Query psy1373
Match_columns 231
No_of_seqs 115 out of 357
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 19:02:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1373.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1373hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08740 BCS1_N: BCS1 N termin 100.0 1.9E-44 4.2E-49 299.8 21.1 168 23-191 1-187 (187)
2 KOG0743|consensus 99.7 3.3E-19 7.2E-24 163.4 -4.1 133 86-219 97-231 (457)
3 PF03633 Glyco_hydro_65C: Glyc 66.1 11 0.00024 24.5 3.7 38 104-143 11-48 (54)
4 PF03487 IL13: Interleukin-13; 46.7 12 0.00027 23.3 1.2 22 135-156 8-38 (43)
5 COG5005 Mu-like prophage prote 43.4 13 0.00029 29.2 1.2 30 181-212 108-137 (140)
6 PF06724 DUF1206: Domain of Un 41.8 55 0.0012 22.5 4.2 37 4-40 34-70 (73)
7 PF10163 EnY2: Transcription f 32.1 19 0.0004 26.1 0.5 18 193-210 69-86 (86)
8 PF15603 Imm45: Immunity prote 30.3 70 0.0015 23.1 3.2 44 162-213 33-76 (82)
9 PF12911 OppC_N: N-terminal TM 28.9 61 0.0013 20.8 2.5 31 3-33 5-35 (56)
10 COG5399 Uncharacterized protei 25.1 1.4E+02 0.0029 23.5 4.1 73 136-211 51-129 (139)
11 PF15513 DUF4651: Domain of un 23.6 40 0.00087 23.1 0.9 16 196-211 2-17 (62)
12 KOG2285|consensus 23.2 63 0.0014 31.1 2.4 53 166-225 522-578 (777)
No 1
>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].
Probab=100.00 E-value=1.9e-44 Score=299.80 Aligned_cols=168 Identities=38% Similarity=0.573 Sum_probs=151.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhheeEEEEEcCCChhHHHHHHHHhhCC-CCceeEEEEEeeeeeeC-------------
Q psy1373 23 FGLGAGAAILRKGAQIGTILFRRHYMITLEIPCRDKSYHWLLHWITVRG-AKKTQHLSVETSFEKFD------------- 88 (231)
Q Consensus 23 ~~lg~~~~~~r~~~~~~~~~~~~~~~~sveI~~~D~~Y~~v~~Wl~~~~-~~~sr~l~v~T~~~~~~------------- 88 (231)
+++|++++++|+++..++.++.++|++||||+++|++|+|||.||++|| ..++|++.|.|...+..
T Consensus 1 ~~lg~~~~~~r~~~~~~~~~~~~~f~~sv~I~~~D~~Y~~lm~Wls~q~~~~~~r~~~~~t~~~~~~~~~~~~~~~~~~~ 80 (187)
T PF08740_consen 1 MVLGALWAALRYLYSSLWNLFRRRFTSSVEIPSDDEAYDWLMRWLSSQPFSKRSRHLSATTRSNSSWDDDESDDEDSWDT 80 (187)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHhEEEEEEECCCCHHHHHHHHHHhhCCcccccceeEEEeecccccccccccccchhcc
Confidence 4689999999999999999999999999999999999999999999999 67899999999664311
Q ss_pred --CCcccceeeEecCCCceEEEEcCEEEEEEEeeccccccCCCCCcceEEEEEEccc-hHHHHHHHHHHHHHHHHhCCCe
Q psy1373 89 --TGYVKTKYDFIPSIGTHLFSYQGNWIRVERSRESTTLDIQQGIPWETVTNCNNGG-VIVLRSKRQEARTLALKQYEGK 165 (231)
Q Consensus 89 --~g~~~~~~~~~P~~G~h~F~y~G~~~~v~R~~~~~~~~~~~g~~~E~ltls~lg~-~~~l~~lL~ear~~~~~~~~~~ 165 (231)
.+..++++.|+|++|+|+|||+|+||+|+|.+++...+...|.+.|+|+|+|||| ++||++||+|||+.++++++++
T Consensus 81 ~~~~~~~~~~~~~P~~G~h~F~y~G~~~~~~R~~~~~~~~~~~~~~~e~l~l~~lg~s~~~l~~ll~ear~~~~~~~~~~ 160 (187)
T PF08740_consen 81 NTSDDKKKPIRFTPSPGTHWFWYKGRWFWFSRQRESNSYNSWTGAPDETLTLSCLGRSPKPLKDLLEEAREYYLKKQKGK 160 (187)
