Query psy4066
Match_columns 69
No_of_seqs 101 out of 141
Neff 4.7
Searched_HMMs 46136
Date Sat Aug 17 00:26:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4066.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4066hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02935 COX7C: Cytochrome c o 100.0 2E-31 4.2E-36 160.3 5.4 62 6-67 2-65 (65)
2 cd00929 Cyt_c_Oxidase_VIIc Cyt 99.9 3.9E-28 8.4E-33 138.5 4.9 46 21-66 1-46 (46)
3 KOG4527|consensus 99.9 2.2E-26 4.8E-31 142.4 3.1 68 1-68 1-75 (76)
4 PF11119 DUF2633: Protein of u 73.8 8.7 0.00019 22.9 3.9 31 37-67 10-41 (59)
5 PF03672 UPF0154: Uncharacteri 59.3 13 0.00029 22.3 2.8 22 45-66 3-24 (64)
6 PRK01844 hypothetical protein; 58.3 27 0.00058 21.5 4.1 25 42-66 7-31 (72)
7 COG3763 Uncharacterized protei 55.1 33 0.00071 21.2 4.0 26 42-67 7-32 (71)
8 COG4578 GutM Glucitol operon a 53.1 33 0.00072 23.2 4.2 31 36-66 2-32 (128)
9 PF15050 SCIMP: SCIMP protein 50.2 36 0.00079 23.2 4.0 31 36-66 6-37 (133)
10 PRK00523 hypothetical protein; 48.8 47 0.001 20.5 4.0 23 44-66 10-32 (72)
11 PRK06439 NADH dehydrogenase su 43.8 35 0.00077 21.0 2.9 24 37-61 2-25 (72)
12 PF13150 DUF3989: Protein of u 42.7 53 0.0012 20.4 3.7 35 35-69 24-58 (85)
13 PF06422 PDR_CDR: CDR ABC tran 42.6 52 0.0011 20.6 3.7 37 29-65 39-75 (103)
14 PF07954 DUF1689: Protein of u 32.7 47 0.001 22.8 2.5 24 45-68 37-60 (152)
15 COG4905 Predicted membrane pro 32.6 24 0.00052 26.1 1.1 28 22-49 91-119 (243)
16 KOG0072|consensus 29.7 25 0.00053 25.1 0.7 11 25-35 56-66 (182)
17 PF06541 DUF1113: Protein of u 28.9 61 0.0013 21.6 2.5 42 22-63 85-130 (157)
18 PF14342 DUF4396: Domain of un 28.6 1E+02 0.0022 20.6 3.6 28 41-68 110-137 (139)
19 PF12273 RCR: Chitin synthesis 28.1 78 0.0017 20.3 2.9 6 38-43 1-6 (130)
20 PF10799 YliH: Biofilm formati 24.9 46 0.001 22.5 1.3 12 58-69 21-32 (127)
21 PRK06740 histidinol-phosphatas 23.0 32 0.0007 25.7 0.3 9 22-30 8-16 (331)
22 PF10749 DUF2534: Protein of u 22.5 1E+02 0.0022 19.6 2.5 33 27-59 40-78 (85)
23 PRK12302 bssR biofilm formatio 22.0 56 0.0012 22.0 1.3 12 58-69 21-32 (127)
24 PF06432 GPI2: Phosphatidylino 21.2 1.8E+02 0.0038 21.3 3.9 25 43-67 251-275 (282)
25 PF10851 DUF2652: Protein of u 20.7 56 0.0012 21.9 1.1 11 58-68 100-110 (116)
No 1
>PF02935 COX7C: Cytochrome c oxidase subunit VIIc; InterPro: IPR004202 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. This entry represents cytochrome C subunit 7C. The yeast member of this family is called cytochrome C subunit 8P.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3ABL_Y 3ABM_L 2EIM_L 3ASO_L 3AG3_Y 3AG1_Y 1OCC_Y 2DYS_Y 2OCC_L 1V54_L ....
