Query 037011
Match_columns 103
No_of_seqs 106 out of 216
Neff 3.6
Searched_HMMs 46136
Date Fri Mar 29 07:40:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037011.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037011hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02704 GASA: Gibberellin reg 100.0 3.2E-37 6.9E-42 201.0 5.3 60 44-103 1-60 (60)
2 PF07172 GRP: Glycine rich pro 95.3 0.031 6.8E-07 38.8 4.1 19 1-20 1-21 (95)
3 PF15240 Pro-rich: Proline-ric 69.8 3.6 7.9E-05 32.0 2.2 17 7-23 2-18 (179)
4 PF15128 T_cell_tran_alt: T-ce 67.7 6.7 0.00015 27.8 2.9 22 2-23 26-47 (92)
5 PF09257 BCMA-Tall_bind: BCMA, 61.2 7.4 0.00016 23.7 1.9 21 48-68 16-36 (39)
6 PF04202 Mfp-3: Foot protein 3 51.8 13 0.00027 25.4 2.0 18 9-26 8-25 (71)
7 PLN02708 Probable pectinestera 44.8 46 0.001 29.5 4.9 21 45-65 43-63 (553)
8 PF10717 ODV-E18: Occlusion-de 43.7 44 0.00096 23.4 3.8 19 5-23 29-47 (85)
9 PF01456 Mucin: Mucin-like gly 43.3 20 0.00043 25.0 2.1 16 1-16 1-16 (143)
10 PF15284 PAGK: Phage-encoded v 43.1 55 0.0012 21.7 3.9 8 20-27 23-30 (61)
11 PF10731 Anophelin: Thrombin i 40.8 45 0.00097 22.4 3.3 18 5-24 4-22 (65)
12 PF11912 DUF3430: Protein of u 40.4 24 0.00052 25.8 2.2 16 5-20 2-17 (212)
13 PF02950 Conotoxin: Conotoxin; 38.9 10 0.00022 23.8 0.0 14 5-18 2-15 (75)
14 PF06873 SerH: Cell surface im 37.5 19 0.00042 31.1 1.5 20 4-23 3-22 (403)
15 PF01826 TIL: Trypsin Inhibito 32.3 2.7 5.9E-05 25.2 -3.3 41 43-87 8-49 (55)
16 PRK12750 cpxP periplasmic repr 30.5 94 0.002 23.3 4.0 17 1-17 1-18 (170)
17 PF07699 GCC2_GCC3: GCC2 and G 26.9 87 0.0019 18.3 2.7 28 72-99 10-41 (48)
18 COG4537 ComGC Competence prote 26.7 58 0.0013 23.7 2.2 15 6-20 19-33 (107)
19 PLN02995 Probable pectinestera 24.0 1.5E+02 0.0033 26.3 4.7 15 50-64 38-52 (539)
20 PRK09810 entericidin A; Provis 23.8 90 0.002 19.0 2.4 15 4-19 3-17 (41)
21 COG5487 Small integral membran 23.6 1.2E+02 0.0025 19.7 3.0 17 3-20 30-46 (54)
22 PF02532 PsbI: Photosystem II 22.9 1.3E+02 0.0029 18.1 2.9 19 1-19 1-19 (36)
23 PF12276 DUF3617: Protein of u 22.6 63 0.0014 22.7 1.8 14 3-16 1-14 (162)
24 PF00322 Endothelin: Endotheli 22.0 37 0.00079 19.8 0.4 16 52-67 5-21 (31)
25 PF08396 Toxin_34: Spider toxi 21.9 59 0.0013 22.3 1.4 18 76-93 2-21 (75)
26 PF12729 4HB_MCP_1: Four helix 21.6 1.2E+02 0.0026 19.9 2.9 9 5-13 7-15 (181)
27 PF15079 DUF4546: Domain of un 20.2 35 0.00076 27.1 0.1 21 61-81 168-189 (205)
No 1
>PF02704 GASA: Gibberellin regulated protein; InterPro: IPR003854 This is the GASA gibberellin regulated cysteine rich protein family. The expression of these proteins is up-regulated by the plant hormone gibberellin, most of these proteins have some role in plant development. There are 12 cysteine residues conserved within the alignment giving the potential for these proteins to posses 6 disulphide bonds.
