Query 033736
Match_columns 112
No_of_seqs 101 out of 179
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 05:42:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033736.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033736hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0721 Molecular chaperone (D 100.0 7.2E-31 1.6E-35 195.2 5.8 102 1-105 4-106 (230)
2 COG5407 SEC63 Preprotein trans 99.8 5.5E-21 1.2E-25 154.9 4.8 98 3-105 6-105 (610)
3 PF03579 SHP: Small hydrophobi 70.9 4.3 9.3E-05 24.7 2.2 21 6-26 10-30 (64)
4 PF03622 IBV_3B: IBV 3B protei 67.6 2.6 5.7E-05 25.8 0.8 17 86-103 23-39 (64)
5 PF08592 DUF1772: Domain of un 63.4 20 0.00044 23.8 4.7 76 7-83 62-137 (139)
6 COG2991 Uncharacterized protei 61.4 15 0.00033 23.3 3.4 13 14-26 4-16 (77)
7 KOG3672 Histidine acid phospha 60.7 6.6 0.00014 32.6 2.1 60 45-112 249-309 (487)
8 PF11297 DUF3098: Protein of u 50.4 28 0.00061 21.8 3.3 35 72-108 9-45 (69)
9 KOG0510 Ankyrin repeat protein 43.0 44 0.00095 30.3 4.5 25 8-32 505-529 (929)
10 COG4420 Predicted membrane pro 41.5 29 0.00062 25.9 2.7 7 96-102 82-88 (191)
11 PF06298 PsbY: Photosystem II 40.6 41 0.00089 18.4 2.6 18 70-87 10-27 (36)
12 PF03311 Cornichon: Cornichon 37.6 1.3E+02 0.0029 20.6 5.4 39 70-108 62-105 (128)
13 PF12955 DUF3844: Domain of un 35.5 47 0.001 22.3 2.8 32 5-36 63-94 (103)
14 CHL00196 psbY photosystem II p 33.9 62 0.0014 17.7 2.6 16 71-86 11-26 (36)
15 PF06210 DUF1003: Protein of u 33.4 64 0.0014 21.7 3.2 24 72-102 11-34 (108)
16 PF11027 DUF2615: Protein of u 32.9 53 0.0011 22.1 2.7 19 70-88 54-72 (103)
17 COG1288 Predicted membrane pro 32.7 2E+02 0.0042 24.5 6.5 20 70-89 275-294 (481)
18 PRK13240 pbsY photosystem II p 32.0 60 0.0013 18.2 2.4 18 71-88 11-28 (40)
19 PF15176 LRR19-TM: Leucine-ric 31.8 57 0.0012 21.9 2.7 27 4-30 10-36 (102)
20 PF06459 RR_TM4-6: Ryanodine R 31.4 70 0.0015 25.0 3.6 28 67-95 172-200 (274)
21 COG3924 Predicted membrane pro 31.1 37 0.0008 21.6 1.6 15 70-84 18-32 (80)
22 PF03967 PRCH: Photosynthetic 31.0 70 0.0015 22.6 3.2 20 70-89 13-32 (136)
23 PF06422 PDR_CDR: CDR ABC tran 30.9 67 0.0015 21.1 3.0 22 67-89 48-69 (103)
24 PF14004 DUF4227: Protein of u 30.5 68 0.0015 20.1 2.8 32 70-103 8-39 (71)
25 PF07172 GRP: Glycine rich pro 30.1 72 0.0016 20.9 3.0 22 67-89 3-24 (95)
26 PF04583 Baculo_p74: Baculovir 29.3 53 0.0012 25.5 2.5 22 75-101 106-127 (249)
27 PRK13183 psbN photosystem II r 28.7 73 0.0016 18.4 2.4 31 72-102 10-42 (46)
28 PF04911 ATP-synt_J: ATP synth 28.3 46 0.00099 19.9 1.6 15 10-24 10-24 (54)
29 KOG0863 20S proteasome, regula 27.1 22 0.00047 27.5 0.1 9 1-9 134-142 (264)
30 PF12686 DUF3800: Protein of u 27.1 4.5 9.7E-05 28.7 -3.5 16 4-19 4-27 (235)
31 PF02937 COX6C: Cytochrome c o 27.0 86 0.0019 19.6 2.8 33 70-102 19-58 (73)
32 CHL00020 psbN photosystem II p 25.4 69 0.0015 18.2 1.9 30 73-102 8-39 (43)
33 PF02468 PsbN: Photosystem II 24.9 1.3E+02 0.0029 17.0 3.0 26 77-102 12-39 (43)
34 TIGR03778 VPDSG_CTERM VPDSG-CT 24.9 69 0.0015 16.3 1.7 18 6-23 3-20 (26)
35 COG0713 NuoK NADH:ubiquinone o 22.5 51 0.0011 22.1 1.2 17 4-20 54-70 (100)
36 PF07423 DUF1510: Protein of u 22.2 1.1E+02 0.0023 23.2 3.0 19 70-88 16-34 (217)
37 PF12273 RCR: Chitin synthesis 21.2 61 0.0013 21.9 1.4 22 11-32 2-23 (130)
38 TIGR02736 cbb3_Q_epsi cytochro 20.9 1E+02 0.0022 18.5 2.1 24 11-34 2-25 (56)
39 PF04341 DUF485: Protein of un 20.8 1.5E+02 0.0032 19.0 3.1 18 70-87 59-76 (91)
40 KOG1699 O-acetyltransferase [G 20.5 1.7E+02 0.0036 24.3 3.9 13 77-89 184-196 (442)
41 PF14475 Mso1_Sec1_bdg: Sec1-b 20.5 29 0.00063 19.5 -0.3 10 3-12 29-38 (41)
