Query psy7771
Match_columns 193
No_of_seqs 11 out of 13
Neff 1.2
Searched_HMMs 46136
Date Fri Aug 16 18:26:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7771.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7771hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12273 RCR: Chitin synthesis 65.6 53 0.0011 24.3 10.3 17 114-130 75-92 (130)
2 TIGR02052 MerP mercuric transp 46.2 12 0.00026 22.8 1.1 25 5-29 2-26 (92)
3 KOG0260|consensus 39.7 1.2E+02 0.0026 32.8 7.6 7 77-83 1499-1505(1605)
4 TIGR01653 lactococcin_972 bact 39.5 18 0.00039 27.4 1.4 22 3-24 7-28 (92)
5 PF04272 Phospholamban: Phosph 33.0 49 0.0011 23.5 2.6 14 3-16 31-44 (52)
6 TIGR01294 P_lamban phospholamb 29.7 58 0.0012 23.1 2.6 14 3-16 31-44 (52)
7 PF00879 Defensin_propep: Defe 19.8 1.3E+02 0.0028 21.0 2.8 14 14-27 12-25 (52)
8 PF07145 PAM2: Ataxin-2 C-term 18.8 88 0.0019 18.0 1.5 13 100-112 5-17 (18)
9 PF02932 Neur_chan_memb: Neuro 18.1 1.1E+02 0.0023 20.4 2.0 8 9-16 32-39 (237)
10 PF11383 DUF3187: Protein of u 15.9 96 0.0021 27.0 1.8 29 34-62 24-52 (319)
No 1
>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=65.60 E-value=53 Score=24.30 Aligned_cols=17 Identities=35% Similarity=0.778 Sum_probs=7.5
Q ss_pred CCCCCCC-CCCCCCCCCC
Q psy7771 114 PSTFDPA-NFEPSYEPSS 130 (193)
Q Consensus 114 pstfdpa-nfepsyepss 130 (193)
.-.||.. +|-+..++..
T Consensus 75 ~g~Yd~~g~~~~~~~~~~ 92 (130)
T PF12273_consen 75 PGYYDQQGNFHPNPGPPP 92 (130)
T ss_pred CCCCCCCCCCCCCCCCCc
Confidence 3344443 4555444443
No 2
>TIGR02052 MerP mercuric transport protein periplasmic component. This model represents the periplasmic mercury (II) binding protein of the bacterial mercury detoxification system which passes mercuric ion to the MerT transporter for subsequent reduction to Hg(0) by the mercuric reductase MerA. MerP contains a distinctive GMTCXXC motif associated with metal binding. MerP is related to a larger family of metal binding proteins (pfam00403).
Probab=46.24 E-value=12 Score=22.78 Aligned_cols=25 Identities=28% Similarity=0.166 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHhhhccCCCCC
Q psy7771 5 INLCTILLTLTTLMLQAEALPQRQP 29 (193)
Q Consensus 5 inlctilltlttlmlqaealpqrqp 29 (193)
-||.|+|+.|..+.+-++|+..+..
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~ 26 (92)
T TIGR02052 2 KKLATLLALFVLTSLPAWAATQTVT 26 (92)
T ss_pred hhHHHHHHHHHHhcchhhhcceEEE
Confidence 3788888888888888888776543
No 3
>KOG0260|consensus
Probab=39.72 E-value=1.2e+02 Score=32.80 Aligned_cols=7 Identities=43% Similarity=1.236 Sum_probs=3.2
Q ss_pred CCCCCCC
Q psy7771 77 PNYQPSG 83 (193)
Q Consensus 77 pnyqpsg 83 (193)
|.|.|.+
T Consensus 1499 psyspts 1505 (1605)
T KOG0260|consen 1499 PSYSPTS 1505 (1605)
T ss_pred CCCCCCC
Confidence 4454443
No 4
>TIGR01653 lactococcin_972 bacteriocin, lactococcin 972 family. This model represents bacteriocins related to lactococcin 972. Members tend to be found in association with a seven transmembrane putative immunity protein.
