51-135 64-149 (150)
11 PRK13735 conjugal transfer mat 38.0 68 0.0015 31.7 5.3 72 28-109 1-74 (942)
12 PF04547 Anoctamin: Calcium-ac 37.6 80 0.0017 26.7 5.1 45 67-118 27-79 (452)
13 PF06298 PsbY: Photosystem II 31.2 48 0.001 21.1 2.2 15 121-135 8-22 (36)
14 PF14975 DUF4512: Domain of un 28.6 67 0.0015 23.7 2.8 34 91-124 4-38 (88)
15 cd03205 GST_C_6 GST_C family, 27.7 64 0.0014 21.0 2.4 37 105-143 48-88 (98)
16 KOG4474 Uncharacterized conser 27.1 77 0.0017 27.2 3.4 37 7-46 49-85 (253)
17 PF13903 Claudin_2: PMP-22/EMP 26.9 1.1E+02 0.0025 21.0 3.7 58 63-120 78-140 (172)
18 CHL00196 psbY photosystem II p 24.7 74 0.0016 20.4 2.2 15 121-135 8-22 (36)
19 PRK13240 pbsY photosystem II p 23.5 79 0.0017 20.5 2.2 15 121-135 8-22 (40)
20 PF09919 DUF2149: Uncharacteri 23.2 76 0.0017 22.9 2.3 18 63-80 10-27 (92)
21 PF03661 UPF0121: Uncharacteri 23.2 4.1E+02 0.0089 21.5 7.1 70 61-133 29-105 (247)
22 PRK05784 phosphoribosylamine-- 22.4 47 0.001 29.5 1.3 8 136-143 460-467 (486)
23 PF13127 DUF3955: Protein of u 21.5 1.1E+02 0.0023 20.7 2.6 21 62-82 43-63 (63)
24 PF10177 DUF2371: Uncharacteri 21.4 11 0.00023 29.6 -2.6 19 61-79 107-125 (141)
25 PF01569 PAP2: PAP2 superfamil 21.1 2.5E+02 0.0055 18.4 6.4 99 37-142 27-127 (129)
26 PF07695 7TMR-DISM_7TM: 7TM di 20.6 3.1E+02 0.0067 19.1 8.2 31 63-94 72-102 (205)
27 PF13131 DUF3951: Protein of u 20.3 75 0.0016 22.0 1.7 25 64-89 14-38 (53)
28 KOG2887 Membrane protein invol 20.1 1.5E+02 0.0033 24.3 3.7 41 62-102 55-95 (175)
No 1
>PF11169 DUF2956: Protein of unknown function (DUF2956); InterPro: IPR021339 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=84.18 E-value=0.72 Score=35.03 Aligned_cols=15 Identities=40% Similarity=0.806 Sum_probs=13.2
Q ss_pred HHHHHHHHHHhhhhc
Q 039593 125 LALALSWVFFLVYSW 139 (144)
Q Consensus 125 i~lalSWvffLvysw 139 (144)
++|++||+.|.+|-+
T Consensus 88 ~LL~lSW~gF~~Y~~ 102 (103)
T PF11169_consen 88 GLLVLSWIGFIAYIF 102 (103)
T ss_pred HHHHHHHHHHHHHHH
Confidence 489999999999964
No 2
>PF03189 Otopetrin: Otopetrin; InterPro: IPR004878 The otopetrins are a group of proteins that are restricted to the metazoa. The structure of otopetrin-1 (Q80VM9 from SWISSPROT) shows it to have 12 transmembrane domains, with three conserved sub-domains (OD-1 to OD-III) []. Otopetrins modulate calcium homeostasis and influx of calcium in response to extracellular ATP. The otopetrins are required for normal formation of otoconia/otoliths in the inner ear. Otoconia are minute biomineral particles embedded in a gelatinous membrane that overlies the sensory epithelium in the inner ear. Gravity and acceleration cause the octoconia to deflect the stereocilia of sensory hair cells. Otoconia are required for normal processing of information regarding spatial orientation and acceleration.