42 COG3083 Predicted hydrolase of 20.2 68 0.0015 27.7 1.7 24 11-34 61-84 (600)
43 PF15128 T_cell_tran_alt: T-ce 20.1 1.9E+02 0.004 19.0 3.4 18 70-87 26-43 (92)
44 PRK07899 rpsA 30S ribosomal pr 20.0 44 0.00095 28.1 0.6 8 2-9 385-392 (486)
No 1
>KOG0721 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=7.2e-31 Score=195.20 Aligned_cols=102 Identities=24% Similarity=0.458 Sum_probs=84.0
Q ss_pred CCccccCCCchhHHHHHHHhhhhhhhhhhhhhcccccccccccccCcchhhhHHHHHHHhhhccCc-chhHHHHHHHHHH
Q 033736 1 MAATEENSQLFPIFILTIMALPLVPYTILKLCHAFSKKIKTIHCQCSDCARSGKYRKSIFKRISNF-STCSNLSLVLLWV 79 (112)
Q Consensus 1 ~~~YDE~g~~fpyFvlt~l~lvLiP~T~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kr~~~~-~~~~~i~lv~gW~ 79 (112)
|.||||+|+|||||+||+++++++|+||.++++...+.....+|+|.+|++++...++..+ + .+ ++ |++++++||+
T Consensus 4 ~~eYDE~g~tf~yflls~~~~i~~P~Ty~~i~~~~~~~~~~~~c~c~~c~~~r~~~~~~~~-k-~~~~~-~~i~lv~~W~ 80 (230)
T KOG0721|consen 4 DYEYDESGNTFPYFLLSFLAIILLPMTYLLIPRNPEPPKRKEECQCHGCDKKRRKKAKVSP-K-SISTK-RKVFLVVGWA 80 (230)
T ss_pred ccccccccCccHHHHHHHHHHHHHHHHHHHhccccchhhhhhHHhhhhhhhhhhhhcccCc-c-cchhH-HHHHHHHHHH
Confidence 5799999999999999999999999999999853322222568999999887754333322 2 33 66 9999999999
Q ss_pred HHHHHHHHHHhccccccccchhhhhh
Q 033736 80 IMIILIYYIKSTSREVNMFVKILTMS 105 (112)
Q Consensus 80 l~~~L~y~i~~~~~~~~~fDPYeIL~ 105 (112)
++++|+|+|++++++.+.|||||||-
T Consensus 81 v~~fL~y~i~~~~~~~~~fDPyEILG 106 (230)
T KOG0721|consen 81 VIAFLIYKIMNSRRERQKFDPYEILG 106 (230)
T ss_pred HHHHHHHHHhhhhHHhhcCCcHHhhC
Confidence 99999999999998889999999995
No 2
>COG5407 SEC63 Preprotein translocase subunit Sec63 [Intracellular trafficking and secretion]
Probab=99.82 E-value=5.5e-21 Score=154.87 Aligned_cols=98 Identities=21% Similarity=0.351 Sum_probs=77.2
Q ss_pred ccccCCCchhHHHHHHHhhhhhhhhhhhhhccc-ccccccccccCcchhhhHHHHHHHhhhccCcchhHHHHHHHHHHHH
Q 033736 3 ATEENSQLFPIFILTIMALPLVPYTILKLCHAF-SKKIKTIHCQCSDCARSGKYRKSIFKRISNFSTCSNLSLVLLWVIM 81 (112)
Q Consensus 3 ~YDE~g~~fpyFvlt~l~lvLiP~T~~~l~~~~-~~~~~~~~~~~~~~~~~~~~i~~~~kr~~~~~~~~~i~lv~gW~l~ 81 (112)
||||+|.+||||+|+.+.++..|+||..+-+.. +++....+|.|+.|..+.++ .+|| +..+. |++++++||.++
T Consensus 6 eYDE~g~~~p~fvL~gl~~vvlpmTY~~i~gpsaSKe~~~vr~~~q~~Rpkdkn--v~rK--SIf~l-R~If~ivgWl~i 80 (610)
T COG5407 6 EYDESGLASPYFVLSGLVPVVLPMTYDLIEGPSASKELRRVRCACQGCRPKDKN--VSRK--SIFKL-RKIFTIVGWLVI 80 (610)
T ss_pred ccccccccchHHHHhhhhheeeeeehhheeCCcccchhhcchhhhhhcCccccc--hhhh--HHHhh-hHHHHHHHHHHH
Confidence 899999999999999999999999998876553 22333467888777754432 2222 32245 999999999999
Q ss_pred HHHHHHHHhccccc-cccchhhhhh
Q 033736 82 IILIYYIKSTSREV-NMFVKILTMS 105 (112)
Q Consensus 82 ~~L~y~i~~~~~~~-~~fDPYeIL~ 105 (112)
++|.|+|.+.+.+. +.|||||||-
T Consensus 81 ~~L~~~I~~~k~~~~~~fDPyEILG 105 (610)
T COG5407 81 SYLISNIRTLKIEYRRGFDPYEILG 105 (610)
T ss_pred HHHHHHHHHHHHHHHcCCChHHhhc
Confidence 99999999777776 8999999995
No 3
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=70.94 E-value=4.3 Score=24.75 Aligned_cols=21 Identities=24% Similarity=0.391 Sum_probs=14.8
Q ss_pred cCCCchhHHHHHHHhhhhhhh
Q 033736 6 ENSQLFPIFILTIMALPLVPY 26 (112)
Q Consensus 6 E~g~~fpyFvlt~l~lvLiP~ 26 (112)
-+|.+||||-|.+..+.++-+
T Consensus 10 FtskFW~YFtLi~M~lti~~~ 30 (64)
T PF03579_consen 10 FTSKFWTYFTLIFMMLTIGFF 30 (64)
T ss_pred eccccchHHHHHHHHHHHHHH
Confidence 368999999877765554433
No 4
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=67.62 E-value=2.6 Score=25.75 Aligned_cols=17 Identities=12% Similarity=0.090 Sum_probs=11.5
Q ss_pred HHHHhccccccccchhhh
Q 033736 86 YYIKSTSREVNMFVKILT 103 (112)
Q Consensus 86 y~i~~~~~~~~~fDPYeI 103 (112)
++|+ ..-+..+|||||.
