Query 033715
Match_columns 113
No_of_seqs 135 out of 199
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 05:27:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033715.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033715hhsearch_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 5.7E-37 1.2E-41 203.1 5.3 60 54-113 1-60 (60)
2 PF03058 Sar8_2: Sar8.2 family 79.5 2.3 5E-05 30.8 3.0 34 1-34 1-35 (93)
3 PF09257 BCMA-Tall_bind: BCMA, 67.0 5.1 0.00011 24.9 2.0 21 58-78 16-36 (39)
4 PF07127 Nodulin_late: Late no 54.9 11 0.00025 23.5 2.1 12 1-12 1-12 (54)
5 PF10717 ODV-E18: Occlusion-de 54.5 15 0.00031 26.3 2.8 16 7-22 31-46 (85)
6 PF12273 RCR: Chitin synthesis 49.3 22 0.00047 25.4 3.0 16 6-21 7-22 (130)
7 PF15284 PAGK: Phage-encoded v 44.2 28 0.0006 23.5 2.7 12 1-12 1-12 (61)
8 PF07699 GCC2_GCC3: GCC2 and G 33.4 55 0.0012 19.5 2.7 27 82-108 10-40 (48)
9 PF02950 Conotoxin: Conotoxin; 32.7 15 0.00032 23.5 0.0 8 7-14 3-10 (75)
10 TIGR02209 ftsL_broad cell divi 31.6 1E+02 0.0023 19.8 3.9 14 1-14 1-14 (85)
11 TIGR03656 IsdC heme uptake pro 30.7 28 0.00061 28.3 1.3 11 1-11 1-11 (217)
12 PF12729 4HB_MCP_1: Four helix 28.8 94 0.002 20.8 3.5 10 5-14 6-15 (181)
13 PLN03207 stomagen; Provisional 28.3 88 0.0019 23.4 3.4 8 59-66 84-91 (113)
14 TIGR01614 PME_inhib pectineste 25.8 38 0.00082 24.3 1.2 13 1-13 1-13 (178)
15 PF15079 DUF4546: Domain of un 25.0 24 0.00052 28.5 0.0 21 71-91 168-189 (205)
16 PRK10081 entericidin B membran 24.8 1.1E+02 0.0025 19.6 3.1 11 15-25 16-26 (48)
17 PF01826 TIL: Trypsin Inhibito 24.3 4 8.7E-05 24.8 -3.6 42 52-97 7-49 (55)
18 PF00879 Defensin_propep: Defe 23.8 1.3E+02 0.0028 19.6 3.2 18 7-25 3-20 (52)
19 PRK10523 lipoprotein involved 23.3 41 0.00089 27.5 1.0 14 44-57 43-56 (234)
20 CHL00066 psbH photosystem II p 23.1 1.1E+02 0.0024 21.3 3.0 14 8-21 47-60 (73)
21 PF10669 Phage_Gp23: Protein g 23.1 1.2E+02 0.0025 22.8 3.3 12 8-19 20-31 (121)
22 PLN00055 photosystem II reacti 21.9 1.2E+02 0.0026 21.1 3.0 13 9-21 48-60 (73)
23 PF03823 Neurokinin_B: Neuroki 21.7 1.2E+02 0.0025 20.5 2.8 17 6-22 2-18 (59)
24 PF05170 AsmA: AsmA family; I 21.6 88 0.0019 26.9 2.7 17 1-17 1-17 (604)
25 PRK12596 putative monovalent c 20.7 1.2E+02 0.0025 23.1 2.9 22 1-22 1-22 (171)
26 PF11395 DUF2873: Protein of u 20.5 1.7E+02 0.0037 18.4 3.2 6 13-18 22-27 (43)
27 PRK09810 entericidin A; Provis 20.3 1.4E+02 0.0029 18.6 2.7 21 5-25 3-23 (41)
28 PRK02624 psbH photosystem II r 20.1 1.4E+02 0.0031 20.3 3.0 11 10-20 37-47 (64)
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=5.7e-37 Score=203.08 Aligned_cols=60 Identities=58% Similarity=1.333 Sum_probs=59.4
Q ss_pred CChhHhhHHhhcCCCCChHHHHHHHhccCccccCCCCCCCCCCCCcccccccCCCCCCCC
Q 033715 54 ECAPKCHYRCSATSYKKPCLFFCQKCCAKCLCVPAGTYGNKQTCPCYNNWKTKRGGPKCP 113 (113)
Q Consensus 54 ~C~~~C~~RCs~~~~~~~C~~~C~~CC~kC~CVP~GtyGnk~~CPCY~~m~t~~g~pKCP 113 (113)
||+++|++|||+++++++||++||+||++|+|||||||||+|+||||+||+||+|+||||
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
>PF03058 Sar8_2: Sar8.2 family; InterPro: IPR004297 Members of this family are found in Solanaceae spp. plants, a taxonomic group (family) that includes pepper and tobacco plant species. Synthesis of these proteins is induced by Tobacco mosaic virus and salicylic acid []; indeed they are thought to be involved in the development of systemic acquired resistance (SAR) after an initial hypersensitive response to microbial infection [, ]. SAR is characterised by long-lasting resistance to infection by a wide range of pathogens, extending to plant tissues distant from the initial infection site [].
