Query 034641
Match_columns 88
No_of_seqs 86 out of 88
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 04:58:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034641.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034641hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12023 DUF3511: Domain of un 100.0 4.1E-33 8.8E-38 172.4 0.9 47 40-86 1-47 (47)
2 PF07849 DUF1641: Protein of u 20.1 51 0.0011 19.1 0.7 10 41-50 19-28 (42)
3 PF15625 CC2D2AN-C2: CC2D2A N- 18.4 63 0.0014 23.0 1.0 17 43-59 24-40 (168)
4 PF02009 Rifin_STEVOR: Rifin/s 16.4 68 0.0015 25.7 0.9 8 42-49 32-39 (299)
5 PF07933 DUF1681: Protein of u 15.8 21 0.00047 26.5 -1.9 15 18-32 103-117 (160)
6 PF10587 EF-1_beta_acid: Eukar 14.0 71 0.0015 18.1 0.3 16 43-58 9-26 (28)
7 PTZ00046 rifin; Provisional 12.9 96 0.0021 25.9 0.9 8 42-49 52-59 (358)
8 smart00227 NEBU The Nebulin re 12.9 1.2E+02 0.0026 15.4 1.0 13 42-54 5-17 (31)
9 PRK00435 ef1B elongation facto 11.8 85 0.0018 21.1 0.2 27 60-86 21-47 (88)
10 PF01372 Melittin: Melittin; 11.3 41 0.00088 18.9 -1.2 9 72-80 16-24 (26)
No 1
>PF12023 DUF3511: Domain of unknown function (DUF3511); InterPro: IPR021899 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 50 amino acids in length. This domain has two completely conserved residues (Y and K) that may be functionally important.
Probab=99.97 E-value=4.1e-33 Score=172.44 Aligned_cols=47 Identities=57% Similarity=0.958 Sum_probs=45.7
Q ss_pred CCCCCHHHHhhhhheeeeeeeeehhhhhhhhccceeeccccceeccc
Q 034641 40 ATSSDPEIKRKKRIASYNVFTVENKLKSSVRNSFKWIKGKFSDVRYG 86 (88)
Q Consensus 40 ~~~~dpE~kRkkRVA~Yk~Y~vEGKvK~S~R~sfrWiK~k~s~ivyG 86 (88)
|+++|||+|||||||+||+|+||||||+|||+||||||++|++||||
T Consensus 1 w~~~dpE~kRkkRVA~Yk~y~vEGKvK~S~R~sfrWiK~k~s~iv~G 47 (47)
T PF12023_consen 1 WGFNDPEMKRKKRVASYKVYAVEGKVKGSLRKSFRWIKNKCSRIVYG 47 (47)
T ss_pred CCCCCHHHHHHHHHHhhheeeeehHHHHHHHhhhHHHHHHhhHhhcC
Confidence 56799999999999999999999999999999999999999999998
No 2
>PF07849 DUF1641: Protein of unknown function (DUF1641); InterPro: IPR012440 Archaeal and bacterial hypothetical proteins are found in this family, with the region in question being approximately 40 residues long.