T Consensus 23 q~IS-svl~t~iFDPFE~ 39 (64)
T PF03622_consen 23 QHIS-SVLNTEIFDPFEV 39 (64)
T ss_pred HHHH-HHHhhhhcCCeeE
Confidence 5555 3345578999985
No 5
>PF08592 DUF1772: Domain of unknown function (DUF1772); InterPro: IPR013901 This entry represents proteins of unknown function.
Probab=63.39 E-value=20 Score=23.85 Aligned_cols=76 Identities=9% Similarity=0.271 Sum_probs=37.2
Q ss_pred CCCchhHHHHHHHhhhhhhhhhhhhhcccccccccccccCcchhhhHHHHHHHhhhccCcchhHHHHHHHHHHHHHH
Q 033736 7 NSQLFPIFILTIMALPLVPYTILKLCHAFSKKIKTIHCQCSDCARSGKYRKSIFKRISNFSTCSNLSLVLLWVIMII 83 (112)
Q Consensus 7 ~g~~fpyFvlt~l~lvLiP~T~~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~kr~~~~~~~~~i~lv~gW~l~~~ 83 (112)
.+....+.+.+.+.+-.+|.|....... ++.-..-+-+........+.+++.++|-.+.+.+|.++-++++++..+
T Consensus 62 ~~~~~~~~~a~~~~~~~~~~T~~~~~P~-N~~l~~~~~~~~~~~~~~~~~~~l~~~W~~~n~vR~~~~~~a~~~~~~ 137 (139)
T PF08592_consen 62 PAARLLWLAAAALLLSIIPFTFLVNVPI-NNRLAAWDIESSPEEAPADWVRALLDRWGRLNLVRTVLSLVAFLLLLI 137 (139)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhhHH-HHHHHHccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555666777899998775222 111100000000111122223444444445544488888888887653
No 6
>COG2991 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.41 E-value=15 Score=23.29 Aligned_cols=13 Identities=38% Similarity=0.393 Sum_probs=6.6
Q ss_pred HHHHHHhhhhhhh
Q 033736 14 FILTIMALPLVPY 26 (112)
Q Consensus 14 Fvlt~l~lvLiP~ 26 (112)
|++||..++|+-+
T Consensus 4 ~lltFg~Fllvi~ 16 (77)
T COG2991 4 FLLTFGIFLLVIA 16 (77)
T ss_pred HHHHHHHHHHHHH
Confidence 4555555555433
No 7
>KOG3672 consensus Histidine acid phosphatase [General function prediction only]
Probab=60.74 E-value=6.6 Score=32.60 Aligned_cols=60 Identities=13% Similarity=0.113 Sum_probs=34.0
Q ss_pred cCcchhhhHHHHHHHhhhccC-cchhHHHHHHHHHHHHHHHHHHHHhccccccccchhhhhhhhccccC
Q 033736 45 QCSDCARSGKYRKSIFKRISN-FSTCSNLSLVLLWVIMIILIYYIKSTSREVNMFVKILTMSAWSFCFC 112 (112)
Q Consensus 45 ~~~~~~~~~~~i~~~~kr~~~-~~~~~~i~lv~gW~l~~~L~y~i~~~~~~~~~fDPYeIL~~~~~~~~ 112 (112)
+|. |+.+...++....+-.. +.+ +....+.-|.=.+.+ .....+.+|||+...+..-.+|
T Consensus 249 ~C~-Cp~~~~~r~~~e~~~~~q~lk-~~~~dv~~~~~~~~~------~~~p~~~~~pf~~ID~ll~~~C 309 (487)
T KOG3672|consen 249 QCA-CPIHKSIRRIYEEEHLQQFLK-MKSDDVADEEKKFLS------FPQPAASFDPFQMIDVLLSFIC 309 (487)
T ss_pred ccc-chHHHHHHHHHHHHHHHHHHh-cchHHHHhhhcceee------ecccccccCchhHHHHHHHhhh
Confidence 553 77766665444331111 133 334566677655443 3335577999999888665555
No 8
>PF11297 DUF3098: Protein of unknown function (DUF3098); InterPro: IPR021448 This bacterial family of proteins has no known function.
