Query psy12033
Match_columns 79
No_of_seqs 100 out of 272
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 16:56:20 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12033.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12033hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03556 Cullin_binding: Culli 100.0 7.8E-30 1.7E-34 166.7 2.3 70 2-79 23-92 (117)
2 KOG3077|consensus 99.9 1.9E-24 4.1E-29 157.1 4.5 69 2-79 156-224 (260)
3 KOG3077|consensus 85.3 0.86 1.9E-05 33.8 2.7 66 4-79 83-148 (260)
4 PF13720 Acetyltransf_11: Udp 63.1 21 0.00046 21.6 4.2 36 22-66 48-83 (83)
5 PF08671 SinI: Anti-repressor 56.0 16 0.00036 18.5 2.4 28 48-77 3-30 (30)
6 PF07864 DUF1651: Protein of u 52.7 8.3 0.00018 22.8 1.1 22 19-40 47-68 (75)
7 PRK05289 UDP-N-acetylglucosami 46.3 37 0.00081 24.3 3.9 20 44-66 240-259 (262)
8 PF02671 PAH: Paired amphipath 45.0 47 0.001 17.5 3.4 31 19-54 16-46 (47)
9 cd01053 AOX Alternative oxidas 42.7 12 0.00026 26.1 0.8 17 17-33 119-137 (168)
10 KOG2873|consensus 42.0 46 0.001 25.1 3.8 40 17-57 213-252 (284)
11 PRK12461 UDP-N-acetylglucosami 40.1 58 0.0012 23.5 4.1 36 21-65 219-254 (255)
12 PF12588 PSDC: Phophatidylseri 34.9 20 0.00044 24.1 1.0 22 45-67 104-125 (141)
13 PF07346 DUF1477: Protein of u 33.8 32 0.00069 22.7 1.7 56 1-57 39-95 (118)
14 smart00386 HAT HAT (Half-A-TPR 28.7 50 0.0011 14.7 1.6 13 64-76 19-31 (33)
15 PF12512 DUF3717: Protein of u 25.5 44 0.00094 20.2 1.2 16 22-37 7-22 (71)
16 cd03207 GST_C_8 GST_C family, 24.7 32 0.0007 20.2 0.5 25 43-67 79-103 (103)
17 PF11772 EpuA: DNA-directed RN 22.4 71 0.0015 17.7 1.6 18 60-77 28-45 (47)
18 PF10827 DUF2552: Protein of u 22.4 41 0.0009 20.6 0.7 23 48-70 15-46 (79)
No 1
>PF03556 Cullin_binding: Cullin binding; InterPro: IPR005176 The eukaryotic defective in cullin neddylation (DCN) protein family, may contribute to neddylation of cullin components of SCF-type E3 ubiquitin ligase complexes. These multi-protein complexes are required for polyubiquitination and subsequent degradation of target proteins by the 26S proteasome []. Proteins in the DCN family include: Yeast DCN1. Vertebrate DCN1-like protein 1. Vertebrate DCN1-like protein 2. Vertebrate DCN1-like protein 4. This entry represents a domain found within DCN family proteins. Its function is unknown but it has been suggested that it has the features of a basic helix-loop-helix leucine zipper (bHLH-ZIP) domain [].It is often found in association with a UBA-like domain (IPR009060 from INTERPRO).; PDB: 3TDI_A 2IS9_A 3O6B_E 3O2P_A 3BQ3_A 3TDZ_A 3TDU_B.