Probab=72.93 E-value=13 Score=32.59 Aligned_cols=75 Identities=21% Similarity=0.432 Sum_probs=49.2
Q ss_pred hhhHHHHHHHHHHHHHHHh--cchhhhh-----hhhhhh-----HhHHHHHHHHHHHHHhhhhhhhhccchhhHHHHHHH
Q 039593 61 FAGLLLFVVGFLLFMVAFV--KDAEFQS-----FFAKGC-----MLVHVSMALWRVVFERRLADLAWDWPRQVVGDLALA 128 (144)
Q Consensus 61 FsGlLLF~iGfllfMVafV--kdrefqs-----Ffakgc-----~~lhv~ma~WR~~Ferk~edLA~dwprq~vGDi~la 128 (144)
|.|++++++|++.+++.+| +|++++. +..-.+ .++=+..|+|| -|+++- ....|...+.|++|-
T Consensus 243 f~Gil~lv~tii~lilf~v~~~~~~~~~~A~~~~~i~~~~l~~l~~~a~i~g~~~---~r~l~~-~~~~~~~~LD~iLL~ 318 (441)
T PF03189_consen 243 FLGILVLVATIIVLILFFVLINDPEYSELAILLVYIFELVLYSLSILAVIIGIYR---MRKLKF-SSKNPGRSLDVILLV 318 (441)
T ss_pred HHHHHHHHHHHHHhehhhheecCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhccc-cccCccccHhHHHHH
Confidence 6788888888888888765 4555422 122222 22334455665 344433 446899999999999
Q ss_pred HHHHHHhhhhc
Q 039593 129 LSWVFFLVYSW 139 (144)
Q Consensus 129 lSWvffLvysw 139 (144)
.+=.-..+|+|
T Consensus 319 va~~G~~ly~~ 329 (441)
T PF03189_consen 319 VAAFGEFLYSY 329 (441)
T ss_pred HHHHHHHHHHH
Confidence 99888888876
No 3
>PF00211 Guanylate_cyc: Adenylate and Guanylate cyclase catalytic domain; InterPro: IPR001054 Guanylate cyclases (4.6.1.2 from EC) catalyse the formation of cyclic GMP (cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating cGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particulate fractions of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties [, , , ]. Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits. In all characterised eukaryote guanylyl- and adenylyl cyclases, cyclic nucleotide synthesis is carried out by the conserved class III cyclase domain. ; GO: 0016849 phosphorus-oxygen lyase activity, 0009190 cyclic nucleotide biosynthetic process, 0035556 intracellular signal transduction; PDB: 3UVJ_A 1FX4_A 1WC4_B 2BW7_D 1WC1_A 1WC0_A 1WC3_A 1WC5_A 1WC6_A 3ET6_B ....
Probab=61.10 E-value=2.6 Score=29.90 Aligned_cols=44 Identities=30% Similarity=0.453 Sum_probs=33.7
Q ss_pred HHHhhcceeeeee----eeeeeeecchhhhHhhhCCCccchhhhhhccch
Q 039593 16 ISITCGSSIMFYL----KEMYVIGHGVETAQKLTGSTPHDQLLIQISNSF 61 (144)
Q Consensus 16 iAlT~G~LmmFy~----kei~vfgHG~etA~KL~GSTPhDqlLIqtSdSF 61 (144)
|++++|-.+.-.. .+..++|...+.|.+|...+|.++.+| |++.
T Consensus 104 IGI~~G~v~~g~~G~~~~~~~v~G~~vn~Aarl~~~a~~~~i~v--s~~v 151 (184)
T PF00211_consen 104 IGIHTGPVVVGVVGSRRPEYDVFGDAVNIAARLESLAPPGQILV--SEEV 151 (184)
T ss_dssp EEEEEEEEEEEEEESSSEEEEEESHHHHHHHHHHHTSSTTSEEE--EHHH
T ss_pred ccccccccccccccCcccceeeeehhhhhhHHHHHhhccccccc--CHHH
Confidence 4566776655433 567999999999999999999998777 5543
No 4
>cd03381 PAP2_glucose_6_phosphatase PAP2_like proteins, glucose-6-phosphatase subfamily. Glucose-6-phosphatase converts glucose-6-phosphate into free glucose and is active in the lumen of the endoplasmic reticulum, where it is bound to the membrane. The generation of free glucose is an important control point in metabolism, and stands at the end of gluconeogenesis and the release of glucose from glycogen. Deficiency of glucose-6-phosphatase leads to von Gierke's disease.
Probab=55.74 E-value=94 Score=25.51 Aligned_cols=74 Identities=18% Similarity=0.169 Sum_probs=46.3
Q ss_pred hhhhccch-hhHHHHHHHHHHHHHHHh----cch----hhhhhhhhhhHhHHHHHHHHHHHHHhhhhhhhhccchhhHHH
Q 039593 54 LIQISNSF-AGLLLFVVGFLLFMVAFV----KDA----EFQSFFAKGCMLVHVSMALWRVVFERRLADLAWDWPRQVVGD 124 (144)
Q Consensus 54 LIqtSdSF-sGlLLF~iGfllfMVafV----kdr----efqsFfakgc~~lhv~ma~WR~~Ferk~edLA~dwprq~vGD 124 (144)
--.|+.|| ||=..-+.++..+|+..+ +.| ..+....-.+..+=+.+++=|+| |+..||-|++|=
T Consensus 67 ~c~tgysfPSGHam~a~a~~~~l~~~l~~~~~~r~~~~~~~~~~~~~~~~~~~~V~~SRvY-------LgvHfpsDVlaG 139 (235)
T cd03381 67 TCETGPGSPSGHAMGTTAVLLVMVTALLSHLAGRKRSRFLRVMLWLVFWGVQLAVCLSRIY-------LAAHFPHQVIAG 139 (235)
T ss_pred ccCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhccchhhHHHHHHHHHHHHHHHHHHHHHHh-------hcCCCHHHHHHH
Confidence 34566666 666665655555544332 322 22222334445555667777887 688999999999
Q ss_pred HHHHHHHHHH
Q 039593 125 LALALSWVFF 134 (144)
Q Consensus 125 i~lalSWvff 134 (144)
+++++.|...