Probab=50.36 E-value=28 Score=21.77 Aligned_cols=35 Identities=20% Similarity=0.182 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc-c-cccchhhhhhhhc
Q 033736 72 LSLVLLWVIMIILIYYIKSTSRE-V-NMFVKILTMSAWS 108 (112)
Q Consensus 72 i~lv~gW~l~~~L~y~i~~~~~~-~-~~fDPYeIL~~~~ 108 (112)
+++++|=+++ .+.|-...-+.+ . +.||| ||-|..+
T Consensus 9 ill~iG~~vI-ilGfilMsg~~s~dp~~fn~-~Ifs~~r 45 (69)
T PF11297_consen 9 ILLAIGIAVI-ILGFILMSGGGSDDPNVFNP-DIFSFRR 45 (69)
T ss_pred HHHHHHHHHH-HHHHHheeCCCCCCccccCc-cccceee
Confidence 3444455444 344554333333 2 68999 8887654
No 9
>KOG0510 consensus Ankyrin repeat protein [General function prediction only]
Probab=43.03 E-value=44 Score=30.30 Aligned_cols=25 Identities=36% Similarity=0.369 Sum_probs=20.1
Q ss_pred CCchhHHHHHHHhhhhhhhhhhhhh
Q 033736 8 SQLFPIFILTIMALPLVPYTILKLC 32 (112)
Q Consensus 8 g~~fpyFvlt~l~lvLiP~T~~~l~ 32 (112)
|--|.++-|-+++++++|+|++.+-
T Consensus 505 g~~~~~~nL~~Y~lFlv~lT~Yv~~ 529 (929)
T KOG0510|consen 505 GKYFHLNNLLIYSLFLVSLTIYVLL 529 (929)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346667789999999999998874
No 10
>COG4420 Predicted membrane protein [Function unknown]
Probab=41.46 E-value=29 Score=25.88 Aligned_cols=7 Identities=0% Similarity=-0.311 Sum_probs=5.7
Q ss_pred cccchhh
Q 033736 96 NMFVKIL 102 (112)
Q Consensus 96 ~~fDPYe 102 (112)
..||||-
T Consensus 82 ~~wDpyP 88 (191)
T COG4420 82 LAWDPYP 88 (191)
T ss_pred CcCCCcc
Confidence 6799995
No 11
>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=40.62 E-value=41 Score=18.43 Aligned_cols=18 Identities=11% Similarity=-0.023 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYY 87 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~ 87 (112)
--+++.+||+++-..---
T Consensus 10 ~Pil~A~gWa~fNIg~~A 27 (36)
T PF06298_consen 10 LPILPAAGWALFNIGRAA 27 (36)
T ss_pred HHHHHHHHHHHHHhHHHH
Confidence 345567799998666433
No 12
>PF03311 Cornichon: Cornichon protein; InterPro: IPR003377 The drosophila cornichon protein (gene: cni) [] is required in the germline for dorsal-ventral signalling. The dorsal-ventral pattern formation involves a reorganisation of the microtubule network correlated with the movement of the oocyte nucleus, and depending on the initial correct establishment of the anterior-posterior axis via a signal from the oocyte produced by cornichon and gurken and received by torpedo protein in the follicle cells. The biochemical function of the cornichon protein is currently not known. It is a protein of 144 residues that seems to contain three transmembrane regions. ; GO: 0035556 intracellular signal transduction, 0016020 membrane
Probab=37.65 E-value=1.3e+02 Score=20.56 Aligned_cols=39 Identities=15% Similarity=0.133 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHH-----HHHHHHhccccccccchhhhhhhhc
Q 033736 70 SNLSLVLLWVIMII-----LIYYIKSTSREVNMFVKILTMSAWS 108 (112)
Q Consensus 70 ~~i~lv~gW~l~~~-----L~y~i~~~~~~~~~fDPYeIL~~~~ 108 (112)
..+.++.||-+... ++|.+....+....+||=||-+.++
T Consensus 62 ~~l~ll~g~w~~~llnlPl~~y~~~~~~~~~~l~D~T~If~~L~ 105 (128)
T PF03311_consen 62 CLLFLLTGHWFLFLLNLPLLAYHIYRYFRRQHLYDPTEIFNQLK 105 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccHHHHHHHHH
Confidence 33444555554433 4566544344455699999987654
No 13
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=35.52 E-value=47 Score=22.32 Aligned_cols=32 Identities=22% Similarity=0.070 Sum_probs=25.7
Q ss_pred ccCCCchhHHHHHHHhhhhhhhhhhhhhcccc
Q 033736 5 EENSQLFPIFILTIMALPLVPYTILKLCHAFS 36 (112)
Q Consensus 5 DE~g~~fpyFvlt~l~lvLiP~T~~~l~~~~~ 36 (112)
|=+.++|.++-.|++.++++-..+..|+..-.
T Consensus 63 DvS~~F~L~~~~ti~lv~~~~~~I~lL~svG~ 94 (103)
T PF12955_consen 63 DVSVPFWLFAGFTIALVVLVAGAIGLLFSVGS 94 (103)
T ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 66788888888899999998888888865533
No 14
>CHL00196 psbY photosystem II protein Y; Provisional
Probab=33.94 E-value=62 Score=17.71 Aligned_cols=16 Identities=13% Similarity=0.158 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 033736 71 NLSLVLLWVIMIILIY 86 (112)
Q Consensus 71 ~i~lv~gW~l~~~L~y 86 (112)
-+++.+||+++-..--
T Consensus 11 Pil~A~~Wa~fNIg~~ 26 (36)
T CHL00196 11 PVLAAASWALFNIGRL 26 (36)
T ss_pred HHHHHHHHHHHHhHHH
Confidence 3566789999865533
No 15
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=33.44 E-value=64 Score=21.66 Aligned_cols=24 Identities=17% Similarity=0.281 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHhccccccccchhh
Q 033736 72 LSLVLLWVIMIILIYYIKSTSREVNMFVKIL 102 (112)
Q Consensus 72 i~lv~gW~l~~~L~y~i~~~~~~~~~fDPYe 102 (112)
.+++++|+++-.+... ...||||-
T Consensus 11 ~~~~~~Wi~~N~~~~~-------~~~fDpyP 34 (108)
T PF06210_consen 11 TVFLAVWILLNILAPP-------RPAFDPYP 34 (108)
T ss_pred HHHHHHHHHHHhhccc-------cCCCCCcc
Confidence 3444566655443211 14699964
No 16
>PF11027 DUF2615: Protein of unknown function (DUF2615); InterPro: IPR020309 This entry represents a group of uncharacterised protein from the Metazoa, including CD034 (or C4orf34) and YQF4 (or C34C12.4).
Probab=32.87 E-value=53 Score=22.09 Aligned_cols=19 Identities=21% Similarity=0.831 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYYI 88 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i 88 (112)
...+++.+|.++|++.|..