Probab=20.12 E-value=51 Score=19.10 Aligned_cols=10 Identities=30% Similarity=0.717 Sum_probs=8.2
Q ss_pred CCCCHHHHhh
Q 034641 41 TSSDPEIKRK 50 (88)
Q Consensus 41 ~~~dpE~kRk 50 (88)
...|||+||=
T Consensus 19 ~l~Dpdvqrg 28 (42)
T PF07849_consen 19 ALRDPDVQRG 28 (42)
T ss_pred HHcCHHHHHH
Confidence 4689999984
No 3
>PF15625 CC2D2AN-C2: CC2D2A N-terminal C2 domain
Probab=18.43 E-value=63 Score=22.96 Aligned_cols=17 Identities=18% Similarity=0.430 Sum_probs=14.8
Q ss_pred CCHHHHhhhhheeeeee
Q 034641 43 SDPEIKRKKRIASYNVF 59 (88)
Q Consensus 43 ~dpE~kRkkRVA~Yk~Y 59 (88)
.-+|.+||++|.+++.|
T Consensus 24 p~~E~~RR~~~~~~~~~ 40 (168)
T PF15625_consen 24 PRAEQNRRQRVQKTRYY 40 (168)
T ss_pred ChhHhhhHHHhhheeEE
Confidence 34799999999999988
No 4
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=16.37 E-value=68 Score=25.73 Aligned_cols=8 Identities=50% Similarity=0.949 Sum_probs=6.7
Q ss_pred CCCHHHHh
Q 034641 42 SSDPEIKR 49 (88)
Q Consensus 42 ~~dpE~kR 49 (88)
.||||||+
T Consensus 32 DNDPeMK~ 39 (299)
T PF02009_consen 32 DNDPEMKS 39 (299)
T ss_pred CCcHHHHH
Confidence 38999986
No 5
>PF07933 DUF1681: Protein of unknown function (DUF1681); InterPro: IPR012466 NECAP 1 localises to clathrin-coated pits and direct binding to the globular ear domain of the alpha-adaptin subunit (alpha-ear) of the adaptor protein 2 (AP-2) complex. This interaction is mediated by a specific motif, WVQF, that uses a distinct alpha-ear interface relative to known alpha-ear-binding partners. Disruption of this interaction blocks clathrin-mediated endocytosis [].; GO: 0006897 endocytosis, 0016020 membrane; PDB: 1TQZ_A.
Probab=15.75 E-value=21 Score=26.53 Aligned_cols=15 Identities=33% Similarity=0.581 Sum_probs=11.1
Q ss_pred ccccccCcceeecCC
Q 034641 18 FDFDNQSNAYIFNGP 32 (88)
Q Consensus 18 ~g~~~~s~sy~fng~ 32 (88)
.||+||+.+++||-.
T Consensus 103 iGF~eRsdAFDF~va 117 (160)
T PF07933_consen 103 IGFRERSDAFDFNVA 117 (160)
T ss_dssp EE-S-HHHHHHHHHH
T ss_pred EeeccccccccHHHH
Confidence 699999999999853
No 6
>PF10587 EF-1_beta_acid: Eukaryotic elongation factor 1 beta central acidic region; InterPro: IPR018940 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. Elongation factor EF1B (also known as EF-Ts or EF-1beta/gamma/delta) is a nucleotide exchange factor that is required to regenerate EF1A from its inactive form (EF1A-GDP) to its active form (EF1A-GTP). EF1A is then ready to interact with a new aminoacyl-tRNA to begin the cycle again. EF1B is more complex in eukaryotes than in bacteria, and can consist of three subunits: EF1B-alpha (or EF-1beta), EF1B-gamma (or EF-1gamma) and EF1B-beta (or EF-1delta) []. This region is found in the centre of the beta subunits of Elongation factor-1. More information about these proteins can be found at Protein of the Month: Elongation Factors [].
Probab=13.99 E-value=71 Score=18.07 Aligned_cols=16 Identities=38% Similarity=0.642 Sum_probs=11.0
Q ss_pred CCHHHHhh--hhheeeee
Q 034641 43 SDPEIKRK--KRIASYNV 58 (88)
Q Consensus 43 ~dpE~kRk--kRVA~Yk~ 58 (88)
.|+|.+|- .|+|.|..
T Consensus 9 ed~ea~r~reeRla~y~a 26 (28)
T PF10587_consen 9 EDEEAERIREERLAAYAA 26 (28)
T ss_pred ccHHHHHHHHHHHHHHHc
Confidence 46666654 79998863
No 7
>PTZ00046 rifin; Provisional
Probab=12.90 E-value=96 Score=25.94 Aligned_cols=8 Identities=50% Similarity=0.949 Sum_probs=6.8
Q ss_pred CCCHHHHh
Q 034641 42 SSDPEIKR 49 (88)
Q Consensus 42 ~~dpE~kR 49 (88)
.||||||+
T Consensus 52 DNDPeMK~ 59 (358)
T PTZ00046 52 DNDPEMKS 59 (358)
T ss_pred CCcHHHHH
Confidence 39999987
No 8
>smart00227 NEBU The Nebulin repeat is present also in Las1. Tandem arrays of these repeats are known to bind actin.
