Query 036426
Match_columns 167
No_of_seqs 111 out of 125
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 12:33:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036426.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036426hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05078 DUF679: Protein of un 100.0 2.5E-59 5.4E-64 380.1 8.7 121 47-167 1-167 (170)
2 PRK04989 psbM photosystem II r 40.9 5 0.00011 25.7 -1.2 14 150-163 6-19 (35)
3 CHL00080 psbM photosystem II p 40.2 5.2 0.00011 25.4 -1.2 14 150-163 6-19 (34)
4 TIGR03038 PS_II_psbM photosyst 31.9 8.3 0.00018 24.4 -1.2 14 150-163 6-19 (33)
5 PRK14094 psbM photosystem II r 29.7 11 0.00023 25.8 -1.0 14 150-163 6-19 (50)
6 PF12273 RCR: Chitin synthesis 20.9 27 0.00058 26.7 -0.4 20 83-102 1-20 (130)
7 PF05151 PsbM: Photosystem II 20.9 15 0.00033 22.9 -1.4 14 150-163 6-19 (31)
8 KOG3500 Vacuolar H+-ATPase V0 20.9 80 0.0017 23.7 2.1 33 64-100 16-48 (84)
9 PF05237 MoeZ_MoeB: MoeZ/MoeB 20.7 12 0.00026 26.5 -2.2 28 129-156 7-36 (84)
10 PF02447 GntP_permease: GntP f 17.1 1.3E+02 0.0029 28.1 3.1 42 60-106 360-401 (441)
No 1
>PF05078 DUF679: Protein of unknown function (DUF679); InterPro: IPR007770 This family contains uncharacterised plant proteins of unknown function.
Probab=100.00 E-value=2.5e-59 Score=380.09 Aligned_cols=121 Identities=44% Similarity=0.831 Sum_probs=116.9
Q ss_pred hhhhhhhcccCChhhHHHHHhhcccccCCCCccchhHHHHHHHHHHhhhhhccccccccCCCCC----------------
Q 036426 47 FSKTSMLVNFLPTGTLLTFEMLLPSVSNNGYFSPVSTQIIHSLLGLCSLSCFFFHFTDSFKGPD---------------- 110 (167)
Q Consensus 47 lssta~La~LLPTGTvlaFq~LsP~~TN~G~C~~~nr~Lt~~Ll~lca~sCff~sFTDSf~~~d---------------- 110 (167)
|+++|||+|||||||||+||+|+|+|||||+|+.+|||||++||++||+||||+||||||+|+|
T Consensus 1 ls~ta~La~LLPTGTvlaFq~L~P~~Tn~G~C~~~nr~lt~~Ll~lca~sC~f~sFTDS~~~~dGkvyYG~aT~~Gl~~f 80 (170)
T PF05078_consen 1 LSSTANLAKLLPTGTVLAFQILSPSFTNNGECDTANRWLTAALLALCAASCFFFSFTDSFRGSDGKVYYGFATPRGLWVF 80 (170)
T ss_pred CccHHHHHHhCcchHHHHHHHhhhhcccCCccCcchHHHHHHHHHHHHHHHHHeeecceeECCCCCEEEEEEEcccceec
Confidence 6899999999999999999999999999999999999999999999999999999999999998
Q ss_pred C------------CCCCCcceeecccc------------------CcceeeCCCCcchHHHHHHhhhhHHHHhhhheeee
Q 036426 111 V------------PKDDNKYKVGLTDF------------------HVTACLFPDHVKYMDQVMESFPLMVGINCSGLFWS 160 (167)
Q Consensus 111 ~------------p~~~s~yrLr~~Df------------------~v~~CffP~~~~~~~evl~~lPl~vG~v~S~lF~i 160 (167)
. +++++||||||+|| |||+||||++++|+||+|+++|++||++||+|||+
T Consensus 81 ~~~~~~~g~~~~~~~~~~~yrlr~~DfvHA~lS~~VF~aval~d~~v~~Cf~P~~~~~~~~~l~~lP~~vG~~~S~vF~~ 160 (170)
T PF05078_consen 81 NYPGPEEGGGELKPRDLSKYRLRFIDFVHAFLSVVVFLAVALSDQNVVSCFFPSPSSETKEVLMNLPLGVGVLCSMVFMI 160 (170)
T ss_pred CCCCccccccCCCccccccceEehhhhhHHHHHHHHHHHhheeCCCcceecCCCCchhHHHHHHHhHHHHHHhHeeEEEE