T Consensus 54 ~~~~~~~~w~~~A~~ly~~ 72 (103)
T PF11027_consen 54 SMFMMMMLWMVLAMALYLL 72 (103)
T ss_pred cHHHHHHHHHHHHHHHHHc
Confidence 5677888999999999987
No 17
>COG1288 Predicted membrane protein [Function unknown]
Probab=32.67 E-value=2e+02 Score=24.48 Aligned_cols=20 Identities=25% Similarity=0.507 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYYIK 89 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i~ 89 (112)
++++|.+.=+-+..++|-+.
T Consensus 275 ~klvL~lf~l~f~~mI~GV~ 294 (481)
T COG1288 275 DKLVLLLFTLTFVIMIWGVI 294 (481)
T ss_pred hhHHHHHHHHHHHHHHHHhh
Confidence 45555555455556666554
No 18
>PRK13240 pbsY photosystem II protein Y; Reviewed
Probab=31.97 E-value=60 Score=18.16 Aligned_cols=18 Identities=11% Similarity=0.002 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 033736 71 NLSLVLLWVIMIILIYYI 88 (112)
Q Consensus 71 ~i~lv~gW~l~~~L~y~i 88 (112)
-+++.+||+++-+.---+
T Consensus 11 Pil~A~~Wa~fNIg~~Al 28 (40)
T PRK13240 11 PILAAAGWAVFNIGKAAR 28 (40)
T ss_pred HHHHHHHHHHHHhhHHHH
Confidence 356678999987664433
No 19
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=31.81 E-value=57 Score=21.94 Aligned_cols=27 Identities=11% Similarity=0.241 Sum_probs=17.9
Q ss_pred cccCCCchhHHHHHHHhhhhhhhhhhh
Q 033736 4 TEENSQLFPIFILTIMALPLVPYTILK 30 (112)
Q Consensus 4 YDE~g~~fpyFvlt~l~lvLiP~T~~~ 30 (112)
-.++|..|+|.+.-+++.+.+-+-+..
T Consensus 10 ~~~~g~sW~~LVGVv~~al~~SlLIal 36 (102)
T PF15176_consen 10 PGEGGRSWPFLVGVVVTALVTSLLIAL 36 (102)
T ss_pred CCCCCcccHhHHHHHHHHHHHHHHHHH
Confidence 357899999987666655555444433
No 20
>PF06459 RR_TM4-6: Ryanodine Receptor TM 4-6; InterPro: IPR009460 The release of Ca2+ ions from intracellular stores is a key step in a wide variety of cellular functions. In striated muscle, the release of Ca2+ from the sarcoplasmic reticulum (SR) leads to muscle contraction. Ca2+ release occurs through large, high-conductance Ca2+ release channels, also known as ryanodine receptors (RyRs) because they bind the plant alkaloid ryanodine with high affinity and specificity []. This region covers TM regions 4-6 of the ryanodine receptor 1 family.; GO: 0005219 ryanodine-sensitive calcium-release channel activity, 0006874 cellular calcium ion homeostasis, 0016021 integral to membrane
Probab=31.43 E-value=70 Score=24.99 Aligned_cols=28 Identities=29% Similarity=0.462 Sum_probs=21.2
Q ss_pred chhHHHHHHHHHHHHHHHH-HHHHhccccc
Q 033736 67 STCSNLSLVLLWVIMIILI-YYIKSTSREV 95 (112)
Q Consensus 67 ~~~~~i~lv~gW~l~~~L~-y~i~~~~~~~ 95 (112)
+. |.+.|+++-++-++|. |||+....+.
T Consensus 172 Nl-r~lALflAFaINFILLFYKVs~~~~~~ 200 (274)
T PF06459_consen 172 NL-RFLALFLAFAINFILLFYKVSTSPPEE 200 (274)
T ss_pred HH-HHHHHHHHHHHHHHHHHHHhccCCccc
Confidence 55 9999999999987766 8887555443
No 21
>COG3924 Predicted membrane protein [Function unknown]
Probab=31.13 E-value=37 Score=21.64 Aligned_cols=15 Identities=20% Similarity=0.388 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIIL 84 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L 84 (112)
-.++.++||.+.+|+
T Consensus 18 LtllYl~gW~v~AYl 32 (80)
T COG3924 18 LTLLYLAGWLVAAYL 32 (80)
T ss_pred HHHHHHHHHHHHHhC
Confidence 456677899999987
No 22
>PF03967 PRCH: Photosynthetic reaction centre, H-chain N-terminal region; InterPro: IPR015810 The photosynthetic apparatus in non-oxygenic bacteria consists of light-harvesting (LH) protein-pigment complexes LH1 and LH2, which use carotenoid and bacteriochlorophyll as primary donors []. LH1 acts as the energy collection hub, temporarily storing it before its transfer to the photosynthetic reaction centre (RC) []. Electrons are transferred from the primary donor via an intermediate acceptor (bacteriopheophytin) to the primary acceptor (quinine Qa), and finally to the secondary acceptor (quinone Qb), resulting in the formation of ubiquinol QbH2. RC uses the excitation energy to shuffle electrons across the membrane, transferring them via ubiquinol to the cytochrome bc1 complex in order to establish a proton gradient across the membrane, which is used by ATP synthetase to form ATP [, , ]. The core complex is anchored in the cell membrane, consisting of one unit of RC surrounded by LH1; in some species there may be additional subunits []. RC consists of three subunits: L (light), M (medium), and H (heavy). Subunits L and M provide the scaffolding for the chromophore, while subunit H contains a cytoplasmic domain []. In Rhodopseudomonas viridis, there is also a non-membranous tetrahaem cytochrome (4Hcyt) subunit on the periplasmic surface. This entry represents the N-terminal domain of the photosynthetic reaction centre H subunit, which includes the transmembrane domain and part of the cytoplasmic domain [].; GO: 0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity, 0019684 photosynthesis, light reaction, 0030077 plasma membrane light-harvesting complex; PDB: 1RZZ_H 1PST_H 2J8D_H 3DUQ_H 1FNP_H 1KBY_H 1E14_H 2HG3_H 1UMX_H 1YST_H ....