T Consensus 140 ~~lGi~~~~~ 149 (235)
T cd03381 140 VISGIAVAET 149 (235)
T ss_pred HHHHHHHHHH
Confidence 9999887653
No 5
>PF08636 Pkr1: ER protein Pkr1; InterPro: IPR013945 Pkr1 has been identified as an ER protein of unknown function.
Probab=51.99 E-value=14 Score=26.37 Aligned_cols=28 Identities=39% Similarity=0.745 Sum_probs=22.3
Q ss_pred CCCccchhhhhhccchhhHHHHHHHHHHHH
Q 039593 46 GSTPHDQLLIQISNSFAGLLLFVVGFLLFM 75 (144)
Q Consensus 46 GSTPhDqlLIqtSdSFsGlLLF~iGfllfM 75 (144)
|+|| ++++-|.-||.+|++.-++.+..+
T Consensus 16 G~tp--~li~a~n~sF~~L~~~l~~Ll~~t 43 (75)
T PF08636_consen 16 GTTP--TLIIATNVSFAALFLVLLALLFLT 43 (75)
T ss_pred CCCh--HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4565 899999999999998877766544
No 6
>PF14037 YoqO: YoqO-like protein
Probab=50.00 E-value=11 Score=29.09 Aligned_cols=25 Identities=32% Similarity=0.751 Sum_probs=21.5
Q ss_pred hhhccchhhHHHHHHHHHHHHHhhhhccc
Q 039593 113 LAWDWPRQVVGDLALALSWVFFLVYSWRE 141 (144)
Q Consensus 113 LA~dwprq~vGDi~lalSWvffLvyswre 141 (144)
++-||-.+ |+-+.+-||-++|.|.|
T Consensus 23 ~~~e~i~~----I~~~~~fVFillY~wd~ 47 (117)
T PF14037_consen 23 SKSEWISH----IACVGGFVFILLYNWDE 47 (117)
T ss_pred cchhhHHH----HHHHHHHHHHHhhhhHH
Confidence 46678766 89999999999999987
No 7
>cd07302 CHD cyclase homology domain. Catalytic domains of the mononucleotidyl cyclases (MNC's), also called cyclase homology domains (CHDs), are part of the class III nucleotidyl cyclases. This class includes eukaryotic and prokaryotic adenylate cyclases (AC's) and guanylate cyclases (GC's). They seem to share a common catalytic mechanism in their requirement for two magnesium ions to bind the polyphosphate moiety of the nucleotide.
Probab=45.22 E-value=7.3 Score=26.28 Aligned_cols=40 Identities=30% Similarity=0.363 Sum_probs=30.2
Q ss_pred HHHhhcceeeee----eeeeeeeecchhhhHhhhCCCccchhhh
Q 039593 16 ISITCGSSIMFY----LKEMYVIGHGVETAQKLTGSTPHDQLLI 55 (144)
Q Consensus 16 iAlT~G~LmmFy----~kei~vfgHG~etA~KL~GSTPhDqlLI 55 (144)
|++.+|-.+.-. .++..++|-...+|.+|....|..|+++
T Consensus 99 iGi~~G~~~~g~~g~~~~~~~~~G~~v~~A~rl~~~a~~~~i~v 142 (177)
T cd07302 99 IGIHTGPVVAGVVGSERPEYTVIGDTVNLAARLESLAKPGQILV 142 (177)
T ss_pred EEEecceEEEEecCCCCcceeEecchHhHHHHHHhcCCCCEEEE
Confidence 344555444433 4568899999999999999999888776
No 8
>KOG1519 consensus Predicted mitochondrial carrier protein [General function prediction only]
Probab=43.93 E-value=12 Score=32.52 Aligned_cols=55 Identities=36% Similarity=0.526 Sum_probs=44.1
Q ss_pred eeecchhhhHhhhCCCccchhhhhhccchh-hHHHHHHHHHHHHHHHhcch-------hhhhhhh
Q 039593 33 VIGHGVETAQKLTGSTPHDQLLIQISNSFA-GLLLFVVGFLLFMVAFVKDA-------EFQSFFA 89 (144)
Q Consensus 33 vfgHG~etA~KL~GSTPhDqlLIqtSdSFs-GlLLF~iGfllfMVafVkdr-------efqsFfa 89 (144)
.+|-|..++..|--.|.|.|-||. |=-+ |||=-.+||+.|=...||.| |||||+.
T Consensus 190 f~~l~~P~k~~LPtatt~~ahLv~--DFiAG~LLGA~l~~~FFPi~VvKt~MQsqiG~efqS~~K 252 (297)
T KOG1519|consen 190 FFGLRGPIKEHLPTATTHSAHLVN--DFIAGGLLGAMLGFLFFPINVVKTRMQSQIGGEFQSFPK 252 (297)
T ss_pred hhhccccccccCCchhhHHHHHHH--HHhhhhHHHHHHHHhhccHHHHHHHHHHHhCccccchHH
Confidence 477788888888888889998874 4334 45667799999999999986 8999985
No 9
>smart00044 CYCc Adenylyl- / guanylyl cyclase, catalytic domain. Present in two copies in mammalian adenylyl cyclases. Eubacterial homologues are known. Two residues (Asn, Arg) are thought to be involved in catalysis. These cyclases have important roles in a diverse range of cellular processes.