T ss_pred ccccCCcCCeEEEeCCCCEEEEECCEEEEEEEEeccccccccCCCCceEEEEEEecCCHHHHHHHHHHHHHHHHHhcCCc
Confidence 1235789999999999999999999999999966544444567899999999999 9999999999999999999999
Q ss_pred EEEEecCCCC--ceeCCCCCCCCCCCee
Q psy1373 166 TVMYTALGSE--WRPFGHPKRRRPLNSV 191 (231)
Q Consensus 166 t~Iy~~~~~~--W~~~~~~r~~Rpl~TV 191 (231)
|+||++.+.+ |++. .+||+||||||
T Consensus 161 t~Iy~~~~~~~~W~~~-~~r~~RplsTV 187 (187)
T PF08740_consen 161 TTIYRADGSEYRWRRV-ASRPKRPLSTV 187 (187)
T ss_pred EEEEeCCCCCCCCcCC-CCcCCCCCCCC
Confidence 9999999877 9994 99999999998
No 2
>KOG0743|consensus
Probab=99.70 E-value=3.3e-19 Score=163.44 Aligned_cols=133 Identities=27% Similarity=0.434 Sum_probs=118.4
Q ss_pred eeCCCcccceeeEecCCCceEEEEcCEEEEEEEeeccccccCC-CCCcceEEEEEEccc-hHHHHHHHHHHHHHHHHhCC
Q psy1373 86 KFDTGYVKTKYDFIPSIGTHLFSYQGNWIRVERSRESTTLDIQ-QGIPWETVTNCNNGG-VIVLRSKRQEARTLALKQYE 163 (231)
Q Consensus 86 ~~~~g~~~~~~~~~P~~G~h~F~y~G~~~~v~R~~~~~~~~~~-~g~~~E~ltls~lg~-~~~l~~lL~ear~~~~~~~~ 163 (231)
..+++.....++.+|..+.|+++|++.|+.+.|.++++..+-. .+.+.|.|+.|.++. ....+++++++|+..+-..+
T Consensus 97 ~~~~~~i~d~f~gv~~~w~~~~~~~~~~~~~~~~~~~r~~~L~f~k~~~e~V~~syl~~v~~~~k~I~~~~r~~kl~t~~ 176 (457)
T KOG0743|consen 97 LDDNEEISDEFEGVPVKWRHFVDYNEKWIFVEREREKRYFELTFHKKPRELVTLSYLPYVVSKAKEILEENRELKLYTNS 176 (457)
T ss_pred ecCCcEEEEEEeceEEEEEEEEEecCcccccccCCcceEEEEEecCccHHHhHHhHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 3566788899999999999999999999999888777643322 456789999999999 99999999999999999999
Q ss_pred CeEEEEecCCCCceeCCCCCCCCCCCeeeeCchhHHHHHhhHHhccCCCCCccccc
Q psy1373 164 GKTVMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILNRPRGIVTQRTVSPFQP 219 (231)
Q Consensus 164 ~~t~Iy~~~~~~W~~~~~~r~~Rpl~TViLd~~~Ke~ll~Di~eFL~~~t~~wY~~ 219 (231)
+++++|.+.+++|+.++-++| |+++||+||++.|++|++|+.+|++.++||-=.+
T Consensus 177 ~~~~~~~~~~~~W~~v~f~Hp-stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvG 231 (457)
T KOG0743|consen 177 GKTVIYTAKGGEWRSVGFPHP-STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVG 231 (457)
T ss_pred CCcccccccCCcceecCCCCC-CCccccccChhHHHHHHHHHHHHHhcchHHHhcC
Confidence 999999999999999977777 9999999999999999999999999999884433
No 3
>PF03633 Glyco_hydro_65C: Glycosyl hydrolase family 65, C-terminal domain ; InterPro: IPR005194 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This family of glycosyl hydrolases (GH65 from CAZY) contains this domain and includes vacuolar acid trehalase and maltose phosphorylases. Maltose phosphorylase (MP) is a dimeric enzyme that catalyzes the conversion of maltose and inorganic phosphate into beta-D-glucose-1-phosphate and glucose. The C-terminal domain forms a two layered jelly roll motif. This domain is situated at the base of the catalytic domain, however its function remains unknown [].; PDB: 1H54_A.