Probab=31.04 E-value=70 Score=22.59 Aligned_cols=20 Identities=35% Similarity=0.869 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYYIK 89 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i~ 89 (112)
--++|-+.|+.|+.|+|...
T Consensus 13 Aql~lyaFwiFFagLi~YLr 32 (136)
T PF03967_consen 13 AQLVLYAFWIFFAGLIYYLR 32 (136)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 44667789999999999885
No 23
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=30.86 E-value=67 Score=21.06 Aligned_cols=22 Identities=14% Similarity=0.383 Sum_probs=16.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHH
Q 033736 67 STCSNLSLVLLWVIMIILIYYIK 89 (112)
Q Consensus 67 ~~~~~i~lv~gW~l~~~L~y~i~ 89 (112)
.. ||+-+++||.+++++++.+.
T Consensus 48 ~W-RN~GIli~f~i~f~~~~~~~ 69 (103)
T PF06422_consen 48 RW-RNFGILIAFWIFFIVLTLLA 69 (103)
T ss_pred hh-hhHHHHHHHHHHHHHHHHHH
Confidence 45 88888888888877776663
No 24
>PF14004 DUF4227: Protein of unknown function (DUF4227)
Probab=30.51 E-value=68 Score=20.07 Aligned_cols=32 Identities=9% Similarity=-0.007 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccccccccchhhh
Q 033736 70 SNLSLVLLWVIMIILIYYIKSTSREVNMFVKILT 103 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i~~~~~~~~~fDPYeI 103 (112)
|.++|-+|=.+++|-+..-- .++...+|||+.
T Consensus 8 k~~~LF~~~T~lfYy~~~w~--~~~~~~~hrY~e 39 (71)
T PF14004_consen 8 KFFLLFTGCTLLFYYAILWV--SDEYEPYHRYDE 39 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHhccCCCCCC
Confidence 56666666665555443322 234466888863
No 25
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=30.11 E-value=72 Score=20.90 Aligned_cols=22 Identities=23% Similarity=0.259 Sum_probs=14.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHH
Q 033736 67 STCSNLSLVLLWVIMIILIYYIK 89 (112)
Q Consensus 67 ~~~~~i~lv~gW~l~~~L~y~i~ 89 (112)
+| ..++|.+.+|+++++..-++
T Consensus 3 SK-~~llL~l~LA~lLlisSeva 24 (95)
T PF07172_consen 3 SK-AFLLLGLLLAALLLISSEVA 24 (95)
T ss_pred hh-HHHHHHHHHHHHHHHHhhhh
Confidence 35 56667777777777766554
No 26
>PF04583 Baculo_p74: Baculoviridae p74 conserved region; InterPro: IPR007663 Baculoviruses are distinct from other virus families in that there are two viral phenotypes: budded virus (BV) and occlusion-derived virus (ODV). BVs disseminate viral infection throughout the tissues of the host and ODVs transmit baculovirus between insect hosts. GFP tagging experiments implicate p74 as an ODV envelope protein [, ].; GO: 0019058 viral infectious cycle
Probab=29.26 E-value=53 Score=25.46 Aligned_cols=22 Identities=14% Similarity=0.190 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHhccccccccchh
Q 033736 75 VLLWVIMIILIYYIKSTSREVNMFVKI 101 (112)
Q Consensus 75 v~gW~l~~~L~y~i~~~~~~~~~fDPY 101 (112)
|+||++++..+--+ -...||||
T Consensus 106 Vvgi~Li~~ti~Dl-----vL~~WDPf 127 (249)
T PF04583_consen 106 VVGIVLIFLTIADL-----VLMFWDPF 127 (249)
T ss_pred HHHHHHHHHHHHHH-----HHHhcCcc
Confidence 36777776653222 12579998
No 27
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=28.73 E-value=73 Score=18.40 Aligned_cols=31 Identities=10% Similarity=0.118 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHH-Hhccccc-cccchhh
Q 033736 72 LSLVLLWVIMIILIYYI-KSTSREV-NMFVKIL 102 (112)
Q Consensus 72 i~lv~gW~l~~~L~y~i-~~~~~~~-~~fDPYe 102 (112)
+.+.++=+++++..|-+ .+..+.+ +.=||||
T Consensus 10 ~~i~i~~lL~~~TgyaiYtaFGppSk~LrDPFe 42 (46)
T PRK13183 10 LAITILAILLALTGFGIYTAFGPPSKELDDPFD 42 (46)
T ss_pred HHHHHHHHHHHHhhheeeeccCCcccccCCchh
Confidence 33444445556666666 3344555 6789997
No 28
>PF04911 ATP-synt_J: ATP synthase j chain; InterPro: IPR006995 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. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit J found in the F0 complex of F-ATPases from fungal mitochondria. This subunit does not appear to display sequence similarity with subunits of F-ATPases found in other organisms []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o)
Probab=28.35 E-value=46 Score=19.87 Aligned_cols=15 Identities=20% Similarity=0.370 Sum_probs=11.4
Q ss_pred chhHHHHHHHhhhhh
Q 033736 10 LFPIFILTIMALPLV 24 (112)
Q Consensus 10 ~fpyFvlt~l~lvLi 24 (112)
.||||+.+.+.+.+|
T Consensus 10 ~wPFf~ag~iv~ygv 24 (54)
T PF04911_consen 10 MWPFFAAGAIVYYGV 24 (54)
T ss_pred hhHHHHHHHHHHHHH
Confidence 699999988665554
No 29
>KOG0863 consensus 20S proteasome, regulatory subunit alpha type PSMA1/PRE5 [Posttranslational modification, protein turnover, chaperones]
Probab=27.06 E-value=22 Score=27.53 Aligned_cols=9 Identities=22% Similarity=0.372 Sum_probs=7.7
Q ss_pred CCccccCCC
Q 033736 1 MAATEENSQ 9 (112)
Q Consensus 1 ~~~YDE~g~ 9 (112)
|++|||+|-
T Consensus 134 v~gYDe~G~ 142 (264)
T KOG0863|consen 134 VAGYDESGP 142 (264)
T ss_pred EEeecCCCc
Confidence 689999995
No 30
>PF12686 DUF3800: Protein of unknown function (DUF3800); InterPro: IPR024524 This family of proteins is functionally uncharacterised. Some family members possess a DE motif at their N terminus and a QXXD motif at their C terminus that may be functionally important.