Probab=43.80 E-value=9 Score=27.68 Aligned_cols=40 Identities=20% Similarity=0.331 Sum_probs=29.5
Q ss_pred HHHhhcceeeeee----eeeeeeecchhhhHhhhCCCccchhhh
Q 039593 16 ISITCGSSIMFYL----KEMYVIGHGVETAQKLTGSTPHDQLLI 55 (144)
Q Consensus 16 iAlT~G~LmmFy~----kei~vfgHG~etA~KL~GSTPhDqlLI 55 (144)
|++.+|-.+.-.. .+..++|-..++|.+|...++.+|+++
T Consensus 134 iGih~G~v~~~~~g~~~~~~~~~G~~vn~AarL~~~a~~g~i~v 177 (194)
T smart00044 134 IGIHTGPVVAGVVGITMPRYCLFGDTVNLASRMESVGDPGQILV 177 (194)
T ss_pred EEEeccceEEEecCCCCceeEEeChHHHHHHHHHhcCCCCeEEE
Confidence 3444554444321 367899999999999999999998765
No 10
>cd03384 PAP2_wunen PAP2, wunen subfamily. Most likely a family of membrane associated phosphatidic acid phosphatases. Wunen is a drosophila protein expressed in the central nervous system, which provides repellent activity towards primordial germ cells (PGCs), controls the survival of PGCs and is essential in the migration process of these cells towards the somatic gonadal precursors.
Probab=42.87 E-value=1.4e+02 Score=22.09 Aligned_cols=78 Identities=17% Similarity=0.132 Sum_probs=42.9
Q ss_pred chhhhhhccch-hhHHHHHHHHHHHH----HHHhcchh---hhhhhhhhhHhHHHHHHHHHHHHHhhhhhhhhccchhhH
Q 039593 51 DQLLIQISNSF-AGLLLFVVGFLLFM----VAFVKDAE---FQSFFAKGCMLVHVSMALWRVVFERRLADLAWDWPRQVV 122 (144)
Q Consensus 51 DqlLIqtSdSF-sGlLLF~iGfllfM----VafVkdre---fqsFfakgc~~lhv~ma~WR~~Ferk~edLA~dwprq~v 122 (144)
+..+-+...|| ||=--++.-...|+ ..-.|.+. +.....-.++++=+.+++=|+| +.+.||.+++
T Consensus 64 ~~~~~~~~~SFPSGHs~~a~~~~~~l~l~l~~~~~~~~~~~~~~~~~~~~~~~a~~v~~sRv~-------~~~H~~sDvi 136 (150)
T cd03384 64 PDLIREARLSFPSGHASLSMYAAVFLALYLQARLKLRGSRLLRPLLQFLLLALALYVGLSRIS-------DYKHHWSDVL 136 (150)
T ss_pred HHHHhcCccCCCcHhHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHhHhhhc-------cCCCCHHHHH
Confidence 33445566777 66555554333332 23333321 1112222334444444544554 3678999999
Q ss_pred HHHHHHHHHHHHh
Q 039593 123 GDLALALSWVFFL 135 (144)
Q Consensus 123 GDi~lalSWvffL 135 (144)
+=.+++..|.+++
T Consensus 137 aG~~lG~~~~~~~ 149 (150)
T cd03384 137 AGALLGSVIALFL 149 (150)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998765
No 11
>PRK13735 conjugal transfer mating pair stabilization protein TraG; Provisional
Probab=37.98 E-value=68 Score=31.71 Aligned_cols=72 Identities=15% Similarity=0.201 Sum_probs=47.4
Q ss_pred eeeeeeeecchhhhHhhhCCCccchhhhhhccchhhHHHH--HHHHHHHHHHHhcchhhhhhhhhhhHhHHHHHHHHHHH
Q 039593 28 LKEMYVIGHGVETAQKLTGSTPHDQLLIQISNSFAGLLLF--VVGFLLFMVAFVKDAEFQSFFAKGCMLVHVSMALWRVV 105 (144)
Q Consensus 28 ~kei~vfgHG~etA~KL~GSTPhDqlLIqtSdSFsGlLLF--~iGfllfMVafVkdrefqsFfakgc~~lhv~ma~WR~~ 105 (144)
|-|||++|=|-=..+-|-+- -.|=.|++|.+|+=+ .||++..++.|+|.|+...| .|-+ -+++.++ +.
T Consensus 1 m~eIYt~ggGe~l~~VfNAV-----A~~~gs~~f~sl~~Ialligvi~~~~~~i~~~n~~~~-~kW~---~~~~li~-~L 70 (942)
T PRK13735 1 MNEVYVIAGGEWLRNNLNAI-----AAFMGTRTWDSIEKIALTLSVLAVAVMWVQRHNVMDL-LGWV---AVFVLIS-LL 70 (942)
T ss_pred CeEEEEeccHHHHHHHHHHH-----HHHHcCCcHHHHHHHHHHHHHHHHHHHHHhcCCHHHH-HHHH---HHHHHHH-Hh
Confidence 46899999774433333221 123457789988644 57888888999999998876 3333 2556667 77
Q ss_pred HHhh
Q 039593 106 FERR 109 (144)
Q Consensus 106 Ferk 109 (144)
+--|
T Consensus 71 ~~Pk 74 (942)
T PRK13735 71 VNVR 74 (942)
T ss_pred cccc
Confidence 7666
No 12
>PF04547 Anoctamin: Calcium-activated chloride channel; InterPro: IPR007632 This family contains the anoctamin/TMEM16 proteins which are thought to be calcium-dependent chloride channel [].