Probab=66.06 E-value=11 Score=24.49 Aligned_cols=38 Identities=26% Similarity=0.487 Sum_probs=24.6
Q ss_pred ceEEEEcCEEEEEEEeeccccccCCCCCcceEEEEEEccc
Q psy1373 104 THLFSYQGNWIRVERSRESTTLDIQQGIPWETVTNCNNGG 143 (231)
Q Consensus 104 ~h~F~y~G~~~~v~R~~~~~~~~~~~g~~~E~ltls~lg~ 143 (231)
+.-|.|+|+++.|+-.++.-+.....|. +.|+|.+.|.
T Consensus 11 ~F~~~~rg~~l~v~i~~~~v~v~~~~g~--~~l~i~v~g~ 48 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEKVTVTLLSGD--APLTIKVYGE 48 (54)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEESS----EEEEETT-
T ss_pred EEEEEECCEEEEEEEECCEEEEEEccCC--ccEEEEECCC
Confidence 4568999999999888765443323332 4688888875
No 4
>PF03487 IL13: Interleukin-13; InterPro: IPR020470 Interleukin-13 (IL-13) is a pleiotropic cytokine which may be important in the regulation of the inflammatory and immune responses []. It inhibits inflammatory cytokine production and synergises with IL-2 in regulating interferon-gamma synthesis. The sequences of IL-4 and IL-13 are distantly related.; PDB: 3G6D_A 3L5W_J 3BPO_A 1GA3_A 1IK0_A 3L5X_A 3L5Y_A 1IJZ_A 3LB6_B.
Probab=46.68 E-value=12 Score=23.30 Aligned_cols=22 Identities=18% Similarity=0.184 Sum_probs=8.0
Q ss_pred EEEEEEccc-hH--------HHHHHHHHHHH
Q psy1373 135 TVTNCNNGG-VI--------VLRSKRQEART 156 (231)
Q Consensus 135 ~ltls~lg~-~~--------~l~~lL~ear~ 156 (231)
.|-++|+|. .. .+|||++|--.