Probab=100.00 E-value=3.2e-37 Score=201.00 Aligned_cols=60 Identities=57% Similarity=1.324 Sum_probs=59.4
Q ss_pred CCchHhhHHhhcCCCcchHHHHHHHhcccccccCCCCCCCCCCCCcccccccCCCCCCCC
Q 037011 44 QCPSQCTRRCSQTQYHKPCMFFCQKCCAKCLCVPPGFYGNKAVCPCYNNWKTKSGGPKCP 103 (103)
Q Consensus 44 ~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~Gt~gnk~~CpCY~~~~t~~g~~KCP 103 (103)
||+++|++|||+++++++||++||+||++|+|||||||||+|+||||+||+||+|+||||
T Consensus 1 ~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~GT~gn~~~CpCY~~m~t~~g~pKCP 60 (60)
T PF02704_consen 1 DCGGACSVRCSKASRKKRCMRACGTCCAKCKCVPPGTYGNKEECPCYRDMKTHGGKPKCP 60 (60)
T ss_pred CcchHHHHHHhccCCchHHHHHHHHHhccCcccCCCCCCCCccCCChhhhhccCCCCCCc
Confidence 799999999999999999999999999999999999999999999999999999999999
No 2
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=95.29 E-value=0.031 Score=38.84 Aligned_cols=19 Identities=53% Similarity=0.642 Sum_probs=9.7
Q ss_pred ChhhhHHHH--HHHHHHHHHHH
Q 037011 1 MAKAKLVFV--LLVAALFSISI 20 (103)
Q Consensus 1 MAmak~l~~--~LllsLl~l~~ 20 (103)
|| ||.+++ +||++||+|+.
T Consensus 1 Ma-SK~~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLISS 21 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHHh
Confidence 88 874433 33334555554
No 3
>PF15240 Pro-rich: Proline-rich
Probab=69.79 E-value=3.6 Score=31.99 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHhh
Q 037011 7 VFVLLVAALFSISIVMA 23 (103)
Q Consensus 7 l~~~LllsLl~l~~v~a 23 (103)
|+|||-++||+|+.+..
T Consensus 2 LlVLLSvALLALSSAQ~ 18 (179)
T PF15240_consen 2 LLVLLSVALLALSSAQS 18 (179)
T ss_pred hhHHHHHHHHHhhhccc
Confidence 56666788888887443
No 4
>PF15128 T_cell_tran_alt: T-cell leukemia translocation-altered
Probab=67.70 E-value=6.7 Score=27.81 Aligned_cols=22 Identities=27% Similarity=0.336 Sum_probs=17.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHhh
Q 037011 2 AKAKLVFVLLVAALFSISIVMA 23 (103)
Q Consensus 2 Amak~l~~~LllsLl~l~~v~a 23 (103)
+++|+++.-|+++||+|+++--
T Consensus 26 ~ifkllL~WlvlsLl~I~lAWk 47 (92)
T PF15128_consen 26 QIFKLLLGWLVLSLLAIHLAWK 47 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888888999999988433
No 5
>PF09257 BCMA-Tall_bind: BCMA, TALL-1 binding; InterPro: IPR015337 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. Members of this entry, which are predominantly found in the tumour necrosis factor receptor superfamily member 17, BCMA, are required for binding to tumour necrosis factor ligand TALL-1 []. ; PDB: 2KN1_A 1OQD_R 1XU2_T.
Probab=61.16 E-value=7.4 Score=23.69 Aligned_cols=21 Identities=33% Similarity=0.855 Sum_probs=16.5
Q ss_pred HhhHHhhcCCCcchHHHHHHH
Q 037011 48 QCTRRCSQTQYHKPCMFFCQK 68 (103)
Q Consensus 48 ~C~~RCs~~~~~~~C~~~C~~ 68 (103)
-|--|||+..-+-.|.+||+.
T Consensus 16 PChLRCsn~tPP~~Cq~YCna 36 (39)
T PF09257_consen 16 PCHLRCSNNTPPLPCQRYCNA 36 (39)
T ss_dssp EHHHHHTSSS--TTTHHHHHH
T ss_pred cceeecCCCCCCccchhhccc
Confidence 488999997778899999984
No 6
>PF04202 Mfp-3: Foot protein 3; InterPro: IPR007328 Mytilus foot protein-3 (Mfp-3) is a highly polymorphic protein family located in the byssal adhesive plaques of blue mussels.