Probab=27.05 E-value=4.5 Score=28.68 Aligned_cols=16 Identities=25% Similarity=0.395 Sum_probs=12.6
Q ss_pred cccCCC--------chhHHHHHHH
Q 033736 4 TEENSQ--------LFPIFILTIM 19 (112)
Q Consensus 4 YDE~g~--------~fpyFvlt~l 19 (112)
.||+|+ .-|||+++.+
T Consensus 4 iDESG~~~~~~~~~~~~~fvl~gv 27 (235)
T PF12686_consen 4 IDESGNTGPNYSDKNSPYFVLGGV 27 (235)
T ss_pred EeCCCCCCCCcCCCCCCEEEEEEE
Confidence 499998 4899987765
No 31
>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1.9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....
Probab=26.98 E-value=86 Score=19.63 Aligned_cols=33 Identities=3% Similarity=0.146 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccc------cc-cccchhh
Q 033736 70 SNLSLVLLWVIMIILIYYIKSTSR------EV-NMFVKIL 102 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i~~~~~------~~-~~fDPYe 102 (112)
+++++.+.=.+.+.++++....++ +- +.|||++
T Consensus 19 ~~i~~a~~ls~~~~~~~kf~v~~pRKk~YadFYknYD~~k 58 (73)
T PF02937_consen 19 RHIVVAFVLSLGVAAAYKFGVAEPRKKAYADFYKNYDPMK 58 (73)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHT--HHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccChHH
Confidence 455454444455555555422222 33 6899983
No 32
>CHL00020 psbN photosystem II protein N
Probab=25.44 E-value=69 Score=18.22 Aligned_cols=30 Identities=3% Similarity=0.037 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHH-Hhccccc-cccchhh
Q 033736 73 SLVLLWVIMIILIYYI-KSTSREV-NMFVKIL 102 (112)
Q Consensus 73 ~lv~gW~l~~~L~y~i-~~~~~~~-~~fDPYe 102 (112)
.+.++=++++...|-+ .+..+.+ +.=||||
T Consensus 8 ~i~i~~ll~~~Tgy~iYtaFGppSk~LrDPfe 39 (43)
T CHL00020 8 AIFISGLLVSFTGYALYTAFGQPSKQLRDPFE 39 (43)
T ss_pred HHHHHHHHHHhhheeeeeccCCchhccCCchh
Confidence 3344445555666665 3344455 6789987
No 33
>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=24.94 E-value=1.3e+02 Score=17.04 Aligned_cols=26 Identities=12% Similarity=0.019 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHH-Hhccccc-cccchhh
Q 033736 77 LWVIMIILIYYI-KSTSREV-NMFVKIL 102 (112)
Q Consensus 77 gW~l~~~L~y~i-~~~~~~~-~~fDPYe 102 (112)
+=+++....|-+ ....+.+ +.=||||
T Consensus 12 ~~~lv~~Tgy~iYtaFGppSk~LrDPfe 39 (43)
T PF02468_consen 12 SCLLVSITGYAIYTAFGPPSKELRDPFE 39 (43)
T ss_pred HHHHHHHHhhhhhheeCCCccccCCccc
Confidence 334444444544 2344444 6779987
No 34
>TIGR03778 VPDSG_CTERM VPDSG-CTERM exosortase interaction domain. Through in silico analysis, we previously described the PEP-CTERM/exosortase system (PubMed:16930487). This model describes a PEP-CTERM-like variant C-terminal protein sorting signal, as found at the C-terminus of twenty otherwise unrelated proteins in Verrucomicrobiae bacterium DG1235. The variant motif, VPDSG, seems an intermediate between the VPEP motif (TIGR02595) of typical exosortase systems and the classical LPXTG of sortase in Gram-positive bacteria.
Probab=24.93 E-value=69 Score=16.28 Aligned_cols=18 Identities=11% Similarity=0.220 Sum_probs=12.3
Q ss_pred cCCCchhHHHHHHHhhhh
Q 033736 6 ENSQLFPIFILTIMALPL 23 (112)
Q Consensus 6 E~g~~fpyFvlt~l~lvL 23 (112)
++|.|..-+.+++++++.