Probab=99.97 E-value=2e-31 Score=160.34 Aligned_cols=62 Identities=45% Similarity=0.709 Sum_probs=39.5
Q ss_pred hhhh-hhhhchhhhhhcc-CCCCCCCCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhhhc
Q psy4066 6 LAKT-VRCFSTSAARASH-AYSGPGQNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 6 l~~~-~R~f~ts~~r~sh-~~eGp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~ 67 (69)
+.|+ +|++.++.+|.+| ++||||+|||||++||+.++++||+|||+||++||+|++|||+|+
T Consensus 2 ~~r~~~rr~~~~~~R~~~~~~~gp~~NLPF~~~nK~~~~~~~~~f~g~GF~~PF~~~~~Ql~Ks 65 (65)
T PF02935_consen 2 LSRQAARRFFTSAVRSSHSYPEGPYSNLPFNVKNKWPFAVKFWGFFGSGFAAPFLIVRWQLKKS 65 (65)
T ss_dssp -------------------S--STTTSSSS--SSHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred chhHHHHHHHHHHHHccCCCCCCCCCcccccCcchhHHHHHHHHHHHHHHHhHHHHHHHHHhcC
Confidence 4444 7888888899988 999999999999999999999999999999999999999999996
No 2
>cd00929 Cyt_c_Oxidase_VIIc Cytochrome c oxidase subunit VIIc. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. The VIIc subunit is found only in eukaryotes and its specific function remains unclear. Peroxide inactivation of bovine CcO coincides with the direct oxidation of tryptophan (W19) within subunit VIIc, along with other structural changes in other subunits.
Probab=99.95 E-value=3.9e-28 Score=138.50 Aligned_cols=46 Identities=59% Similarity=1.024 Sum_probs=44.7
Q ss_pred ccCCCCCCCCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhhh
Q psy4066 21 SHAYSGPGQNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLLK 66 (69)
Q Consensus 21 sh~~eGp~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K 66 (69)
||++||||+||||+++||++++++|++|||+||++||+|++|||+|
T Consensus 1 ~h~~egp~sNLPF~~~nk~~~~~~~~~ffg~GF~~PF~i~~~Ql~K 46 (46)
T cd00929 1 SHYGEGPGSNLPFSVTNKWRLTALFHLFFGSGFSAPFIVVRHQLLK 46 (46)
T ss_pred CCCCCCCCCCCCcccCccchHHHHHHHHHHHHHhhhHHHHHHHhhC
Confidence 5999999999999999999999999999999999999999999998
No 3
>KOG4527|consensus
Probab=99.92 E-value=2.2e-26 Score=142.35 Aligned_cols=68 Identities=43% Similarity=0.627 Sum_probs=64.2
Q ss_pred Ccc-hhhhhhhhhhchhhhhhccCCCCC------CCCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhhhcC
Q psy4066 1 MLG-SRLAKTVRCFSTSAARASHAYSGP------GQNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLLKSR 68 (69)
Q Consensus 1 ~~~-~~l~~~~R~f~ts~~r~sh~~eGp------~sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~~ 68 (69)
|+- .||.+++|+++++.+|.+|++++| |.||||+++|||.+++++++||++||++||++|+|||+|++
T Consensus 1 m~~~~ml~~~a~r~s~~mvR~~h~~~sp~~~~~~geNLPF~vtnKw~~aak~~~ffaigFa~PFlvv~~QL~K~~ 75 (76)
T KOG4527|consen 1 MLCQQMLRTTAKRSSNIMVRPSHMKRSPHFKDGVGENLPFKVTNKWTYAAKHFGFFAIGFAVPFLVVRHQLLKSG 75 (76)
T ss_pred ChHHHHHHHHHhhhhhhheecccccCCCCcccccCCCCCeEeechHHHHHHHHHHHHHhccCcceeehhhhhhcc
Confidence 444 688999999999999999999999 99999999999999999999999999999999999999986
No 4
>PF11119 DUF2633: Protein of unknown function (DUF2633); InterPro: IPR022576 This family is conserved largely in Proteobacteria. Several members are named as YfgG. The function is not known.