Probab=51.79 E-value=13 Score=25.35 Aligned_cols=18 Identities=28% Similarity=0.239 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHhhhhc
Q 037011 9 VLLVAALFSISIVMATET 26 (103)
Q Consensus 9 ~~LllsLl~l~~v~a~~~ 26 (103)
++|.|+||.++.|+++.+
T Consensus 8 VLlaLvLIg~fAVqSdag 25 (71)
T PF04202_consen 8 VLLALVLIGSFAVQSDAG 25 (71)
T ss_pred HHHHHHHHhhheeeecCc
Confidence 344555666666666543
No 7
>PLN02708 Probable pectinesterase/pectinesterase inhibitor
Probab=44.81 E-value=46 Score=29.54 Aligned_cols=21 Identities=24% Similarity=0.529 Sum_probs=16.0
Q ss_pred CchHhhHHhhcCCCcchHHHH
Q 037011 45 CPSQCTRRCSQTQYHKPCMFF 65 (103)
Q Consensus 45 C~~~C~~RCs~~~~~~~C~~~ 65 (103)
=+..=..-|+.+.+++.|...
T Consensus 43 ~~~~I~s~C~~T~YP~lC~sS 63 (553)
T PLN02708 43 TPPQILLACNATRFPDTCVSS 63 (553)
T ss_pred ccHHHHHhccCCCCcHHHHHH
Confidence 344556679999999999875
No 8
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=43.69 E-value=44 Score=23.42 Aligned_cols=19 Identities=16% Similarity=0.356 Sum_probs=10.4
Q ss_pred hHHHHHHHHHHHHHHHHhh
Q 037011 5 KLVFVLLVAALFSISIVMA 23 (103)
Q Consensus 5 k~l~~~LllsLl~l~~v~a 23 (103)
-+|+++++|.||++.+.+.
T Consensus 29 tILivLVIIiLlImlfqsS 47 (85)
T PF10717_consen 29 TILIVLVIIILLIMLFQSS 47 (85)
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 3555555555665555444
No 9
>PF01456 Mucin: Mucin-like glycoprotein; InterPro: IPR000458 This family of trypanosomal proteins resemble vertebrate mucins. The protein consists of three regions. The N and C terminii are conserved between all members of the family, whereas the central region is not well conserved and contains a large number of threonine residues which can be glycosylated []. Indirect evidence suggested that these genes might encode the core protein of parasite mucins, glycoproteins that were proposed to be involved in the interaction with, and invasion of, mammalian host cells.
Probab=43.25 E-value=20 Score=25.05 Aligned_cols=16 Identities=44% Similarity=0.580 Sum_probs=11.5
Q ss_pred ChhhhHHHHHHHHHHH
Q 037011 1 MAKAKLVFVLLVAALF 16 (103)
Q Consensus 1 MAmak~l~~~LllsLl 16 (103)
|-.-|||++||||+|-
T Consensus 1 MmtcRLLCalLvlaLc 16 (143)
T PF01456_consen 1 MMTCRLLCALLVLALC 16 (143)
T ss_pred CchHHHHHHHHHHHHH
Confidence 3345899999888763
No 10
>PF15284 PAGK: Phage-encoded virulence factor
Probab=43.08 E-value=55 Score=21.69 Aligned_cols=8 Identities=25% Similarity=0.418 Sum_probs=4.6
Q ss_pred HHhhhhcc
Q 037011 20 IVMATETQ 27 (103)
Q Consensus 20 ~v~a~~~~ 27 (103)
.+||++.+
T Consensus 23 samAa~~~ 30 (61)
T PF15284_consen 23 SAMAADSS 30 (61)
T ss_pred HHHHHhhC
Confidence 37776543
No 11
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=40.81 E-value=45 Score=22.35 Aligned_cols=18 Identities=44% Similarity=0.691 Sum_probs=8.9
Q ss_pred hHHHH-HHHHHHHHHHHHhhh
Q 037011 5 KLVFV-LLVAALFSISIVMAT 24 (103)
Q Consensus 5 k~l~~-~LllsLl~l~~v~a~ 24 (103)
|++++ ||-++|++ +++++
T Consensus 4 Kl~vialLC~aLva--~vQ~A 22 (65)
T PF10731_consen 4 KLIVIALLCVALVA--IVQSA 22 (65)
T ss_pred hhhHHHHHHHHHHH--HHhcC
Confidence 65544 44455554 45443
No 12
>PF11912 DUF3430: Protein of unknown function (DUF3430); InterPro: IPR021837 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 209 to 265 amino acids in length.