Probab=99.95 E-value=7.8e-30 Score=166.66 Aligned_cols=70 Identities=43% Similarity=0.881 Sum_probs=62.0
Q ss_pred CceeeeeccccccccCCCccccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhcCCcccCCChhhhhHHHHHHhcC
Q psy12033 2 PFFSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIPRDTWNMFLTFYDTI 79 (79)
Q Consensus 2 k~~Y~ftF~f~~~~~~gqK~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~~~~~k~IskD~W~~~l~F~~~i 79 (79)
|+||+|||+|+|+ +|||+|++|+||+||+|||+++. +++++.|++||+++ ++|+||||+|+|+++|+++|
T Consensus 23 ~~~Y~f~F~~~~~--~~qr~l~~e~Ai~~W~llf~~~~----~~~l~~w~~Fl~~~--~~k~IskD~W~~~l~F~~~~ 92 (117)
T PF03556_consen 23 KKFYRFTFDFARE--EGQRSLPLETAIAYWRLLFSGRF----FPLLDSWIEFLEEK--YKKAISKDTWNQFLDFFKTV 92 (117)
T ss_dssp HHHHHHHHHHHS---TT-SSEEHHHHHHHHHHHTTTTS----SCCHHHHHHHHHHC--T-SEEEHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHhCC--cccCCCCHHHHHHHHHHHcCCCC----cHHHHHHHHHHHHc--CCcCcChhHHHHHHHHHHhc
Confidence 5799999999999 99999999999999999998772 69999999999985 88999999999999999875
No 2
>KOG3077|consensus
Probab=99.90 E-value=1.9e-24 Score=157.10 Aligned_cols=69 Identities=39% Similarity=0.777 Sum_probs=65.2
Q ss_pred CceeeeeccccccccCCCccccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhcCCcccCCChhhhhHHHHHHhcC
Q psy12033 2 PFFSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIPRDTWNMFLTFYDTI 79 (79)
Q Consensus 2 k~~Y~ftF~f~~~~~~gqK~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~~~~~k~IskD~W~~~l~F~~~i 79 (79)
|++|+|||+||+| +|||+|++++||+||+|||+.+ +|+|++|++||+.+ +++.||||||+|+|+|+++|
T Consensus 156 k~iY~faf~fa~e--~~qk~Ld~~~ai~~w~ll~~~~-----~pll~~w~~FL~~~--~~~~~~KDtW~~~l~Fs~~i 224 (260)
T KOG3077|consen 156 KSIYRFAFNFAKE--PGQKSLDLETAISLWKLLFGQT-----PPLLDQWIQFLKDS--PNRAISKDTWNLLLDFSKTI 224 (260)
T ss_pred hHHHHhhhhhccC--cCcCcCCHHHHHHHHHHHhCCC-----CchHHHHHHHHHhC--cCcccCcccHHHHHHHHHhc
Confidence 6899999999999 9999999999999999999777 79999999999996 88999999999999999865
No 3
>KOG3077|consensus
Probab=85.25 E-value=0.86 Score=33.75 Aligned_cols=66 Identities=15% Similarity=0.089 Sum_probs=51.4
Q ss_pred eeeeeccccccccCCCccccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhcCCcccCCChhhhhHHHHHHhcC
Q psy12033 4 FSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIPRDTWNMFLTFYDTI 79 (79)
Q Consensus 4 ~Y~ftF~f~~~~~~gqK~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~~~~~k~IskD~W~~~l~F~~~i 79 (79)
.|...+.|+.| =|....++.++|--|+|- +++ ...+..|+-+-+- ..-..+|-|+|.+.|+|.+++
T Consensus 83 ~~dgi~~fc~d--lg~~p~~i~~LvlAwkl~-A~~-----m~~Fsr~ef~~g~--~~l~~dS~d~lq~~l~~l~~~ 148 (260)
T KOG3077|consen 83 GPDGIEKFCED--LGVEPEDISVLVLAWKLG-AAT-----MCEFSREEFLKGM--TALGCDSIDKLQQRLDFLRSV 148 (260)
T ss_pred ChHHHHHHHHH--hCCCchhHHHHHHHHHhc-cch-----hhhhhHHHHHHHH--HHcCCCcHHHHHHHHHHHHHH
Confidence 35567788888 899999999999999999 766 5667666544322 245689999999999998753
No 4
>PF13720 Acetyltransf_11: Udp N-acetylglucosamine O-acyltransferase; Domain 2; PDB: 3I3A_A 3I3X_A 3HSQ_B 2JF2_A 1LXA_A 2AQ9_A 2QIV_X 2QIA_A 2JF3_A 4EQY_F ....