Probab=73.81 E-value=8.7 Score=22.92 Aligned_cols=31 Identities=23% Similarity=0.103 Sum_probs=26.4
Q ss_pred chhHHHHHHHHHHH-HhhhHHHHHHHHHhhhc
Q psy4066 37 NRYKLTLYFGLFMM-TGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 37 nk~~~~~~~~~f~g-~GF~~PF~i~~~Ql~K~ 67 (69)
.|+.+++-++.||| +-++++=-+..||=+|+
T Consensus 10 triVLLISfiIlfgRl~Y~~I~a~~hHq~k~~ 41 (59)
T PF11119_consen 10 TRIVLLISFIILFGRLIYSAIGAWVHHQDKKQ 41 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 57888888999999 88889888999988764
No 5
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=59.29 E-value=13 Score=22.35 Aligned_cols=22 Identities=23% Similarity=0.306 Sum_probs=18.6
Q ss_pred HHHHHHHhhhHHHHHHHHHhhh
Q psy4066 45 FGLFMMTGFGVPFIAVRHQLLK 66 (69)
Q Consensus 45 ~~~f~g~GF~~PF~i~~~Ql~K 66 (69)
.++.+.+|+.+=|+++++++.|
T Consensus 3 iilali~G~~~Gff~ar~~~~k 24 (64)
T PF03672_consen 3 IILALIVGAVIGFFIARKYMEK 24 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788999999999999987
No 6
>PRK01844 hypothetical protein; Provisional
Probab=58.30 E-value=27 Score=21.55 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHhhh
Q psy4066 42 TLYFGLFMMTGFGVPFIAVRHQLLK 66 (69)
Q Consensus 42 ~~~~~~f~g~GF~~PF~i~~~Ql~K 66 (69)
.+..++.+.+|..+=|++++.++.|
T Consensus 7 I~l~I~~li~G~~~Gff~ark~~~k 31 (72)
T PRK01844 7 ILVGVVALVAGVALGFFIARKYMMN 31 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455788899999999999999876
No 7
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.10 E-value=33 Score=21.18 Aligned_cols=26 Identities=27% Similarity=0.355 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHhhhc
Q psy4066 42 TLYFGLFMMTGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 42 ~~~~~~f~g~GF~~PF~i~~~Ql~K~ 67 (69)
.+...+++..|+..=|++++-|++|.
T Consensus 7 il~ivl~ll~G~~~G~fiark~~~k~ 32 (71)
T COG3763 7 ILLIVLALLAGLIGGFFIARKQMKKQ 32 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888899999999999998873
No 8
>COG4578 GutM Glucitol operon activator [Transcription]
Probab=53.11 E-value=33 Score=23.23 Aligned_cols=31 Identities=3% Similarity=-0.052 Sum_probs=22.9
Q ss_pred cchhHHHHHHHHHHHHhhhHHHHHHHHHhhh
Q psy4066 36 HNRYKLTLYFGLFMMTGFGVPFIAVRHQLLK 66 (69)
Q Consensus 36 ~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K 66 (69)
+|+..-.-..++++..-+.+=++..|||+.+
T Consensus 2 ~~~~~~~~~lI~~~vi~w~~q~algwwQ~sr 32 (128)
T COG4578 2 STTMRMWPALIALAVIAWCAQLALGWWQWSR 32 (128)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455554456777788888889999999975
No 9
>PF15050 SCIMP: SCIMP protein
Probab=50.24 E-value=36 Score=23.21 Aligned_cols=31 Identities=16% Similarity=0.172 Sum_probs=21.1
Q ss_pred cchhHHHHHHHHHHHHhhhHHH-HHHHHHhhh
Q psy4066 36 HNRYKLTLYFGLFMMTGFGVPF-IAVRHQLLK 66 (69)
Q Consensus 36 ~nk~~~~~~~~~f~g~GF~~PF-~i~~~Ql~K 66 (69)
+|=|++++.-+++.+++.++-. -+++|||++
T Consensus 6 ~nFWiiLAVaII~vS~~lglIlyCvcR~~lRq 37 (133)
T PF15050_consen 6 DNFWIILAVAIILVSVVLGLILYCVCRWQLRQ 37 (133)
T ss_pred hchHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4567766556777777776544 488888875
No 10
>PRK00523 hypothetical protein; Provisional