Probab=12.88 E-value=1.2e+02 Score=15.42 Aligned_cols=13 Identities=31% Similarity=0.368 Sum_probs=10.7
Q ss_pred CCCHHHHhhhhhe
Q 034641 42 SSDPEIKRKKRIA 54 (88)
Q Consensus 42 ~~dpE~kRkkRVA 54 (88)
.++||+.+-|+++
T Consensus 5 ~d~p~~~~ak~~~ 17 (31)
T smart00227 5 PDTPEILLAKKNQ 17 (31)
T ss_pred cCCHHHHHHHHHH
Confidence 4789999988875
No 9
>PRK00435 ef1B elongation factor 1-beta; Validated
Probab=11.83 E-value=85 Score=21.05 Aligned_cols=27 Identities=15% Similarity=0.292 Sum_probs=23.5
Q ss_pred eeehhhhhhhhccceeeccccceeccc
Q 034641 60 TVENKLKSSVRNSFKWIKGKFSDVRYG 86 (88)
Q Consensus 60 ~vEGKvK~S~R~sfrWiK~k~s~ivyG 86 (88)
.++-++|+.+..++.|-+.+.-.|-||
T Consensus 21 ~L~~~ik~~~~~g~~~~~~~~ePIaFG 47 (88)
T PRK00435 21 ELKEKIKEVLPEGYKINGIEEEPIAFG 47 (88)
T ss_pred HHHHHHHHhCcCCcEEeEeEEEEeecc
Confidence 356789999999999999999888888
No 10
>PF01372 Melittin: Melittin; InterPro: IPR002116 Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an Arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Api m 3. Melittin is the principal protein component of the venom of the honeybee, Apis mellifera. It inhibits protein kinase C, Ca2+/calmodulin-dependent protein kinase II, myosin light chain kinase and Na+/K+-ATPase (synaptosomal membrane) and is a cell membrane lytic factor. Melittin is a small peptide with no disulphide bridge; the N-terminal part of the molecule is predominantly hydrophobic and the C-terminal part is hydrophilic and strongly basic. The molecular mechanisms underlying the various effects of melittin on membranes have not been completely defined and much of the evidence indicates that different molecular mechanisms may underlie different actions of the peptide []. Extensive work with melittin has shown that the venom has multiple effects, probably, as a result of its interaction with negatively changed phospholipids. It inhibits well known transport pumps such as the Na+-K+-ATPase and the H+-K+-ATPase. Melittin increases the permeability of cell membranes to ions, particularly Na+ and indirectly Ca2+, because of the Na+-Ca2+-exchange. This effect results in marked morphological and functional changes, particularly in excitable tissues such as cardiac myocytes. In some other tissues, e.g., cornea, not only Na+ but Cl- permeability is also increased by melittin. Similar effects to melittin on H+-K+-ATPase have been found with the synthetic amphipathic polypeptide Trp-3 []. The study of melittin in model membranes has been useful for the development of methodology for determination of membrane protein structures. A molecular dynamics simulation of melittin in a hydrated dipalmitoylphosphatidylcholine (DPPC) bilayer was carried out. The effect of melittin on the surrounding membrane was localised to its immediate vicinity, and its asymmetry with respect to the two layers may be a result of the fact that it is not fully transmembranal. Melittin's hydrophilic C terminus anchors it at the extracellular interface, leaving the N terminus "loose" in the lower layer of the membrane [].; GO: 0004860 protein kinase inhibitor activity, 0005576 extracellular region; PDB: 3QRX_B 2MLT_A 1BH1_A.
Probab=11.35 E-value=41 Score=18.89 Aligned_cols=9 Identities=44% Similarity=0.770 Sum_probs=6.6
Q ss_pred cceeecccc
Q 034641 72 SFKWIKGKF 80 (88)
Q Consensus 72 sfrWiK~k~ 80 (88)
-+.|||+|-
T Consensus 16 lISWIK~kr 24 (26)
T PF01372_consen 16 LISWIKNKR 24 (26)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHh
Confidence 467999874
Done!