Probab=63.10 E-value=21 Score=21.59 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=20.6
Q ss_pred ccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhcCCcccCCCh
Q psy12033 22 LPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIPR 66 (79)
Q Consensus 22 L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~~~~~k~Isk 66 (79)
+.++.|++--.-..+. .|.+..-++|+++ .+|+|-|
T Consensus 48 ~~~~~a~~~l~~~~~~------~~~v~~~~~Fi~~---S~RGi~R 83 (83)
T PF13720_consen 48 LTLEEALEELEEEYPD------SPEVREIVDFIRN---SKRGICR 83 (83)
T ss_dssp S-HHHHHHHHHHHTTS------CHHHHHHHHHHHH---TSS-B--
T ss_pred CCHHHHHHHHHHhccC------CHHHHHHHHHHHh---CCCCCcC
Confidence 4555555443333332 5889999999986 4577753
No 5
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=56.04 E-value=16 Score=18.47 Aligned_cols=28 Identities=18% Similarity=0.565 Sum_probs=20.7
Q ss_pred HHHHHHHhhcCCcccCCChhhhhHHHHHHh
Q psy12033 48 TAWLNFLSQHTHVVRGIPRDTWNMFLTFYD 77 (79)
Q Consensus 48 ~~W~~FL~~~~~~~k~IskD~W~~~l~F~~ 77 (79)
..|++.+.+- ..-+||++.=..||+|.+
T Consensus 3 ~EW~~Li~eA--~~~Gls~eeir~FL~~~k 30 (30)
T PF08671_consen 3 EEWVELIKEA--KESGLSKEEIREFLEFNK 30 (30)
T ss_dssp HHHHHHHHHH--HHTT--HHHHHHHHHHHH
T ss_pred HHHHHHHHHH--HHcCCCHHHHHHHHHhCC
Confidence 4699998774 567999999999998863
No 6
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=52.71 E-value=8.3 Score=22.83 Aligned_cols=22 Identities=27% Similarity=0.259 Sum_probs=18.9
Q ss_pred CccccHHHHHHHHhhhhccccc
Q psy12033 19 QRILPIDMAIILWKLVFSIRVS 40 (79)
Q Consensus 19 qK~L~~e~Ai~~W~lll~~~~~ 40 (79)
.|-|.++.|++.|+-|+...|.
T Consensus 47 rr~l~~~~A~e~W~~L~~~GW~ 68 (75)
T PF07864_consen 47 RRRLTREEARELWKELQKTGWR 68 (75)
T ss_pred EEEEEHHHHHHHHHHHHHcCCE
Confidence 4789999999999999987654
No 7
>PRK05289 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=46.30 E-value=37 Score=24.29 Aligned_cols=20 Identities=35% Similarity=0.449 Sum_probs=15.2
Q ss_pred hhhHHHHHHHHhhcCCcccCCCh
Q psy12033 44 SFILTAWLNFLSQHTHVVRGIPR 66 (79)
Q Consensus 44 ~~~l~~W~~FL~~~~~~~k~Isk 66 (79)
.|.+...++|+++ .+|+|.+
T Consensus 240 ~~~~~~~~~f~~~---~~rg~~~ 259 (262)
T PRK05289 240 SPEVKEILDFIES---SKRGIIR 259 (262)
T ss_pred CHHHHHHHHHHhc---CCCCCCC
Confidence 5778899999976 4677754
No 8
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=45.04 E-value=47 Score=17.47 Aligned_cols=31 Identities=13% Similarity=0.055 Sum_probs=24.0
Q ss_pred CccccHHHHHHHHhhhhcccccCCchhhHHHHHHHH
Q psy12033 19 QRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFL 54 (79)
Q Consensus 19 qK~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL 54 (79)
++.++.+..++--.-||.+. ..+++.+..||
T Consensus 16 ~~~~~~~~v~~~v~~Ll~~h-----pdLl~~F~~Fl 46 (47)
T PF02671_consen 16 KGRISRSEVIEEVSELLRGH-----PDLLEEFNRFL 46 (47)
T ss_dssp CTCSCHHHHHHHHHHHTTT------HHHHHHHHHHS
T ss_pred hcCCCHHHHHHHHHHHHccC-----HHHHHHHHhhC
Confidence 35677788888888899887 68888888886
No 9
>cd01053 AOX Alternative oxidase, ferritin-like diiron-binding domain. Alternative oxidase (AOX) is a mitochondrial ubiquinol oxidase found in plants and some fungi and protists. AOX is a member of the ferritin-like diiron-carboxylate superfamily. The plant mitochondrial protein alternative oxidase catalyses dioxygen dependent ubiquinol oxidation to yield ubiquinone and water. AOX is a cyanide-resistant, salicylhydroxamic acid-sensitive oxidase that transfers electrons from ubiquinol to oxygen, bypassing the cytochrome chain. AOX has been proposed to contain a hydroxo-bridged diiron center within a four-helix bundle and a proximal redox-active tyrosine residue. AOX is proposed to be peripherally associated with the matrix side of the inner mitochondrial membrane. Fungal and protozoan AOXs generally exist as monomers. In plants, AOX is dimeric. Pyruvate is an allosteric activator of plant AOX involved in the reversible inactivation of the enzyme though the formation of an intermolecular