Probab=48.82 E-value=47 Score=20.47 Aligned_cols=23 Identities=9% Similarity=0.064 Sum_probs=19.5
Q ss_pred HHHHHHHHhhhHHHHHHHHHhhh
Q psy4066 44 YFGLFMMTGFGVPFIAVRHQLLK 66 (69)
Q Consensus 44 ~~~~f~g~GF~~PF~i~~~Ql~K 66 (69)
..++.+.+|..+=|++++.++.|
T Consensus 10 l~i~~li~G~~~Gffiark~~~k 32 (72)
T PRK00523 10 LGIPLLIVGGIIGYFVSKKMFKK 32 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667889999999999999877
No 11
>PRK06439 NADH dehydrogenase subunit J; Provisional
Probab=43.77 E-value=35 Score=20.97 Aligned_cols=24 Identities=29% Similarity=0.542 Sum_probs=17.3
Q ss_pred chhHHHHHHHHHHHHhhhHHHHHHH
Q psy4066 37 NRYKLTLYFGLFMMTGFGVPFIAVR 61 (69)
Q Consensus 37 nk~~~~~~~~~f~g~GF~~PF~i~~ 61 (69)
||+. ...-.++||.||+.|....+
T Consensus 2 ~~~~-~~~~~~~~~~~f~~~~~~~~ 25 (72)
T PRK06439 2 NKYL-ALIAIILFFIAFAVPVAFMR 25 (72)
T ss_pred chHH-HHHHHHHHHHHHHHHHHHhc
Confidence 4553 33567899999999987654
No 12
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=42.68 E-value=53 Score=20.40 Aligned_cols=35 Identities=11% Similarity=0.092 Sum_probs=26.3
Q ss_pred ccchhHHHHHHHHHHHHhhhHHHHHHHHHhhhcCC
Q psy4066 35 THNRYKLTLYFGLFMMTGFGVPFIAVRHQLLKSRG 69 (69)
Q Consensus 35 ~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~K~~~ 69 (69)
++.|....+.+++.|+++...=++.+.+.+-|..|
T Consensus 24 p~~R~~vvl~ml~~fa~l~ly~~~~ai~~~Gk~~g 58 (85)
T PF13150_consen 24 PKQRLRVVLVMLVLFAALCLYMTVSAIYDIGKEDG 58 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcc
Confidence 45566666678888888888888888888876654
No 13
>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=42.56 E-value=52 Score=20.60 Aligned_cols=37 Identities=8% Similarity=0.087 Sum_probs=26.5
Q ss_pred CCCcccccchhHHHHHHHHHHHHhhhHHHHHHHHHhh
Q psy4066 29 QNLPFDTHNRYKLTLYFGLFMMTGFGVPFIAVRHQLL 65 (69)
Q Consensus 29 sNLPF~~~nk~~~~~~~~~f~g~GF~~PF~i~~~Ql~ 65 (69)
...-|+..++|+=....++|+...+.+-++++.++-.
T Consensus 39 ~~y~y~~sh~WRN~GIli~f~i~f~~~~~~~~e~~~~ 75 (103)
T PF06422_consen 39 ESYGYSYSHRWRNFGILIAFWIFFIVLTLLATEFIKF 75 (103)
T ss_pred hhccccccchhhhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3456778999997666778887777777777665543
No 14
>PF07954 DUF1689: Protein of unknown function (DUF1689) ; InterPro: IPR012470 Family of fungal proteins with unknown function. A member of this family has been found to localise in the mitochondria [].
Probab=32.68 E-value=47 Score=22.83 Aligned_cols=24 Identities=21% Similarity=-0.049 Sum_probs=18.1
Q ss_pred HHHHHHHhhhHHHHHHHHHhhhcC
Q psy4066 45 FGLFMMTGFGVPFIAVRHQLLKSR 68 (69)
Q Consensus 45 ~~~f~g~GF~~PF~i~~~Ql~K~~ 68 (69)
-|+=+.+||++||+--+++..+.+
T Consensus 37 g~~~~~~gF~~Pt~y~~yk~~~~~ 60 (152)
T PF07954_consen 37 GYGGFMAGFFAPTAYYRYKTGAIK 60 (152)
T ss_pred HHHHHHHHHhhHHHHHHHhccccc
Confidence 456678899999998888655544
No 15
>COG4905 Predicted membrane protein [Function unknown]
Probab=32.60 E-value=24 Score=26.06 Aligned_cols=28 Identities=21% Similarity=0.087 Sum_probs=18.8
Q ss_pred cCCCCCCCCCcccccchhHHH-HHHHHHH
Q psy4066 22 HAYSGPGQNLPFDTHNRYKLT-LYFGLFM 49 (69)
Q Consensus 22 h~~eGp~sNLPF~~~nk~~~~-~~~~~f~ 49 (69)
|..-=-|||.|+|++.|--+- -.+|++.