Confidence 1 23789999999999 99999999999999999999999999999999999
Q ss_pred ccCCCCC
Q 036426 161 FPTQDTA 167 (167)
Q Consensus 161 FPt~RhG 167 (167)
|||+|||
T Consensus 161 FPt~R~G 167 (170)
T PF05078_consen 161 FPTTRHG 167 (170)
T ss_pred CCCCCCC
Confidence 9999998
No 2
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=40.86 E-value=5 Score=25.68 Aligned_cols=14 Identities=43% Similarity=0.524 Sum_probs=12.5
Q ss_pred HHHhhhheeeeccC
Q 036426 150 VGINCSGLFWSFPT 163 (167)
Q Consensus 150 vG~v~S~lF~iFPt 163 (167)
.|++++.||+++||
T Consensus 6 lgfiAt~Lfi~iPt 19 (35)
T PRK04989 6 LGFVASLLFVLVPT 19 (35)
T ss_pred HHHHHHHHHHHHHH
Confidence 58999999999986
No 3
>CHL00080 psbM photosystem II protein M
Probab=40.22 E-value=5.2 Score=25.44 Aligned_cols=14 Identities=29% Similarity=0.484 Sum_probs=12.5
Q ss_pred HHHhhhheeeeccC
Q 036426 150 VGINCSGLFWSFPT 163 (167)
Q Consensus 150 vG~v~S~lF~iFPt 163 (167)
.|++++.||+..||
T Consensus 6 lgfiAt~LFi~iPt 19 (34)
T CHL00080 6 LAFIATALFILVPT 19 (34)
T ss_pred HHHHHHHHHHHHHH
Confidence 58999999999987
No 4
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=31.94 E-value=8.3 Score=24.37 Aligned_cols=14 Identities=36% Similarity=0.513 Sum_probs=12.1
Q ss_pred HHHhhhheeeeccC
Q 036426 150 VGINCSGLFWSFPT 163 (167)
Q Consensus 150 vG~v~S~lF~iFPt 163 (167)
.|++++.||+..||
T Consensus 6 l~fiAt~Lfi~iPt 19 (33)
T TIGR03038 6 LGFIATLLFILVPT 19 (33)
T ss_pred HHHHHHHHHHHHHH
Confidence 58899999999886
No 5
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=29.74 E-value=11 Score=25.80 Aligned_cols=14 Identities=43% Similarity=0.543 Sum_probs=12.4
Q ss_pred HHHhhhheeeeccC
Q 036426 150 VGINCSGLFWSFPT 163 (167)
Q Consensus 150 vG~v~S~lF~iFPt 163 (167)
.|++++.||++.||
T Consensus 6 lgfiAtaLFi~iPT 19 (50)
T PRK14094 6 FGFVASLLFVGVPT 19 (50)
T ss_pred HHHHHHHHHHHHHH
Confidence 58999999999987
No 6
>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=20.94 E-value=27 Score=26.67 Aligned_cols=20 Identities=10% Similarity=0.379 Sum_probs=11.8
Q ss_pred HHHHHHHHHHhhhhhccccc
Q 036426 83 TQIIHSLLGLCSLSCFFFHF 102 (167)
Q Consensus 83 r~Lt~~Ll~lca~sCff~sF 102 (167)
||+..++++++.+..||+.+
T Consensus 1 RW~l~~iii~~i~l~~~~~~ 20 (130)
T PF12273_consen 1 RWVLFAIIIVAILLFLFLFY 20 (130)
T ss_pred CeeeHHHHHHHHHHHHHHHH
Confidence 56666666666665555543
No 7
>PF05151 PsbM: Photosystem II reaction centre M protein (PsbM); InterPro: IPR007826 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 PsbM found in PSII. PsbM is one of the most hydrophobic proteins in the thylakoid membrane. The function of this protein is unknown.; GO: 0015979 photosynthesis, 0019684 photosynthesis, light reaction, 0009523 photosystem II, 0016021 integral to membrane; PDB: 3A0H_m 3ARC_m 3A0B_M 3PRR_M 3PRQ_M 1S5L_M 4FBY_e 3BZ2_M 3BZ1_M 2AXT_M ....