Probab=37.58 E-value=80 Score=26.71 Aligned_cols=45 Identities=36% Similarity=0.848 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHh----cchhhhhhhhhhhHhHHHHHHHHHHHH----Hhhhhhhhhccc
Q 039593 67 FVVGFLLFMVAFV----KDAEFQSFFAKGCMLVHVSMALWRVVF----ERRLADLAWDWP 118 (144)
Q Consensus 67 F~iGfllfMVafV----kdrefqsFfakgc~~lhv~ma~WR~~F----erk~edLA~dwp 118 (144)
-.+|++.+..... -|.++..+|| ++|++|-..| .||=..||..|-
T Consensus 27 ai~G~~~~~~~~~~~~~~~~~~~~~fa-------i~~~~W~~~fle~Wkr~~~~l~~~Wg 79 (452)
T PF04547_consen 27 AIFGLIVFLYGLSFSYLFDNPFTPFFA-------IFMSLWATLFLEFWKRKEAELAYRWG 79 (452)
T ss_pred HHHHHHHHHHHHhcccccccchhHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3456666666655 3444555554 6788888866 566677777774
No 13
>PF06298 PsbY: Photosystem II protein Y (PsbY); InterPro: IPR009388 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 PsbY found in PSII. In higher plants, two related PsbY proteins exist, PsbY-1 and PsbY-2, which appear to function as a heterodimer. In spinach and Arabidopsis, these two proteins arise from a single-copy nuclear gene that is processed in the chloroplast. By contrast, prokaryotic and organellar chromosomes encode a single PsbY protein, as found in cyanobacteria and red algae, indicating a duplication event in the evolution of higher plants []. PsbY has two low manganese-dependent activities: a catalase-like activity and an L-arginine metabolising activity that converts L-arginine into ornithine and urea []. In addition, a redox-active group is thought to be present in the protein. In cyanobacteria, PsbY deletion mutants have a slightly impaired PSII that is less capable of coping with low levels of calcium ions than the wild-type.; GO: 0030145 manganese ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane
Probab=31.19 E-value=48 Score=21.15 Aligned_cols=15 Identities=27% Similarity=0.474 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHHHh
Q 039593 121 VVGDLALALSWVFFL 135 (144)
Q Consensus 121 ~vGDi~lalSWvffL 135 (144)
++.-+++|.+|+.|=
T Consensus 8 Vl~Pil~A~gWa~fN 22 (36)
T PF06298_consen 8 VLLPILPAAGWALFN 22 (36)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456688999999874
No 14
>PF14975 DUF4512: Domain of unknown function (DUF4512)
Probab=28.60 E-value=67 Score=23.65 Aligned_cols=34 Identities=15% Similarity=0.503 Sum_probs=27.7
Q ss_pred hhHhHHHHHHHHHHHHHhhhhhhhhccc-hhhHHH
Q 039593 91 GCMLVHVSMALWRVVFERRLADLAWDWP-RQVVGD 124 (144)
Q Consensus 91 gc~~lhv~ma~WR~~Ferk~edLA~dwp-rq~vGD 124 (144)
-|+++=+++.+|+.|-|.-+--+--.|| |.++++
T Consensus 4 PCivIPvLLwIykkFlqP~i~~~~spw~~k~~~~~ 38 (88)
T PF14975_consen 4 PCIVIPVLLWIYKKFLQPYIYPFWSPWPKKKAVQE 38 (88)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHhCccchhhhhcc
Confidence 3899999999999999988877766698 656554
No 15
>cd03205 GST_C_6 GST_C family, unknown subfamily 6; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins, and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. GSH binds to the N-terminal domain while the hydrophobic substrate occupies a pocket in the C-terminal domain.