T Consensus 91 n~kwWDYsn~p~Ni~Griclp~SlfWG~~ 119 (243)
T COG4905 91 NCKWWDYSNDPANIHGRICLPYSLFWGML 119 (243)
T ss_pred cCcccccCCCccccceEEEeehHHHHHHH
Confidence 444447999999999987652 2345443
No 16
>KOG0072|consensus
Probab=29.69 E-value=25 Score=25.09 Aligned_cols=11 Identities=36% Similarity=0.558 Sum_probs=9.5
Q ss_pred CCCCCCCcccc
Q psy4066 25 SGPGQNLPFDT 35 (69)
Q Consensus 25 eGp~sNLPF~~ 35 (69)
.-||+||||++
T Consensus 56 ~v~yKNLk~~v 66 (182)
T KOG0072|consen 56 TVPYKNLKFQV 66 (182)
T ss_pred cccccccccee
Confidence 44999999998
No 17
>PF06541 DUF1113: Protein of unknown function (DUF1113); InterPro: IPR010540 This family consists of several bacterial proteins of unknown function.
Probab=28.86 E-value=61 Score=21.65 Aligned_cols=42 Identities=19% Similarity=0.093 Sum_probs=25.5
Q ss_pred cCCCCCCCCCcccccchhHHH-HHHHHHHH---HhhhHHHHHHHHH
Q psy4066 22 HAYSGPGQNLPFDTHNRYKLT-LYFGLFMM---TGFGVPFIAVRHQ 63 (69)
Q Consensus 22 h~~eGp~sNLPF~~~nk~~~~-~~~~~f~g---~GF~~PF~i~~~Q 63 (69)
|...=-||+.|||.+.+--+. ...|+..+ .-+.-|.+....+
T Consensus 85 ~~~~WDYS~~~~n~~G~Icl~~s~~wg~l~~~~~~~i~P~~~~~~~ 130 (157)
T PF06541_consen 85 GARWWDYSDLPFNIQGRICLPFSLFWGLLGLLFVKVIHPLLFKLLS 130 (157)
T ss_pred CCccCcCCCCcCCcCCEehHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455457999999998886653 23344333 3445566654443
No 18
>PF14342 DUF4396: Domain of unknown function (DUF4396)
Probab=28.57 E-value=1e+02 Score=20.60 Aligned_cols=28 Identities=14% Similarity=0.203 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHhhhcC
Q psy4066 41 LTLYFGLFMMTGFGVPFIAVRHQLLKSR 68 (69)
Q Consensus 41 ~~~~~~~f~g~GF~~PF~i~~~Ql~K~~ 68 (69)
++..+.+=+..||.+|+-+.+|.++|-.
T Consensus 110 FW~~m~iam~~GF~~a~P~N~wli~~g~ 137 (139)
T PF14342_consen 110 FWFMMQIAMLAGFLTAYPVNWWLIKKGI 137 (139)
T ss_pred HHHHHHHHHHHHHHHhcchHHHHHHhcC
Confidence 4445788899999999999999998854
No 19
>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=28.14 E-value=78 Score=20.26 Aligned_cols=6 Identities=33% Similarity=0.429 Sum_probs=3.0
Q ss_pred hhHHHH
Q psy4066 38 RYKLTL 43 (69)
Q Consensus 38 k~~~~~ 43 (69)
||.+++
T Consensus 1 RW~l~~ 6 (130)
T PF12273_consen 1 RWVLFA 6 (130)
T ss_pred CeeeHH
Confidence 455543
No 20
>PF10799 YliH: Biofilm formation protein (YliH/bssR); InterPro: IPR020359 This entry represents Biofilm regulator, BssR (from the gene also known as yliH). It represses Escherichia coli biofilm formation in M9C glu and LB glu media but not in M9C and LB media. It may act as a global regulator of several genes involved in catabolite repression and stress response and regulation of the uptake and export of signalling pathways. It could also be involved the regulation of indole as well as uptake and export of AI-2 through a cAMP-dependent pathway [].
Probab=24.87 E-value=46 Score=22.53 Aligned_cols=12 Identities=42% Similarity=0.548 Sum_probs=10.4
Q ss_pred HHHHHHhhhcCC
Q psy4066 58 IAVRHQLLKSRG 69 (69)
Q Consensus 58 ~i~~~Ql~K~~~ 69 (69)
+.++-||.|++|
T Consensus 21 LaAYLQLRkAKG 32 (127)
T PF10799_consen 21 LAAYLQLRKAKG 32 (127)
T ss_pred HHHHHHHHHHcC
Confidence 578999999987
No 21
>PRK06740 histidinol-phosphatase; Validated
Probab=22.96 E-value=32 Score=25.65 Aligned_cols=9 Identities=33% Similarity=0.368 Sum_probs=7.8
Q ss_pred cCCCCCCCC
Q psy4066 22 HAYSGPGQN 30 (69)
Q Consensus 22 h~~eGp~sN 30 (69)
|.+|||||+
T Consensus 8 ~~~~~~~~~ 16 (331)
T PRK06740 8 HLEEGPYSI 16 (331)
T ss_pred eeccCccch
Confidence 888999986
No 22
>PF10749 DUF2534: Protein of unknown function (DUF2534); InterPro: IPR019685 This entry represents proteins with unknown function, and appear to be restricted to Enterobacteriaceae.