Probab=42.67 E-value=12 Score=26.09 Aligned_cols=17 Identities=35% Similarity=0.616 Sum_probs=13.1
Q ss_pred CCCc-cccH-HHHHHHHhh
Q psy12033 17 CGQR-ILPI-DMAIILWKL 33 (79)
Q Consensus 17 ~gqK-~L~~-e~Ai~~W~l 33 (79)
.|.+ +++. ++|++||++
T Consensus 119 ~g~~~~~paP~iAi~Yw~l 137 (168)
T cd01053 119 EGLKPDLPAPEIAIEYYRL 137 (168)
T ss_pred ccccCCCCCCHHHHHHhCC
Confidence 5666 6655 999999994
No 10
>KOG2873|consensus
Probab=41.96 E-value=46 Score=25.08 Aligned_cols=40 Identities=23% Similarity=0.235 Sum_probs=28.8
Q ss_pred CCCccccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhc
Q psy12033 17 CGQRILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQH 57 (79)
Q Consensus 17 ~gqK~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~ 57 (79)
+|==+=|-..|+++|+-||.++ +++...+|+.=++|++.+
T Consensus 213 eG~l~dD~vLA~alWRnlF~~r-~~~D~~hle~vV~YvR~q 252 (284)
T KOG2873|consen 213 EGFLSDDRVLATALWRNLFSGR-GNVDLVHLEAVVRYVRSQ 252 (284)
T ss_pred ccccccchHHHHHHHHHHhCCC-CCcCHHHHHHHHHHHHHH
Confidence 3333334488999999999976 234457888989998764
No 11
>PRK12461 UDP-N-acetylglucosamine acyltransferase; Provisional
Probab=40.12 E-value=58 Score=23.46 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=23.5
Q ss_pred cccHHHHHHHHhhhhcccccCCchhhHHHHHHHHhhcCCcccCCC
Q psy12033 21 ILPIDMAIILWKLVFSIRVSCDESFILTAWLNFLSQHTHVVRGIP 65 (79)
Q Consensus 21 ~L~~e~Ai~~W~lll~~~~~~~~~~~l~~W~~FL~~~~~~~k~Is 65 (79)
.++++.|++--+-.++. .|.+...++|+++ .+|.|-
T Consensus 219 ~~~~~~~~~~~~~~~~~------~~~~~~~~~f~~~---s~rg~~ 254 (255)
T PRK12461 219 GLSVQQAVAELELQQFE------SPEVEELIDFIKA---SKRGIV 254 (255)
T ss_pred CCCHHHHHHHHHHhccC------CHHHHHHHHHHHc---cCCCCC
Confidence 45666666554443333 4778999999976 567764
No 12
>PF12588 PSDC: Phophatidylserine decarboxylase ; InterPro: IPR022237 This domain family is found in bacteria and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF02666 from PFAM. Phosphatidylserine decarboxylase (PSD) is an important enzyme in the synthesis of phosphatidylethanolamine in both prokaryotes and eukaryotes.
Probab=34.87 E-value=20 Score=24.11 Aligned_cols=22 Identities=32% Similarity=0.415 Sum_probs=16.2
Q ss_pred hhHHHHHHHHhhcCCcccCCChh
Q psy12033 45 FILTAWLNFLSQHTHVVRGIPRD 67 (79)
Q Consensus 45 ~~l~~W~~FL~~~~~~~k~IskD 67 (79)
..|+.|.+||.+. .+..+++.|
T Consensus 104 ~ILn~W~~fL~sp-~S~~vL~~~ 125 (141)
T PF12588_consen 104 KILNEWGEFLSSP-ASRSVLNTD 125 (141)
T ss_pred HHHHHHHHHcCCh-hhhccccCC
Confidence 6799999999875 445566644
No 13
>PF07346 DUF1477: Protein of unknown function (DUF1477); InterPro: IPR009946 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf19; it is a family of uncharacterised viral proteins.
Probab=33.77 E-value=32 Score=22.67 Aligned_cols=56 Identities=18% Similarity=0.261 Sum_probs=37.3
Q ss_pred CCceeeeeccccccccCCCccccHHHHHHHHhhhhccccc-CCchhhHHHHHHHHhhc
Q psy12033 1 MPFFSKFTFRFGLDSSCGQRILPIDMAIILWKLVFSIRVS-CDESFILTAWLNFLSQH 57 (79)
Q Consensus 1 ~k~~Y~ftF~f~~~~~~gqK~L~~e~Ai~~W~lll~~~~~-~~~~~~l~~W~~FL~~~ 57 (79)
++-||..|+.|.+.. -.+.++.++|+..+-+.+...... =.....|+--+.||-.+
T Consensus 39 ~~~Fy~~c~~~v~~~-~~~~~~~l~Tl~~lfD~II~~Er~~F~kS~vLn~lV~FLi~~ 95 (118)
T PF07346_consen 39 HRLFYNLCISFVTKL-VTGNSLALNTLKNLFDKIIETERNVFNKSRVLNFLVNFLIAH 95 (118)
T ss_pred hhHHHHHHHHHHHHH-hcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 356899999999772 277778888877777666652100 00147788899998664
No 14
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=28.68 E-value=50 Score=14.70 Aligned_cols=13 Identities=15% Similarity=0.401 Sum_probs=7.6
Q ss_pred CChhhhhHHHHHH
Q psy12033 64 IPRDTWNMFLTFY 76 (79)
Q Consensus 64 IskD~W~~~l~F~ 76 (79)
-+.+.|.++++|.