Probab=40.40 E-value=24 Score=25.77 Aligned_cols=16 Identities=31% Similarity=0.536 Sum_probs=8.5
Q ss_pred hHHHHHHHHHHHHHHH
Q 037011 5 KLVFVLLVAALFSISI 20 (103)
Q Consensus 5 k~l~~~LllsLl~l~~ 20 (103)
|+|+.+|||.++++.+
T Consensus 2 Kll~~lilli~~~~~~ 17 (212)
T PF11912_consen 2 KLLISLILLILLIINF 17 (212)
T ss_pred cHHHHHHHHHHHHHhh
Confidence 7766555554444443
No 13
>PF02950 Conotoxin: Conotoxin; InterPro: IPR004214 Cone snail toxins, conotoxins, are small neurotoxic peptides with disulphide connectivity that target ion-channels or G-protein coupled receptors. Based on the number and pattern of disulphide bonds and biological activities, conotoxins can be classified into several families []. Omega, delta and kappa families of conotoxins have a knottin or inhibitor cysteine knot scaffold. The knottin scaffold is a very special disulphide-through-disulphide knot, in which the III-VI disulphide bond crosses the macrocycle formed by two other disulphide bonds (I-IV and II-V) and the interconnecting backbone segments, where I-VI indicates the six cysteine residues starting from the N terminus. The disulphide bonding network, as well as specific amino acids in inter-cysteine loops, provide the specificity of conotoxins []. The cysteine arrangements are the same for omega, delta and kappa families, even though omega conotoxins are calcium channel blockers, whereas delta conotoxins delay the inactivation of sodium channels, and kappa conotoxins are potassium channel blockers []. Mu conotoxins have two types of cysteine arrangements, but the knottin scaffold is not observed. Mu conotoxins target the voltage-gated sodium channels [], and are useful probes for investigating voltage-dependent sodium channels of excitable tissues []. Alpha conotoxins have two types of cysteine arrangements [], and are competitive nicotinic acetylcholine receptor antagonists. ; GO: 0008200 ion channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2EFZ_A 1FYG_A 1RMK_A 1DG0_A 1DFY_A 1DFZ_A 2JQC_A 2YYF_A 2JQB_A 1F3K_A ....
Probab=38.93 E-value=10 Score=23.83 Aligned_cols=14 Identities=50% Similarity=0.615 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHH
Q 037011 5 KLVFVLLVAALFSI 18 (103)
Q Consensus 5 k~l~~~LllsLl~l 18 (103)
|+-+++|++.||+.
T Consensus 2 KLt~vliVavLllt 15 (75)
T PF02950_consen 2 KLTCVLIVAVLLLT 15 (75)
T ss_dssp --------------
T ss_pred CcchHHHHHHHHHH
Confidence 66666644444443
No 14
>PF06873 SerH: Cell surface immobilisation antigen SerH; InterPro: IPR009670 This entry consists of several cell surface immobilisation antigen SerH proteins which seem to be specific to Tetrahymena thermophila. The SerH locus of T. thermophila is one of several paralogous loci with genes encoding variants of the major cell surface protein known as the immobilisation antigen (i-ag) [].