Probab=22.54 E-value=1e+02 Score=19.61 Aligned_cols=33 Identities=18% Similarity=0.393 Sum_probs=20.4
Q ss_pred CCCCCccccc--chhHH----HHHHHHHHHHhhhHHHHH
Q psy4066 27 PGQNLPFDTH--NRYKL----TLYFGLFMMTGFGVPFIA 59 (69)
Q Consensus 27 p~sNLPF~~~--nk~~~----~~~~~~f~g~GF~~PF~i 59 (69)
---|+||+-- .-++. ...|-.-|..-+++|+..
T Consensus 40 ~qYniP~s~WttsMf~~Q~ami~vYS~VFT~L~sIPlg~ 78 (85)
T PF10749_consen 40 EQYNIPFSEWTTSMFILQGAMILVYSIVFTILLSIPLGF 78 (85)
T ss_pred HHhCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4569999852 22222 124566678888888864
No 23
>PRK12302 bssR biofilm formation regulatory protein BssR; Reviewed
Probab=22.04 E-value=56 Score=21.98 Aligned_cols=12 Identities=42% Similarity=0.548 Sum_probs=10.3
Q ss_pred HHHHHHhhhcCC
Q psy4066 58 IAVRHQLLKSRG 69 (69)
Q Consensus 58 ~i~~~Ql~K~~~ 69 (69)
++++-||.|++|
T Consensus 21 laAYlqLRkAKG 32 (127)
T PRK12302 21 LAAYLQLRKAKG 32 (127)
T ss_pred HHHHHHHHHHcC
Confidence 578999999987
No 24
>PF06432 GPI2: Phosphatidylinositol N-acetylglucosaminyltransferase; InterPro: IPR009450 Glycosylphosphatidylinositol (GPI) represents an important anchoring molecule for cell surface proteins. The first step in its synthesis is the transfer of N-acetylglucosamine (GlcNAc) from UDP-N-acetylglucosamine to phosphatidylinositol (PI). This step involves products of three or four genes in both yeast (GPI1, GPI2 and GPI3) and mammals (GPI1, PIG A, PIG H and PIG C), respectively.; GO: 0017176 phosphatidylinositol N-acetylglucosaminyltransferase activity, 0006506 GPI anchor biosynthetic process, 0016021 integral to membrane
Probab=21.21 E-value=1.8e+02 Score=21.26 Aligned_cols=25 Identities=32% Similarity=0.469 Sum_probs=19.7
Q ss_pred HHHHHHHHHhhhHHHHHHHHHhhhc
Q psy4066 43 LYFGLFMMTGFGVPFIAVRHQLLKS 67 (69)
Q Consensus 43 ~~~~~f~g~GF~~PF~i~~~Ql~K~ 67 (69)
....+.+.+-|..|...+++|-+|+
T Consensus 251 ~~~~~~~~i~~v~P~~~v~~Q~yK~ 275 (282)
T PF06432_consen 251 LFLLLVLFITFVCPWWFVRLQRYKN 275 (282)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccC
Confidence 3445566677889999999999987
No 25
>PF10851 DUF2652: Protein of unknown function (DUF2652) ; InterPro: IPR020503 This entry contains proteins with no known function.
Probab=20.67 E-value=56 Score=21.86 Aligned_cols=11 Identities=36% Similarity=0.579 Sum_probs=8.4
Q ss_pred HHHHHHhhhcC
Q psy4066 58 IAVRHQLLKSR 68 (69)
Q Consensus 58 ~i~~~Ql~K~~ 68 (69)
+|+.|||+|+.
T Consensus 100 VI~aHrlLKN~ 110 (116)
T PF10851_consen 100 VIEAHRLLKND 110 (116)
T ss_pred hhHhHHHHcCC
Confidence 47788998874
Done!