Probab=79.47 E-value=2.3 Score=30.78 Aligned_cols=34 Identities=21% Similarity=0.270 Sum_probs=14.7
Q ss_pred ChhhHHHHHHH-HHHHHHHHHHHhhhhcchhhhhh
Q 033715 1 MARMLRLVVLF-VALMLVLVAQNQAAGTGIAASQL 34 (113)
Q Consensus 1 Ma~~~~~~~~~-l~~~~l~~~~~~~~~s~~~~~~~ 34 (113)
|+.+..|++-| |+|+|+++...-++...++|+.+
T Consensus 1 M~~Ktnlfl~lSLailLmIISSqv~AREms~A~ap 35 (93)
T PF03058_consen 1 MVSKTNLFLCLSLAILLMIISSQVDAREMSKASAP 35 (93)
T ss_pred CcchhhhHHHHHHHHHHHHHhhHHHHHHHhcccch
Confidence 56555555433 43333333322233334444433
No 3
>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=66.98 E-value=5.1 Score=24.91 Aligned_cols=21 Identities=38% Similarity=0.989 Sum_probs=16.6
Q ss_pred HhhHHhhcCCCCChHHHHHHH
Q 033715 58 KCHYRCSATSYKKPCLFFCQK 78 (113)
Q Consensus 58 ~C~~RCs~~~~~~~C~~~C~~ 78 (113)
-|.-|||+..-+-.|.+||+.
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 389999998888899999984
No 4
>PF07127 Nodulin_late: Late nodulin protein; InterPro: IPR009810 This family consists of several plant specific late nodulin sequences which are homologous to the Pisum sativum (Garden pea) ENOD3 protein. ENOD3 is expressed in the late stages of root nodule formation and contains two pairs of cysteine residues toward the proteins C terminus which may be involved in metal-binding [].; GO: 0046872 metal ion binding, 0009878 nodule morphogenesis
Probab=54.93 E-value=11 Score=23.49 Aligned_cols=12 Identities=33% Similarity=0.733 Sum_probs=6.7
Q ss_pred ChhhHHHHHHHH
Q 033715 1 MARMLRLVVLFV 12 (113)
Q Consensus 1 Ma~~~~~~~~~l 12 (113)
||++.+++-+++
T Consensus 1 Ma~ilKFvY~mI 12 (54)
T PF07127_consen 1 MAKILKFVYAMI 12 (54)
T ss_pred CccchhhHHHHH
Confidence 777655544443
No 5
>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=54.55 E-value=15 Score=26.31 Aligned_cols=16 Identities=31% Similarity=0.739 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 033715 7 LVVLFVALMLVLVAQN 22 (113)
Q Consensus 7 ~~~~~l~~~~l~~~~~ 22 (113)
|++|+++|+|++|++.
T Consensus 31 LivLVIIiLlImlfqs 46 (85)
T PF10717_consen 31 LIVLVIIILLIMLFQS 46 (85)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 3344444444444443
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=49.28 E-value=22 Score=25.40 Aligned_cols=16 Identities=6% Similarity=0.386 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 033715 6 RLVVLFVALMLVLVAQ 21 (113)
Q Consensus 6 ~~~~~~l~~~~l~~~~ 21 (113)
-|++++|++||++...
T Consensus 7 iii~~i~l~~~~~~~~ 22 (130)
T PF12273_consen 7 IIIVAILLFLFLFYCH 22 (130)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4455554444444333
No 7
>PF15284 PAGK: Phage-encoded virulence factor
Probab=44.20 E-value=28 Score=23.53 Aligned_cols=12 Identities=17% Similarity=0.412 Sum_probs=5.3
Q ss_pred ChhhHHHHHHHH
Q 033715 1 MARMLRLVVLFV 12 (113)
Q Consensus 1 Ma~~~~~~~~~l 12 (113)
|.+..++++.++
T Consensus 1 Mkk~ksifL~l~ 12 (61)
T PF15284_consen 1 MKKFKSIFLALV 12 (61)
T ss_pred ChHHHHHHHHHH
Confidence 555444444333
No 8
>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=33.39 E-value=55 Score=19.51 Aligned_cols=27 Identities=37% Similarity=0.782 Sum_probs=19.8
Q ss_pred CccccCCCCCCCC---CCC-CcccccccCCC
Q 033715 82 KCLCVPAGTYGNK---QTC-PCYNNWKTKRG 108 (113)
Q Consensus 82 kC~CVP~GtyGnk---~~C-PCY~~m~t~~g 108 (113)
.|.=.|.|||-+. .+| +|-.+..|..-
T Consensus 10 ~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~ 40 (48)
T PF07699_consen 10 KCQPCPKGTYQDEEGQTSCTPCPPGSTTSSE 40 (48)
T ss_pred ccCCCCCCccCCccCCccCccCcCCCccCCc
Confidence 4555689999854 579 89999887543
No 9
>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=32.67 E-value=15 Score=23.46 Aligned_cols=8 Identities=13% Similarity=0.409 Sum_probs=0.0
Q ss_pred HHHHHHHH
Q 033715 7 LVVLFVAL 14 (113)
Q Consensus 7 ~~~~~l~~ 14 (113)
|-+++||.