Probab=39.47 E-value=18 Score=27.36 Aligned_cols=22 Identities=41% Similarity=0.274 Sum_probs=18.5
Q ss_pred hhHHHHHHHHHHHHHHHhhhcc
Q psy7771 3 LLINLCTILLTLTTLMLQAEAL 24 (193)
Q Consensus 3 llinlctilltlttlmlqaeal 24 (193)
.||-.|+||.++.++..|+|+.
T Consensus 7 ~~~~~~~il~~~~g~a~~~~~~ 28 (92)
T TIGR01653 7 ASLVSTTILATLGGLAAQVEAA 28 (92)
T ss_pred HHHHHHHHHhhhhhhheeecce
Confidence 4677899999999999997754
No 5
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=32.95 E-value=49 Score=23.51 Aligned_cols=14 Identities=43% Similarity=0.876 Sum_probs=10.9
Q ss_pred hhHHHHHHHHHHHH
Q psy7771 3 LLINLCTILLTLTT 16 (193)
Q Consensus 3 llinlctilltltt 16 (193)
|.+|.|.||+.|..
T Consensus 31 lfvnfcliliclll 44 (52)
T PF04272_consen 31 LFVNFCLILICLLL 44 (52)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 68999998876653
No 6
>TIGR01294 P_lamban phospholamban. This model represents the short (52 residue) transmembrane phosphoprotein phospholamban. Phospholamban, in its unphosphorylated form, inhibits SERCA2, the cardiac sarcoplasmic reticulum Ca-ATPase.
Probab=29.66 E-value=58 Score=23.14 Aligned_cols=14 Identities=50% Similarity=0.897 Sum_probs=10.7
Q ss_pred hhHHHHHHHHHHHH
Q psy7771 3 LLINLCTILLTLTT 16 (193)
Q Consensus 3 llinlctilltltt 16 (193)
|.+|.|.||+.|..
T Consensus 31 lfvnf~liliclll 44 (52)
T TIGR01294 31 LFINFCLILICLLL 44 (52)
T ss_pred HHHHHHHHHHHHHH
Confidence 68999998876643
No 7
>PF00879 Defensin_propep: Defensin propeptide The pattern for this Prosite entry doesn't match the propeptide.; InterPro: IPR002366 Defensins are 2-6 kDa, cationic, microbicidal peptides active against many Gram-negative and Gram-positive bacteria, fungi, and enveloped viruses [], containing three pairs of intramolecular disulphide bonds []. On the basis of their size and pattern of disulphide bonding, mammalian defensins are classified into alpha, beta and theta categories. Alpha-defensins, which have been identified in humans, monkeys and several rodent species, are particularly abundant in neutrophils, certain macrophage populations and Paneth cells of the small intestine. Every mammalian species explored thus far has beta-defensins. In cows, as many as 13 beta-defensins exist in neutrophils. However, in other species, beta-defensins are more often produced by epithelial cells lining various organs (e.g. the epidermis, bronchial tree and genitourinary tract). Theta-defensins are cyclic and have so far only been identified in primate phagocytes. Defensins are produced constitutively and/or in response to microbial products or proinflammatory cytokines. Some defensins are also called corticostatins (CS) because they inhibit corticotropin-stimulated corticosteroid production. The mechanism(s) by which microorganisms are killed and/or inactivated by defensins is not understood completely. However, it is generally believed that killing is a consequence of disruption of the microbial membrane. The polar topology of defensins, with spatially separated charged and hydrophobic regions, allows them to insert themselves into the phospholipid membranes so that their hydrophobic regions are buried within the lipid