Probab=37.50 E-value=19 Score=31.06 Aligned_cols=20 Identities=20% Similarity=0.381 Sum_probs=13.9
Q ss_pred hhHHHHHHHHHHHHHHHHhh
Q 037011 4 AKLVFVLLVAALFSISIVMA 23 (103)
Q Consensus 4 ak~l~~~LllsLl~l~~v~a 23 (103)
.|+|++.|+|++|++.+..|
T Consensus 3 ~k~lii~Lii~~llv~~i~a 22 (403)
T PF06873_consen 3 NKILIICLIISSLLVSQISA 22 (403)
T ss_pred chhhHHHHHHHHHHHheecc
Confidence 47888887777777665444
No 15
>PF01826 TIL: Trypsin Inhibitor like cysteine rich domain; InterPro: IPR002919 This domain is found in proteinase inhibitors as well as in many extracellular proteins. The domain typically contains ten cysteine residues that form five disulphide bonds. The cysteine residues that form the disulphide bonds are 1-7, 2-6, 3-5, 4-10 and 8-9. This inhibitor domain belongs to MEROPS inhibitor family I8 (clan IA). Proteins containing this domain inhibit peptidases belonging to families S1 (IPR001254 from INTERPRO), S8 (IPR000209 from INTERPRO), and M4 (IPR001570 from INTERPRO) [] and are restricted to the chordata, nematoda, arthropoda and echinodermata. Examples of proteins containing this domain are: chymotrypsin/elastase inhibitor from Ascaris suum (pig roundworm) Acp62F protein from Drosophila melanogaster Bombina trypsin inhibitor from Bombina maxima (large-webbed bell toad) Bombyx subtilisin inhibitor from Bombyx mori (silk moth) von Willebrand factor ; PDB: 2P3F_N 1HX2_A 1CCV_A 1EAI_D 2H9E_C 1COU_A 1ATE_A 1ATB_A 1ATD_A 1ATA_A ....
Probab=32.26 E-value=2.7 Score=25.19 Aligned_cols=41 Identities=37% Similarity=1.031 Sum_probs=27.6
Q ss_pred CCCchHhhHHhhcCCCcchHHHHHHHhcccccccCCCCCCCCC-CC
Q 037011 43 YQCPSQCTRRCSQTQYHKPCMFFCQKCCAKCLCVPPGFYGNKA-VC 87 (103)
Q Consensus 43 ~~C~~~C~~RCs~~~~~~~C~~~C~~CC~~C~CVP~Gt~gnk~-~C 87 (103)
.+|++.|...|+.......|.. .|=.-|.| |+|++-|.+ .|
T Consensus 8 ~~C~~~C~~tC~~~~~~~~C~~---~C~~gC~C-~~G~v~~~~~~C 49 (55)
T PF01826_consen 8 SECGSPCPRTCDNPNNPEPCSE---PCVEGCFC-PPGYVRNDNGRC 49 (55)
T ss_dssp ESSETSTTCBSSCTTTSSSCSS---S-ESEEEE-TTTEEEETTSEE
T ss_pred CcccCCcCCcCCCCCCCcCcCC---CCCccCCC-CCCeeEcCCCCE
Confidence 4788999999998777766663 33344677 668775544 44
No 16
>PRK12750 cpxP periplasmic repressor CpxP; Reviewed
Probab=30.52 E-value=94 Score=23.35 Aligned_cols=17 Identities=41% Similarity=0.387 Sum_probs=9.3
Q ss_pred Chhhh-HHHHHHHHHHHH
Q 037011 1 MAKAK-LVFVLLVAALFS 17 (103)
Q Consensus 1 MAmak-~l~~~LllsLl~ 17 (103)
|.|+| +++++++++|.+
T Consensus 1 ~~~~kkl~~~~v~~~l~l 18 (170)
T PRK12750 1 MKLAKKLVLAAVVLPLTL 18 (170)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 78885 555553444433
No 17
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=26.95 E-value=87 Score=18.31 Aligned_cols=28 Identities=39% Similarity=0.781 Sum_probs=19.6
Q ss_pred cccccCCCCCCCC---CCC-CcccccccCCCC
Q 037011 72 KCLCVPPGFYGNK---AVC-PCYNNWKTKSGG 99 (103)