Probab=20.90 E-value=15 Score=22.87 Aligned_cols=14 Identities=29% Similarity=0.505 Sum_probs=11.7
Q ss_pred HHHhhhheeeeccC
Q 036426 150 VGINCSGLFWSFPT 163 (167)
Q Consensus 150 vG~v~S~lF~iFPt 163 (167)
.|++++.+|+.+|+
T Consensus 6 l~fiAtaLfi~iPt 19 (31)
T PF05151_consen 6 LAFIATALFILIPT 19 (31)
T ss_dssp THHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHH
Confidence 58889999988886
No 8
>KOG3500 consensus Vacuolar H+-ATPase V0 sector, subunit M9.7 (M9.2) [Energy production and conversion]
Probab=20.88 E-value=80 Score=23.74 Aligned_cols=33 Identities=21% Similarity=0.435 Sum_probs=26.6
Q ss_pred HHHhhcccccCCCCccchhHHHHHHHHHHhhhhhccc
Q 036426 64 TFEMLLPSVSNNGYFSPVSTQIIHSLLGLCSLSCFFF 100 (167)
Q Consensus 64 aFq~LsP~~TN~G~C~~~nr~Lt~~Ll~lca~sCff~ 100 (167)
.+-+.-|++.+.|. ||=|....+.++|+.|-++
T Consensus 16 ~v~~~~pi~~~kgP----~~~li~~~lvlTAVCCwlf 48 (84)
T KOG3500|consen 16 IVGICGPICFPKGP----NRGLIRCMLVLTAVCCWLF 48 (84)
T ss_pred HHHHhcceeccCCC----CcChhHHHHHHHHHHHHHH
Confidence 34567899999998 7778888899999888654
No 9
>PF05237 MoeZ_MoeB: MoeZ/MoeB domain; InterPro: IPR007901 This putative domain is found in the MoeZ protein and the MoeB protein. The domain has two CXXC motifs that are only partly conserved. MoeZ is necessary for the synthesis of pyridine-2,6-bis(thiocarboxylic acid), a small secreted metabolite that has a high affinity for transition metals, increases iron uptake efficiency by 20% in Pseudomonas stutzeri, has the ability to reduce both soluble and mineral forms of iron, and has antimicrobial activity towards several species of bacteria. MoeB is the molybdopterin synthase activating enzyme in the molybdopterin cofactor biosynthesis pathway. Both these enzymes are members of a superfamily consisting of related but structurally distinct proteins that are members of pathways involved in the transfer of sulphur-containing moieties to metabolites [] and both also contain the UBA/THIF-type NAD/FAD binding fold (IPR000594 from INTERPRO). ; PDB: 1JWA_B 1JW9_B 1JWB_B 1ZKM_D 1ZUD_3 1ZFN_D.
Probab=20.68 E-value=12 Score=26.52 Aligned_cols=28 Identities=29% Similarity=0.320 Sum_probs=16.6
Q ss_pred eeeCCCCcchH--HHHHHhhhhHHHHhhhh
Q 036426 129 ACLFPDHVKYM--DQVMESFPLMVGINCSG 156 (167)
Q Consensus 129 ~CffP~~~~~~--~evl~~lPl~vG~v~S~ 156 (167)
+|+||...... -+-.-+++.++|+++|+
T Consensus 7 rCl~p~~~~~~~~C~~~GVlg~~~giigsl 36 (84)
T PF05237_consen 7 RCLFPEPPESAPTCAEAGVLGPVVGIIGSL 36 (84)
T ss_dssp HHHHTTSS--TTSSSTS-B-HHHHHHHHHH
T ss_pred hhcCCCCCccCCCccccccccchHHHHHHH
Confidence 58998882111 13346788888888876
No 10
>PF02447 GntP_permease: GntP family permease; InterPro: IPR003474 This is a family of integral membrane permeases that are involved in gluconate uptake. Escherichia coli contains several members of this family including GntU, a low affinity transporter [] and GntT, a high affinity transporter [].; GO: 0015128 gluconate transmembrane transporter activity, 0035429 gluconate transmembrane transport, 0016020 membrane
Probab=17.13 E-value=1.3e+02 Score=28.08 Aligned_cols=42 Identities=26% Similarity=0.340 Sum_probs=32.9
Q ss_pred hhHHHHHhhcccccCCCCccchhHHHHHHHHHHhhhhhccccccccC
Q 036426 60 GTLLTFEMLLPSVSNNGYFSPVSTQIIHSLLGLCSLSCFFFHFTDSF 106 (167)
Q Consensus 60 GTvlaFq~LsP~~TN~G~C~~~nr~Lt~~Ll~lca~sCff~sFTDSf 106 (167)
+.+.+-.+++|.+.+.+ ..|. ....++.|+-|++++|..||+
T Consensus 360 A~iTaa~I~aPl~~~~~---~v~p--~l~~lAigaGs~~~shvNDsg 401 (441)
T PF02447_consen 360 AMITAAGIVAPLLASLG---GVSP--VLLVLAIGAGSMFFSHVNDSG 401 (441)
T ss_pred HHHHHHHHhcccccccc---chhH--HHHHHHHhcCCceeecCCCCc
Confidence 44567778999999987 3444 455678899999999999986
Done!