T Consensus 3 DsGST~~Ll~~~l~~l~~ 20 (26)
T TIGR03778 3 DSGSTLALLGLGLLGLLG 20 (26)
T ss_pred CchhHHHHHHHHHHHHHH
Confidence 467787777777766654
No 35
>COG0713 NuoK NADH:ubiquinone oxidoreductase subunit 11 or 4L (chain K) [Energy production and conversion]
Probab=22.49 E-value=51 Score=22.09 Aligned_cols=17 Identities=35% Similarity=0.733 Sum_probs=13.7
Q ss_pred cccCCCchhHHHHHHHh
Q 033736 4 TEENSQLFPIFILTIMA 20 (112)
Q Consensus 4 YDE~g~~fpyFvlt~l~ 20 (112)
+|-+||.|.+|++|+-+
T Consensus 54 ~~~~gQvfaifvitvAA 70 (100)
T COG0713 54 GDLDGQVFAIFVITVAA 70 (100)
T ss_pred ccccchHHHHHHHHHHH
Confidence 35589999999998754
No 36
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=22.17 E-value=1.1e+02 Score=23.23 Aligned_cols=19 Identities=21% Similarity=0.551 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYYI 88 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~i 88 (112)
-|++|++.=+|+++++|.+
T Consensus 16 LNiaI~IV~lLIiiva~~l 34 (217)
T PF07423_consen 16 LNIAIGIVSLLIIIVAYQL 34 (217)
T ss_pred HHHHHHHHHHHHHHHhhhh
Confidence 4444444446666666665
No 37
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=21.24 E-value=61 Score=21.94 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=10.8
Q ss_pred hhHHHHHHHhhhhhhhhhhhhh
Q 033736 11 FPIFILTIMALPLVPYTILKLC 32 (112)
Q Consensus 11 fpyFvlt~l~lvLiP~T~~~l~ 32 (112)
|.+|++-+++++++=+...+..
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555444444443
No 38
>TIGR02736 cbb3_Q_epsi cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial. Members of this protein family are restricted to the epsilon branch of the Proteobacteria. All members are found in operons containing the other three structural subunits of the cbb3 type of cytochrome c oxidase. These small proteins show remote sequence similarity to the CcoQ subunit in other cytochrome c oxidase systems, so this family is assumed to represent the epsilonproteobacterial variant of CcoQ.
Probab=20.94 E-value=1e+02 Score=18.55 Aligned_cols=24 Identities=17% Similarity=0.354 Sum_probs=13.5
Q ss_pred hhHHHHHHHhhhhhhhhhhhhhcc
Q 033736 11 FPIFILTIMALPLVPYTILKLCHA 34 (112)
Q Consensus 11 fpyFvlt~l~lvLiP~T~~~l~~~ 34 (112)
+.||++|++..+++=--++.+++.
T Consensus 2 y~yf~~ti~lvv~LYgY~yhLYrs 25 (56)
T TIGR02736 2 YAYFAFTLLLVIFLYAYIYHLYRS 25 (56)
T ss_pred cchHHHHHHHHHHHHHHHHHhhhh
Confidence 357777776666663334444433
No 39
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=20.79 E-value=1.5e+02 Score=18.96 Aligned_cols=18 Identities=17% Similarity=0.381 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYY 87 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~ 87 (112)
-...++++|++..+-+.+
T Consensus 59 g~~~~~~~~~l~~~Yv~~ 76 (91)
T PF04341_consen 59 GLGQIVFAWVLTWLYVRR 76 (91)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 445566788887666555
No 40
>KOG1699 consensus O-acetyltransferase [General function prediction only]
Probab=20.51 E-value=1.7e+02 Score=24.28 Aligned_cols=13 Identities=31% Similarity=0.667 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHH
Q 033736 77 LWVIMIILIYYIK 89 (112)
Q Consensus 77 gW~l~~~L~y~i~ 89 (112)
||..+.+|+|++.
T Consensus 184 GWmqlv~LiYh~~ 196 (442)
T KOG1699|consen 184 GWMQLVFLIYHYF 196 (442)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999986
No 41
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=20.45 E-value=29 Score=19.55 Aligned_cols=10 Identities=30% Similarity=0.481 Sum_probs=8.1
Q ss_pred ccccCCCchh
Q 033736 3 ATEENSQLFP 12 (112)
Q Consensus 3 ~YDE~g~~fp 12 (112)
=|+|+|+.||
T Consensus 29 yY~~k~~~~P 38 (41)
T PF14475_consen 29 YYTEKGRPFP 38 (41)
T ss_pred HHHHcCCCCC
Confidence 4888888887
No 42
>COG3083 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]
Probab=20.19 E-value=68 Score=27.72 Aligned_cols=24 Identities=25% Similarity=0.566 Sum_probs=20.3
Q ss_pred hhHHHHHHHhhhhhhhhhhhhhcc
Q 033736 11 FPIFILTIMALPLVPYTILKLCHA 34 (112)
Q Consensus 11 fpyFvlt~l~lvLiP~T~~~l~~~ 34 (112)
|.|++.+.+.+++.|+|...+++.
T Consensus 61 FsflvFA~yLlvlfpltfiv~s~r 84 (600)
T COG3083 61 FSFLVFALYLLVLFPLTFIVLSQR 84 (600)
T ss_pred HHHHHHHHHHHHHhhhhhhcccHH
Confidence 678889999999999998777655
No 43
>PF15128 T_cell_tran_alt: T-cell leukemia translocation-altered
Probab=20.07 E-value=1.9e+02 Score=18.98 Aligned_cols=18 Identities=22% Similarity=0.521 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 033736 70 SNLSLVLLWVIMIILIYY 87 (112)
Q Consensus 70 ~~i~lv~gW~l~~~L~y~ 87 (112)
.++-+++||.++..++-.
T Consensus 26 ~ifkllL~WlvlsLl~I~ 43 (92)
T PF15128_consen 26 QIFKLLLGWLVLSLLAIH 43 (92)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 556688899998766543
No 44
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=20.01 E-value=44 Score=28.14 Aligned_cols=8 Identities=25% Similarity=0.360 Sum_probs=7.4
Q ss_pred CccccCCC
Q 033736 2 AATEENSQ 9 (112)
Q Consensus 2 ~~YDE~g~ 9 (112)
|+|||+||
T Consensus 385 ~~~~~~~~ 392 (486)
T PRK07899 385 AEYDEQGN 392 (486)
T ss_pred cccccCCC
Confidence 79999998
Done!