Q Consensus 72 ~C~CVP~Gt~gnk---~~C-pCY~~~~t~~g~ 99 (103)
.|.=.|.|||-+. .+| +|-.+..|...+
T Consensus 10 ~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~G 41 (48)
T PF07699_consen 10 KCQPCPKGTYQDEEGQTSCTPCPPGSTTSSEG 41 (48)
T ss_pred ccCCCCCCccCCccCCccCccCcCCCccCCcC
Confidence 4555689999543 579 899998775543
No 18
>COG4537 ComGC Competence protein ComGC [Intracellular trafficking and secretion]
Probab=26.66 E-value=58 Score=23.70 Aligned_cols=15 Identities=20% Similarity=0.552 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHH
Q 037011 6 LVFVLLVAALFSISI 20 (103)
Q Consensus 6 ~l~~~LllsLl~l~~ 20 (103)
.|+++|+||+|+|.+
T Consensus 19 MLiVLlIISiLlLl~ 33 (107)
T COG4537 19 MLIVLLIISILLLLF 33 (107)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345666777655443
No 19
>PLN02995 Probable pectinesterase/pectinesterase inhibitor
Probab=23.99 E-value=1.5e+02 Score=26.32 Aligned_cols=15 Identities=33% Similarity=0.829 Sum_probs=11.5
Q ss_pred hHHhhcCCCcchHHH
Q 037011 50 TRRCSQTQYHKPCMF 64 (103)
Q Consensus 50 ~~RCs~~~~~~~C~~ 64 (103)
...|+.+.+++.|.+
T Consensus 38 rs~C~~T~YP~lC~s 52 (539)
T PLN02995 38 DGWCDKTPYPDPCKC 52 (539)
T ss_pred HhhcCCCCChHHHHH
Confidence 456889999998863
No 20
>PRK09810 entericidin A; Provisional
Probab=23.75 E-value=90 Score=18.99 Aligned_cols=15 Identities=13% Similarity=0.312 Sum_probs=6.4
Q ss_pred hhHHHHHHHHHHHHHH
Q 037011 4 AKLVFVLLVAALFSIS 19 (103)
Q Consensus 4 ak~l~~~LllsLl~l~ 19 (103)
-|+++++ +++++++.
T Consensus 3 kk~~~l~-~~~~~~L~ 17 (41)
T PRK09810 3 KRLIVLV-LLASTLLT 17 (41)
T ss_pred HHHHHHH-HHHHHHHh
Confidence 3444444 44444443
No 21
>COG5487 Small integral membrane protein [Function unknown]
Probab=23.60 E-value=1.2e+02 Score=19.73 Aligned_cols=17 Identities=35% Similarity=0.667 Sum_probs=7.7
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 037011 3 KAKLVFVLLVAALFSISI 20 (103)
Q Consensus 3 mak~l~~~LllsLl~l~~ 20 (103)
++|+++++ .+.|+++++
T Consensus 30 iAkIlF~i-~~vlf~vsL 46 (54)
T COG5487 30 IAKILFFI-FLVLFLVSL 46 (54)
T ss_pred HHHHHHHH-HHHHHHHHH
Confidence 35666554 333333333
No 22
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=22.88 E-value=1.3e+02 Score=18.06 Aligned_cols=19 Identities=21% Similarity=0.216 Sum_probs=10.2
Q ss_pred ChhhhHHHHHHHHHHHHHH
Q 037011 1 MAKAKLVFVLLVAALFSIS 19 (103)
Q Consensus 1 MAmak~l~~~LllsLl~l~ 19 (103)
|..-|+++-..++.++.++
T Consensus 1 M~~LK~~Vy~vV~ffv~LF 19 (36)
T PF02532_consen 1 MLTLKIFVYTVVIFFVSLF 19 (36)
T ss_dssp -HHHHHHHHHHHHHHHHHH
T ss_pred CeEEEEeehhhHHHHHHHH
Confidence 5666877665444444444
No 23
>PF12276 DUF3617: Protein of unknown function (DUF3617); InterPro: IPR022061 This family of proteins is found in bacteria. Proteins in this family are typically between 155 and 179 amino acids in length. There is a single completely conserved residue C that may be functionally important.