Probab=27.73 E-value=64 Score=21.01 Aligned_cols=37 Identities=27% Similarity=0.400 Sum_probs=23.6
Q ss_pred HHHhhhhhhhhccchhhHHHHHHHH--HHHHHh--hhhccccc
Q 039593 105 VFERRLADLAWDWPRQVVGDLALAL--SWVFFL--VYSWREKY 143 (144)
Q Consensus 105 ~Ferk~edLA~dwprq~vGDi~lal--SWvffL--vyswreky 143 (144)
+.|+.+.+- .|.+-.+.||.++. .|+... -..|+++|
T Consensus 48 ~le~~L~~~--~~d~~TlADi~l~~~l~~~~~~~~~~~~~~~~ 88 (98)
T cd03205 48 ALEAELAKL--PLDPLDLADIAVACALGYLDFRHPDLDWRAAH 88 (98)
T ss_pred HHHHhhhhC--CCCCCCHHHHHHHHHHHHHHhHccCcchhhhC
Confidence 467777664 44788899999874 456432 23456655
No 16
>KOG4474 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.13 E-value=77 Score=27.18 Aligned_cols=37 Identities=22% Similarity=0.142 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHhhcceeeeeeeeeeeeecchhhhHhhhC
Q 039593 7 CVICILYSLISITCGSSIMFYLKEMYVIGHGVETAQKLTG 46 (144)
Q Consensus 7 ~~iCiLHS~iAlT~G~LmmFy~kei~vfgHG~etA~KL~G 46 (144)
...|.+||+|+-+...+-+.+..| .++-+.+..++.+
T Consensus 49 ~~VSl~HS~Isg~~a~~~l~~~~~---~~~~~~~~~s~~~ 85 (253)
T KOG4474|consen 49 LTVSLLHSTISGLWALLSLLYDPE---MVDDPITYHSLSA 85 (253)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCcc---cccCHHHHHhhhh
Confidence 367999999999999998888884 4666666666554
No 17
>PF13903 Claudin_2: PMP-22/EMP/MP20/Claudin tight junction
Probab=26.89 E-value=1.1e+02 Score=21.02 Aligned_cols=58 Identities=21% Similarity=0.423 Sum_probs=32.8
Q ss_pred hHHHHHHHHHHHHHHHhcchhhhhhhhhhhHh-----HHHHHHHHHHHHHhhhhhhhhccchh
Q 039593 63 GLLLFVVGFLLFMVAFVKDAEFQSFFAKGCML-----VHVSMALWRVVFERRLADLAWDWPRQ 120 (144)
Q Consensus 63 GlLLF~iGfllfMVafVkdrefqsFfakgc~~-----lhv~ma~WR~~Ferk~edLA~dwprq 120 (144)
|+++-.+|+++.+.++.|.+..--.++..+.+ .=+...+....+++..++-..+|+.+
T Consensus 78 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~ag~~~l~~l~~~~~~~~~~~~~~~~~~~~~ 140 (172)
T PF13903_consen 78 GLLLLLFAFVFALIGFCKRSYTLYLFAGILFILAGLCILIALIVFVVSVNYEIEINFPQWPPD 140 (172)
T ss_pred HHHHHHHHHHHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccc
Confidence 56677788888888888877632222222211 12223345566666666656667553
No 18
>CHL00196 psbY photosystem II protein Y; Provisional
Probab=24.70 E-value=74 Score=20.38 Aligned_cols=15 Identities=27% Similarity=0.581 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHHHHh
Q 039593 121 VVGDLALALSWVFFL 135 (144)
Q Consensus 121 ~vGDi~lalSWvffL 135 (144)
++.-+++|.||+.|=
T Consensus 8 Vl~Pil~A~~Wa~fN 22 (36)
T CHL00196 8 IAAPVLAAASWALFN 22 (36)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456789999999874
No 19
>PRK13240 pbsY photosystem II protein Y; Reviewed
Probab=23.49 E-value=79 Score=20.47 Aligned_cols=15 Identities=27% Similarity=0.565 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHHHHh
Q 039593 121 VVGDLALALSWVFFL 135 (144)
Q Consensus 121 ~vGDi~lalSWvffL 135 (144)
++.-|++|.||+.|=
T Consensus 8 Vl~Pil~A~~Wa~fN 22 (40)
T PRK13240 8 VLAPILAAAGWAVFN 22 (40)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456789999999874
No 20
>PF09919 DUF2149: Uncharacterized conserved protein (DUF2149); InterPro: IPR018676 This family of conserved hypothetical proteins has no known function.
Probab=23.17 E-value=76 Score=22.93 Aligned_cols=18 Identities=33% Similarity=0.534 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHHHHHhc
Q 039593 63 GLLLFVVGFLLFMVAFVK 80 (144)
Q Consensus 63 GlLLF~iGfllfMVafVk 80 (144)
-.|.||+|||+++++.-.