T Consensus 8 vialtClggLasPgPvp~~~alkELIeELvN 38 (43)
T PF03487_consen 8 VIALTCLGGLASPGPVPSSTALKELIEELVN 38 (43)
T ss_dssp ---------------S-HHHHHHHHHHHHHH
T ss_pred HHHHHHhcccCCCCCCCchHHHHHHHHHHHh
Confidence 367899997 33 38999988543
No 5
>COG5005 Mu-like prophage protein gpG [General function prediction only]
Probab=43.41 E-value=13 Score=29.23 Aligned_cols=30 Identities=13% Similarity=0.207 Sum_probs=24.7
Q ss_pred CCCCCCCCCeeeeCchhHHHHHhhHHhccCCC
Q psy1373 181 HPKRRRPLNSVVLDSGVADRILNRPRGIVTQR 212 (231)
Q Consensus 181 ~~r~~Rpl~TViLd~~~Ke~ll~Di~eFL~~~ 212 (231)
..-|.||. ..|+++.+++|++||++|++.-
T Consensus 108 ~~IpARpf--l~l~~~deqei~d~i~~yf~~l 137 (140)
T COG5005 108 VAIPARPF--LGLTPDDEQEIMDDIQDYFSEL 137 (140)
T ss_pred CccCCCcc--cccChhhHHHHHHHHHHHHHHh
Confidence 45688887 5688999999999999998643
No 6
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=41.80 E-value=55 Score=22.52 Aligned_cols=37 Identities=16% Similarity=0.030 Sum_probs=25.9
Q ss_pred HHHHHhhhCCceechhhHHHHHHHHHHHHHHHHHHHH
Q psy1373 4 MELIDSLSTNPYFGAGFGLFGLGAGAAILRKGAQIGT 40 (231)
Q Consensus 4 ~~~~~~l~~n~~~~~g~gL~~lg~~~~~~r~~~~~~~ 40 (231)
.++++.|.++|+=..-++++++|.+...+.+++...+
T Consensus 34 ~~~~~~l~~~p~G~~ll~~vg~gli~~gi~~~~~a~~ 70 (73)
T PF06724_consen 34 QGALAWLLEQPFGRWLLGAVGLGLIGYGIWQFVKAVY 70 (73)
T ss_pred HHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678899999987666677777766666666555443
No 7
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=32.12 E-value=19 Score=26.07 Aligned_cols=18 Identities=22% Similarity=0.414 Sum_probs=15.2
Q ss_pred eCchhHHHHHhhHHhccC
Q psy1373 193 LDSGVADRILNRPRGIVT 210 (231)
Q Consensus 193 Ld~~~Ke~ll~Di~eFL~ 210 (231)
+|+.+|++++.-|++||+
T Consensus 69 VP~~vk~ell~~Ir~~L~ 86 (86)
T PF10163_consen 69 VPDEVKKELLQRIRAFLD 86 (86)
T ss_dssp S-HHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHhC
Confidence 588999999999999984
No 8
>PF15603 Imm45: Immunity protein 45
Probab=30.31 E-value=70 Score=23.12 Aligned_cols=44 Identities=18% Similarity=0.394 Sum_probs=36.6
Q ss_pred CCCeEEEEecCCCCceeCCCCCCCCCCCeeeeCchhHHHHHhhHHhccCCCC
Q psy1373 162 YEGKTVMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILNRPRGIVTQRT 213 (231)
Q Consensus 162 ~~~~t~Iy~~~~~~W~~~~~~r~~Rpl~TViLd~~~Ke~ll~Di~eFL~~~t 213 (231)
..+..+||...=..|.+ |=+.+-+++..+++|++.|+++++.++
T Consensus 33 ~~~~Fvvy~~si~~We~--------P~e~~~it~~e~q~II~aI~~~~~~~~ 76 (82)
T PF15603_consen 33 NDGDFVVYKDSIKNWEP--------PHENEPITIAERQKIIEAIEKYFSERG 76 (82)
T ss_pred CCcCEEEEccccccccC--------CCCCcccCHHHHHHHHHHHHHHHhcCc
Confidence 45678999987678986 567788899999999999999988754
No 9
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=28.93 E-value=61 Score=20.83 Aligned_cols=31 Identities=13% Similarity=0.056 Sum_probs=23.0