Probab=22.58 E-value=63 Score=22.73 Aligned_cols=14 Identities=21% Similarity=0.344 Sum_probs=6.6
Q ss_pred hhhHHHHHHHHHHH
Q 037011 3 KAKLVFVLLVAALF 16 (103)
Q Consensus 3 mak~l~~~LllsLl 16 (103)
|.|++++++++.++
T Consensus 1 M~~~~~~~~~~~~~ 14 (162)
T PF12276_consen 1 MKRRLLLALALALL 14 (162)
T ss_pred CchHHHHHHHHHHH
Confidence 44555555444443
No 24
>PF00322 Endothelin: Endothelin family; InterPro: IPR001928 Endothelins (ET's) are the most potent vasoconstrictors known [, , ]. They stimulate cardiac contraction, regulate release of vasoactive substances, and stimulate mitogenesis in blood vessels in primary culture. They also stimulate contraction in almost all other smooth muscles (e.g., uterus, bronchus, vas deferensa and stomach) and stimulate secretion in several tissues (e.g., kidney, liver and adrenals). Endothelin receptors have also been found in the brain, e.g. cerebral cortex, cerebellum and glial cells. Endothelins have been implicated in a variety of pathophysiological conditions associated with stress, including hypertension, myocardial infarction, subarachnoid haemorrhage and renal failure. Endothelins are synthesised by proteolysis of large preproendothelins, which are cleaved to 'big endothelins' before being processed to the mature peptide. Sarafotoxins (SRTX) and bibrotoxin (BTX) are cardiotoxins from the venom of snakes of the Atractaspis family, structurally and functionally [, ] similar to endothelin. As shown in the following schematic representation, these peptides which are 21 residues long contain two intramolecular disulphide bonds. +-------------+ | | CxCxxxxxxxCxxxCxxxxxx | | +-------+ 'C': conserved cysteine involved in a disulphide bond. ; GO: 0019229 regulation of vasoconstriction, 0005576 extracellular region; PDB: 1V6R_A 1T7H_A 1EDP_A 1EDN_A 3CMH_A 6CMH_A 1SRB_A 2LDF_A.
Probab=22.04 E-value=37 Score=19.83 Aligned_cols=16 Identities=44% Similarity=1.163 Sum_probs=12.1
Q ss_pred Hhh-cCCCcchHHHHHH
Q 037011 52 RCS-QTQYHKPCMFFCQ 67 (103)
Q Consensus 52 RCs-~~~~~~~C~~~C~ 67 (103)
||| .+..-+.|+-||-
T Consensus 5 RCsC~s~~DkeC~yFCh 21 (31)
T PF00322_consen 5 RCSCASWKDKECVYFCH 21 (31)
T ss_dssp -ECCSSSTHHHHHHHHH
T ss_pred ceecCCCcchhhheeec
Confidence 888 5667888999985
No 25
>PF08396 Toxin_34: Spider toxin omega agatoxin/Tx1 family; InterPro: IPR013605 The Tx1 family lethal spider neurotoxin induces excitatory symptoms in mice [].
Probab=21.88 E-value=59 Score=22.34 Aligned_cols=18 Identities=28% Similarity=0.625 Sum_probs=12.3
Q ss_pred cCCCCC--CCCCCCCccccc
Q 037011 76 VPPGFY--GNKAVCPCYNNW 93 (103)
Q Consensus 76 VP~Gt~--gnk~~CpCY~~~ 93 (103)
.|-|.. |+|+.|.|+++|
T Consensus 2 i~~G~~CdG~k~dCqCc~~n 21 (75)
T PF08396_consen 2 IEVGADCDGDKSDCQCCRDN 21 (75)
T ss_pred cccCcccCCCcccccccCCC
Confidence 344433 788888888876
No 26
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=21.56 E-value=1.2e+02 Score=19.91 Aligned_cols=9 Identities=22% Similarity=0.283 Sum_probs=4.2
Q ss_pred hHHHHHHHH
Q 037011 5 KLVFVLLVA 13 (103)
Q Consensus 5 k~l~~~Lll 13 (103)
|+++.|+++
T Consensus 7 KL~~~f~~~ 15 (181)
T PF12729_consen 7 KLILGFGLI 15 (181)
T ss_pred HHHHHHHHH
Confidence 555544333
No 27
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=20.25 E-value=35 Score=27.12 Aligned_cols=21 Identities=38% Similarity=1.080 Sum_probs=16.0
Q ss_pred hHHHHHHHhccccc-ccCCCCC
Q 037011 61 PCMFFCQKCCAKCL-CVPPGFY 81 (103)
Q Consensus 61 ~C~~~C~~CC~~C~-CVP~Gt~ 81 (103)
..+-.|++||++|. |..--+|
T Consensus 168 d~lH~C~tCcekcllCalk~n~ 189 (205)
T PF15079_consen 168 DSLHQCRTCCEKCLLCALKNNY 189 (205)
T ss_pred cchhhchhhhhhhhhhhccccc
Confidence 35667999999998 7766554
Done!