T Consensus 10 v~LVfav~llvalv~~~n 27 (92)
T PF09919_consen 10 VMLVFAVGLLVALVMSWN 27 (92)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 468899999999886543
No 21
>PF03661 UPF0121: Uncharacterised protein family (UPF0121); InterPro: IPR005344 Uncharacterised integral membrane protein family.; GO: 0016021 integral to membrane
Probab=23.16 E-value=4.1e+02 Score=21.53 Aligned_cols=70 Identities=21% Similarity=0.350 Sum_probs=41.7
Q ss_pred hhhHHHHHHHHHHHHHHHhcchhhhhhhhhhhHhHHHHHHHHHHHHHhhhhh--hhhccchhhHHH-----HHHHHHHHH
Q 039593 61 FAGLLLFVVGFLLFMVAFVKDAEFQSFFAKGCMLVHVSMALWRVVFERRLAD--LAWDWPRQVVGD-----LALALSWVF 133 (144)
Q Consensus 61 FsGlLLF~iGfllfMVafVkdrefqsFfakgc~~lhv~ma~WR~~Ferk~ed--LA~dwprq~vGD-----i~lalSWvf 133 (144)
|.|=++-.+..++++..+.+-....+.|.+- +....+.+-+..-+|++. +..+|.++++.| +++|+.|.+
T Consensus 29 f~~~~~~l~~~~~y~l~~~~~~~~~~~Y~~a---ll~~a~t~~i~l~q~~~~~~~~~~~l~~ll~ddn~~YL~~al~fl~ 105 (247)
T PF03661_consen 29 FLGHVFTLLCSLLYILPILFFSLAYSAYRKA---LLGAAATYAIVLYQRLPRFQFSRAYLQRLLLDDNFQYLLYALIFLF 105 (247)
T ss_pred HHHHHHHHHHHHHHHHHHhcccchHHHHHHH---HHHHHHHHHHHHHHhcccccccHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 6777777778888888887665544444332 111222222222234553 456788888876 678888865
No 22
>PRK05784 phosphoribosylamine--glycine ligase; Provisional
Probab=22.38 E-value=47 Score=29.46 Aligned_cols=8 Identities=75% Similarity=1.464 Sum_probs=6.7
Q ss_pred hhhccccc
Q 039593 136 VYSWREKY 143 (144)
Q Consensus 136 vyswreky 143 (144)
||.||||-
T Consensus 460 ~~~~~~~~ 467 (486)
T PRK05784 460 VYKWREKR 467 (486)
T ss_pred HHHHHHhc
Confidence 89999983
No 23
>PF13127 DUF3955: Protein of unknown function (DUF3955)
Probab=21.55 E-value=1.1e+02 Score=20.75 Aligned_cols=21 Identities=19% Similarity=0.638 Sum_probs=17.5
Q ss_pred hhHHHHHHHHHHHHHHHhcch
Q 039593 62 AGLLLFVVGFLLFMVAFVKDA 82 (144)
Q Consensus 62 sGlLLF~iGfllfMVafVkdr 82 (144)
-|.+++.+|.+.+.+.++|.|
T Consensus 43 lg~l~~~~g~~~~i~~~~~~~ 63 (63)
T PF13127_consen 43 LGYLFLLIGIISLIIYLIKKR 63 (63)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 578889999999998888764
No 24
>PF10177 DUF2371: Uncharacterised conserved protein (DUF2371); InterPro: IPR018787 This family of proteins with no known function is conserved from nematodes to humans. It includes members of the TMEM200 family of transmembrane proteins.
Probab=21.44 E-value=11 Score=29.60 Aligned_cols=19 Identities=26% Similarity=0.642 Sum_probs=15.0
Q ss_pred hhhHHHHHHHHHHHHHHHh
Q 039593 61 FAGLLLFVVGFLLFMVAFV 79 (144)
Q Consensus 61 FsGlLLF~iGfllfMVafV 79 (144)
.-|=++..||..+|+.|.+
T Consensus 107 ~~GPliMGIGiFifIcAna 125 (141)
T PF10177_consen 107 YFGPLIMGIGIFIFICANA 125 (141)
T ss_pred eecceEEecchhHHhHhHH
Confidence 3477889999999987754
No 25
>PF01569 PAP2: PAP2 superfamily This family includes the following Prosite family; InterPro: IPR000326 This entry represents type 2 phosphatidic acid phosphatase (PAP2; 3.1.3.4 from EC) enzymes, such as phosphatidylglycerophosphatase B 3.1.3.27 from EC from Escherichia coli. PAP2 enzymes have a core structure consisting of a 5-helical bundle, where the beginning of the third helix binds the cofactor []. PAP2 enzymes catalyse the dephosphorylation of phosphatidate, yielding diacylglycerol and inorganic phosphate []. In eukaryotic cells, PAP activity has a central role in the synthesis of phospholipids and triacylglycerol through its product diacylglycerol, and it also generates and/or degrades lipid-signalling molecules that are related to phosphatidate. Other related enzymes have a similar core structure, including haloperoxidases such as bromoperoxidase (contains one core bundle, but forms a dimer), chloroperoxidases (contains two core bundles arranged as in other family dimers), bacitracin transport permease from Bacillus licheniformis, glucose-6-phosphatase from rat. The vanadium-dependent haloperoxidases exclusively catalyse the oxidation of halides, and act as histidine phosphatases, using histidine for the nucleophilic attack in the first step of the reaction []. Amino acid residues involved in binding phosphate/vanadate are conserved between the two families, supporting a proposal that vanadium passes through a tetrahedral intermediate during the reaction mechanism.; GO: 0003824 catalytic activity, 0016020 membrane; PDB: 1QI9_B 1IW8_A 1EOI_A 1D2T_A 1QHB_D 1UP8_C 2IPB_A 1VNS_A 1VNF_A 1VNE_A ....