Q ss_pred hHHHHHhhhCCceechhhHHHHHHHHHHHHH
Q psy1373 3 FMELIDSLSTNPYFGAGFGLFGLGAGAAILR 33 (231)
Q Consensus 3 ~~~~~~~l~~n~~~~~g~gL~~lg~~~~~~r 33 (231)
+.++...+..|+..-.|+.++++-.+++++-
T Consensus 5 ~~~~~~~f~~nk~a~~gl~il~~~vl~ai~~ 35 (56)
T PF12911_consen 5 WKDAWRRFRRNKLAVIGLIILLILVLLAIFA 35 (56)
T ss_pred HHHHHHHHHhCchHHHHHHHHHHHHHHHHHH
Confidence 5678889999999888777766665555443
No 10
>COG5399 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.15 E-value=1.4e+02 Score=23.46 Aligned_cols=73 Identities=14% Similarity=0.137 Sum_probs=44.5
Q ss_pred EEEEEccchHHHHHHHHHHHHHHHHhCCCeEEEEec-----CCCCceeCCCCCCCCCC-CeeeeCchhHHHHHhhHHhcc
Q psy1373 136 VTNCNNGGVIVLRSKRQEARTLALKQYEGKTVMYTA-----LGSEWRPFGHPKRRRPL-NSVVLDSGVADRILNRPRGIV 209 (231)
Q Consensus 136 ltls~lg~~~~l~~lL~ear~~~~~~~~~~t~Iy~~-----~~~~W~~~~~~r~~Rpl-~TViLd~~~Ke~ll~Di~eFL 209 (231)
+.++.-+- +=+++|++.+.+...+.++.+.|-.| ..++|..- .---+|-+ =.-..|++.|++|++|+..--
T Consensus 51 ~eV~~p~p--l~~evle~v~~~~~~~~e~e~~i~~PVY~Is~~new~~~-~~~dk~i~VI~pyI~~~~k~eil~~aaqmt 127 (139)
T COG5399 51 YEVSYPAP--LSREVLEKVRKYSPKRVENEVEIALPVYEISHSNEWSVE-GIDDKDIVVIFPYIDEATKEEILRGAAQMT 127 (139)
T ss_pred eeEEeeCC--CCHHHHHHHHHhCccccCCeeEEEeeEEEEEeccccccc-ccccccEEEEEeehhhhhHHHHHhhHHhhc
Confidence 34555443 33567777788877777877765433 25789752 33333321 122358999999999987654
Q ss_pred CC
Q psy1373 210 TQ 211 (231)
Q Consensus 210 ~~ 211 (231)
.|
T Consensus 128 t~ 129 (139)
T COG5399 128 TS 129 (139)
T ss_pred CC
Confidence 44
No 11
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=23.60 E-value=40 Score=23.12 Aligned_cols=16 Identities=19% Similarity=0.189 Sum_probs=13.7
Q ss_pred hhHHHHHhhHHhccCC
Q psy1373 196 GVADRILNRPRGIVTQ 211 (231)
Q Consensus 196 ~~Ke~ll~Di~eFL~~ 211 (231)
..+++|++||++|+++
T Consensus 2 ~kre~i~~~iR~~fs~ 17 (62)
T PF15513_consen 2 RKREEITAEIRQFFSQ 17 (62)
T ss_pred cHHHHHHHHHHHHHHh
Confidence 4578999999999875
No 12
>KOG2285|consensus
Probab=23.20 E-value=63 Score=31.07 Aligned_cols=53 Identities=13% Similarity=0.241 Sum_probs=39.4
Q ss_pred EEEEecCCCCceeCCCCCCCCCCCeeeeCchhHHHHHhhHHhccCC----CCCcccccCcCCCC
Q psy1373 166 TVMYTALGSEWRPFGHPKRRRPLNSVVLDSGVADRILNRPRGIVTQ----RTVSPFQPIFSGTQ 225 (231)
Q Consensus 166 t~Iy~~~~~~W~~~~~~r~~Rpl~TViLd~~~Ke~ll~Di~eFL~~----~t~~wY~~~~~~~~ 225 (231)
+.|-.-.++.|.+ |+.|- .|.||.+. |+++-|++||... +.-.||.-.+||+-
T Consensus 522 iNiKiLNaGAW~R-~SErv-----~vSLP~EL-ED~iPdveEfykk~hsgrkl~w~h~msNG~i 578 (777)
T KOG2285|consen 522 INIKILNAGAWGR-GSERV-----RVSLPREL-EDFIPDVEEFYKKKHSGRKLQWYHHMSNGTI 578 (777)
T ss_pred eeeeeeccccccc-ccceE-----EEeCchhH-HHhCccHHHHHhcccCccchhhhhhccCCee
Confidence 3344444678998 55552 58888866 8999999999965 45689999999953
Done!