membrane interior and their charged (mostly cationic) regions interact with anionic phospholipid head groups and water. Subsequently, some defensins can aggregate to form `channel-like' pores; others might bind to and cover the microbial membrane in a `carpet-like' manner. The net outcome is the disruption of membrane integrity and function, which ultimately leads to the lysis of microorganisms. Some defensins are synthesized as propeptides which may be relevant to this process - in neutrophils only the mature peptides have been identified but in Paneth cells, the propeptide is stored in vesicles [] and appears to be cleaved by trypsin on activation. ; GO: 0006952 defense response
Probab=19.78 E-value=1.3e+02 Score=21.03 Aligned_cols=14 Identities=50% Similarity=0.579 Sum_probs=9.3
Q ss_pred HHHHHHhhhccCCC
Q psy7771 14 LTTLMLQAEALPQR 27 (193)
Q Consensus 14 lttlmlqaealpqr 27 (193)
|.+|..|||.++.|
T Consensus 12 LlAlqaQAepl~~~ 25 (52)
T PF00879_consen 12 LLALQAQAEPLQER 25 (52)
T ss_pred HHHHHHhccccccc
Confidence 45677778777654
No 8
>PF07145 PAM2: Ataxin-2 C-terminal region; InterPro: IPR009818 This entry represents a conserved region approximately 250 residues long located towards the C terminus of eukaryotic ataxin-2. Ataxin-2 is a protein of unknown function, within which expansion of a polyglutamine tract (due to expansion of unstable CAG repeats in the coding region of the SCA2 gene) causes spinocerebellar ataxia type 2 (SCA2), a late-onset neurodegenerative disorder []. The expanded polyglutamine repeat in ataxin-2 causes disruption of the normal morphology of the Golgi complex and increased incidence of cell death []. Ataxin-2 is predicted to consist of mostly non-globular domains [].; PDB: 3NTW_B 1JH4_B 3KTR_B 3KUJ_B 3KUT_D 3KUS_D 1JGN_B 2RQG_A 2RQH_A.
Probab=18.83 E-value=88 Score=17.99 Aligned_cols=13 Identities=46% Similarity=0.723 Sum_probs=9.9
Q ss_pred ccCCCCCCCCCCC
Q psy7771 100 SYNPNPAAFKPSF 112 (193)
Q Consensus 100 synpnpaafkpsf 112 (193)
..|||-..|.|++
T Consensus 5 ~LNp~A~eFvP~~ 17 (18)
T PF07145_consen 5 KLNPNAPEFVPSS 17 (18)
T ss_dssp SSSTTSSSS-TTT
T ss_pred ccCCCCccccCCC
Confidence 5789999998875
No 9
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=18.08 E-value=1.1e+02 Score=20.37 Aligned_cols=8 Identities=50% Similarity=0.659 Sum_probs=3.7
Q ss_pred HHHHHHHH
Q psy7771 9 TILLTLTT 16 (193)
Q Consensus 9 tilltltt 16 (193)
|+||++++
T Consensus 32 t~lL~~~~ 39 (237)
T PF02932_consen 32 TTLLAMTV 39 (237)
T ss_dssp HHHHHHHH
T ss_pred hHHHHHHH
Confidence 44444444
No 10
>PF11383 DUF3187: Protein of unknown function (DUF3187); InterPro: IPR021523 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=15.93 E-value=96 Score=27.01 Aligned_cols=29 Identities=21% Similarity=0.445 Sum_probs=23.3
Q ss_pred CCCCCCCCcccccccCchhhhhhhhcCCC
Q psy7771 34 PRYSESTHPVRQNYISPSLRTTRRAAKPN 62 (193)
Q Consensus 34 prysesthpvrqnyispslrttrraakpn 62 (193)
|-....-+|+.+++.+|.+|......+..
T Consensus 24 Pl~~~nqsPl~~~~l~p~lrsa~~l~~~~ 52 (319)
T PF11383_consen 24 PLRVYNQSPLQSNFLTPQLRSAFSLPSGE 52 (319)
T ss_pred CccccCcCHHHHhcCCCCCcCceecCCCc
Confidence 55677889999999999999877655443
Done!