Probab=21.09 E-value=2.5e+02 Score=18.38 Aligned_cols=99 Identities=15% Similarity=0.213 Sum_probs=55.4
Q ss_pred chhhhHhhhCCCccchhhhhhccch-hhHHHHHHHHHHHHHHHhcchhhhhh-hhhhhHhHHHHHHHHHHHHHhhhhhhh
Q 039593 37 GVETAQKLTGSTPHDQLLIQISNSF-AGLLLFVVGFLLFMVAFVKDAEFQSF-FAKGCMLVHVSMALWRVVFERRLADLA 114 (144)
Q Consensus 37 G~etA~KL~GSTPhDqlLIqtSdSF-sGlLLF~iGfllfMVafVkdrefqsF-fakgc~~lhv~ma~WR~~Ferk~edLA 114 (144)
.++......+..|+.....+...|| ||=-..+..+..++..+.+.+...+. ..-.+..+=..+++=|+| +.
T Consensus 27 rP~~~~~~~~~~~~~~~~~~~~~sfPSgH~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~srv~-------~g 99 (129)
T PF01569_consen 27 RPFFYIPNYGLYPQHWPFQSPFNSFPSGHAAIAAAFAFFLAYYLGSRGWIRILLFLLAIVLAFLVALSRVY-------LG 99 (129)
T ss_dssp -HHHHHHHHHCHHTCHHCHTTS-SSS-HHHHHHHHHHHHHHHHCCCCHHHSEEHHHHHHHHHHHHHHHHHH-------TT
T ss_pred CcCcccccCcccccCccccCCCCcCcchhhhhHHHHHhhhhhhhhccccccchhhHHHHHHHHHhhcCEEE-------cC
Confidence 4444444444444433333334455 67777777777777777766554421 111233333445555655 56
Q ss_pred hccchhhHHHHHHHHHHHHHhhhhcccc
Q 039593 115 WDWPRQVVGDLALALSWVFFLVYSWREK 142 (144)
Q Consensus 115 ~dwprq~vGDi~lalSWvffLvyswrek 142 (144)
+.||.|+++=++++..+........++|
T Consensus 100 ~H~~~Dvi~G~~lg~~~~~~~~~~~~~~ 127 (129)
T PF01569_consen 100 AHFFSDVIAGILLGILIAYLFYRVYKKR 127 (129)
T ss_dssp SS-HHHHHHHHHHHHHHHHHHCCHCHHH
T ss_pred eEehHHHHHHHHHHHHHHHHHHHHhccc
Confidence 7899999998999888887766555543
No 26
>PF07695 7TMR-DISM_7TM: 7TM diverse intracellular signalling; InterPro: IPR011623 This entry represents the transmembrane region of the 7TM-DISM (7TM Receptors with Diverse Intracellular Signalling Modules) [].
Probab=20.58 E-value=3.1e+02 Score=19.13 Aligned_cols=31 Identities=23% Similarity=0.342 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHHHHhcchhhhhhhhhhhHh
Q 039593 63 GLLLFVVGFLLFMVAFVKDAEFQSFFAKGCML 94 (144)
Q Consensus 63 GlLLF~iGfllfMVafVkdrefqsFfakgc~~ 94 (144)
+..+..+.+.+|+..+.|.++ +.-..+....
T Consensus 72 ~~~~~~~~~~~F~~~~l~~~~-~~~~~~~~~~ 102 (205)
T PF07695_consen 72 FLMLSFIFFLLFVRSFLELKR-HPRLRRLLLI 102 (205)
T ss_pred HHHHHHHHHHHHHHHHhCccc-CchHHHHHHH
Confidence 445555566679999999977 5444443333
No 27
>PF13131 DUF3951: Protein of unknown function (DUF3951)
Probab=20.30 E-value=75 Score=21.97 Aligned_cols=25 Identities=32% Similarity=0.849 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhhh
Q 039593 64 LLLFVVGFLLFMVAFVKDAEFQSFFA 89 (144)
Q Consensus 64 lLLF~iGfllfMVafVkdrefqsFfa 89 (144)
.++|-|||+-|++ |||...-|.|+.
T Consensus 14 ~I~~lIgfity~m-fV~K~s~q~~YT 38 (53)
T PF13131_consen 14 FIFFLIGFITYKM-FVKKASPQIYYT 38 (53)
T ss_pred HHHHHHHHHHHHh-heecCCCceeec
Confidence 3456677777763 788877777653
No 28
>KOG2887 consensus Membrane protein involved in ER to Golgi transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.07 E-value=1.5e+02 Score=24.29 Aligned_cols=41 Identities=29% Similarity=0.523 Sum_probs=34.9
Q ss_pred hhHHHHHHHHHHHHHHHhcchhhhhhhhhhhHhHHHHHHHH
Q 039593 62 AGLLLFVVGFLLFMVAFVKDAEFQSFFAKGCMLVHVSMALW 102 (144)
Q Consensus 62 sGlLLF~iGfllfMVafVkdrefqsFfakgc~~lhv~ma~W 102 (144)
+|++.+.++..+|-|--+|-|.|--+|--||.+.=.+-|.=
T Consensus 55 ~gv~c~~l~~~lf~v~~~~~~kFal~~TlGnll~i~sf~fL 95 (175)
T KOG2887|consen 55 GGVLCFLLAMVLFPVLVVSPRKFALLYTLGNLLAIGSFAFL 95 (175)
T ss_pred HHHHHHHHHHHHHHhcccccceeehhHHHHHHHHHHHHHHH
Confidence 47888999999999999999999999999998876665543
Done!