T Consensus 19 ~~~~~W~~y~~~e 31 (33)
T smart00386 19 KSVELWLKYAEFE 31 (33)
T ss_pred CChHHHHHHHHHH
Confidence 4556666666554
No 15
>PF12512 DUF3717: Protein of unknown function (DUF3717) ; InterPro: IPR022191 This family of proteins is found in bacteria. Proteins in this family are typically between 75 and 117 amino acids in length. There is a conserved AIN sequence motif. There are two completely conserved residues (L and Y) that may be functionally important.
Probab=25.54 E-value=44 Score=20.19 Aligned_cols=16 Identities=25% Similarity=0.358 Sum_probs=13.2
Q ss_pred ccHHHHHHHHhhhhcc
Q psy12033 22 LPIDMAIILWKLVFSI 37 (79)
Q Consensus 22 L~~e~Ai~~W~lll~~ 37 (79)
-++|-||-||+--=|.
T Consensus 7 ~dIE~AIN~WR~r~Ps 22 (71)
T PF12512_consen 7 TDIEAAINYWRARSPS 22 (71)
T ss_pred HHHHHHHHHHHhcCCC
Confidence 3689999999987764
No 16
>cd03207 GST_C_8 GST_C family, unknown subfamily 8; 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=24.74 E-value=32 Score=20.17 Aligned_cols=25 Identities=16% Similarity=0.232 Sum_probs=17.4
Q ss_pred chhhHHHHHHHHhhcCCcccCCChh
Q psy12033 43 ESFILTAWLNFLSQHTHVVRGIPRD 67 (79)
Q Consensus 43 ~~~~l~~W~~FL~~~~~~~k~IskD 67 (79)
.+|.+..|++-+++.+..+++..+|
T Consensus 79 ~~p~l~~w~~~~~~~p~~~~~~~~~ 103 (103)
T cd03207 79 ERPAFDAYIARITDRPAFQRAAAID 103 (103)
T ss_pred CChHHHHHHHHHHcCHHHHHHhccC
Confidence 4799999999998764444444443
No 17
>PF11772 EpuA: DNA-directed RNA polymerase subunit beta; InterPro: IPR024596 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This entry represents the short 60-residue long bacterial family that is the beta subunit of the DNA-directed RNA polymerase, likely to be 2.7.7.6 from EC It is membrane-bound and is referred to by the name EpuA.
Probab=22.39 E-value=71 Score=17.67 Aligned_cols=18 Identities=22% Similarity=0.591 Sum_probs=14.4
Q ss_pred cccCCChhhhhHHHHHHh
Q psy12033 60 VVRGIPRDTWNMFLTFYD 77 (79)
Q Consensus 60 ~~k~IskD~W~~~l~F~~ 77 (79)
.....|.|||+-+.+|..
T Consensus 28 p~~vf~~~tW~hi~d~~~ 45 (47)
T PF11772_consen 28 PFDVFSPDTWQHIIDFFT 45 (47)
T ss_pred HHHhCCHHHHHHHHHHHc
Confidence 345789999999998864
No 18
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=22.37 E-value=41 Score=20.61 Aligned_cols=23 Identities=22% Similarity=0.710 Sum_probs=15.6
Q ss_pred HHHHHHHhhcC---------CcccCCChhhhh
Q psy12033 48 TAWLNFLSQHT---------HVVRGIPRDTWN 70 (79)
Q Consensus 48 ~~W~~FL~~~~---------~~~k~IskD~W~ 70 (79)
.-|..||.++. ....++.||.|-
T Consensus 15 kTWvSFl~~NhPYsLLHWSi~G~~~~~kDVWL 46 (79)
T PF10827_consen 15 KTWVSFLNNNHPYSLLHWSIAGAESVKKDVWL 46 (79)
T ss_pred chHHHhhcCCCCceeeeeeeccccccccceEE
Confidence 46999998762 122367888884
Done!