T Consensus 3 Lt~vliVa 10 (75)
T PF02950_consen 3 LTCVLIVA 10 (75)
T ss_dssp --------
T ss_pred cchHHHHH
Confidence 44344333
No 10
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=31.59 E-value=1e+02 Score=19.79 Aligned_cols=14 Identities=14% Similarity=0.337 Sum_probs=5.5
Q ss_pred ChhhHHHHHHHHHH
Q 033715 1 MARMLRLVVLFVAL 14 (113)
Q Consensus 1 Ma~~~~~~~~~l~~ 14 (113)
|.++.-++++++++
T Consensus 1 ~~~l~~~l~~~v~~ 14 (85)
T TIGR02209 1 EKKLYVLLLLAILV 14 (85)
T ss_pred CchHHHHHHHHHHH
Confidence 34443333333333
No 11
>TIGR03656 IsdC heme uptake protein IsdC. Isd proteins are iron-regulated surface proteins found in Bacillus, Staphylococcus and Listeria species and are responsible for heme scavenging from hemoproteins. The IsdC protein consists of an N-terminal hydrophobic signal sequence, a central NEAT (NEAr Transporter, pfam05031) domain which confers the ability to bind heme and a C-terminal SrtB processing signal which targets the protein to the cell wall. IsdC is believed to make a direct contact with, and transfer heme to, the heme-binding component (IsdE) of an ABC transporter in the cytoplasmic membrane, and to receive heme from other NEAT-containing heme-binding proteins also localized in the cell wall.
Probab=30.70 E-value=28 Score=28.29 Aligned_cols=11 Identities=18% Similarity=0.398 Sum_probs=5.6
Q ss_pred ChhhHHHHHHH
Q 033715 1 MARMLRLVVLF 11 (113)
Q Consensus 1 Ma~~~~~~~~~ 11 (113)
|.+++++++|+
T Consensus 1 mk~~~~~~~~~ 11 (217)
T TIGR03656 1 MKKILVFAFFT 11 (217)
T ss_pred CcchhhHHHHH
Confidence 66665553333
No 12
>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=28.79 E-value=94 Score=20.75 Aligned_cols=10 Identities=20% Similarity=0.374 Sum_probs=4.5
Q ss_pred HHHHHHHHHH
Q 033715 5 LRLVVLFVAL 14 (113)
Q Consensus 5 ~~~~~~~l~~ 14 (113)
.||++.|+++
T Consensus 6 ~KL~~~f~~~ 15 (181)
T PF12729_consen 6 TKLILGFGLI 15 (181)
T ss_pred HHHHHHHHHH
Confidence 3455554333
No 13
>PLN03207 stomagen; Provisional
Probab=28.27 E-value=88 Score=23.35 Aligned_cols=8 Identities=50% Similarity=1.506 Sum_probs=4.7
Q ss_pred hhHHhhcC
Q 033715 59 CHYRCSAT 66 (113)
Q Consensus 59 C~~RCs~~ 66 (113)
|.+||+.-
T Consensus 84 cr~kc~~e 91 (113)
T PLN03207 84 CRYKCRAE 91 (113)
T ss_pred ccccccce
Confidence 66666643
No 14
>TIGR01614 PME_inhib pectinesterase inhibitor domain. This model describes a plant domain of about 200 amino acids, characterized by four conserved Cys residues, shown in a pectinesterase inhibitor from Kiwi to form two disulfide bonds: first to second and third to fourth. Roughly half the members of this family have the region described by this model followed immediately by a pectinesterase domain, pfam01095. This suggests that the pairing of the enzymatic domain and its inhibitor reflects a conserved regulatory mechanism for this enzyme family.
Probab=25.76 E-value=38 Score=24.31 Aligned_cols=13 Identities=31% Similarity=0.542 Sum_probs=6.9
Q ss_pred ChhhHHHHHHHHH
Q 033715 1 MARMLRLVVLFVA 13 (113)
Q Consensus 1 Ma~~~~~~~~~l~ 13 (113)
|+++..+++|+|+
T Consensus 1 ~~~~~~~~~~~~~ 13 (178)
T TIGR01614 1 MASSLSLLLFLLL 13 (178)
T ss_pred CchhHHHHHHHHH
Confidence 6665555544443
No 15
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=25.03 E-value=24 Score=28.54 Aligned_cols=21 Identities=43% Similarity=1.159 Sum_probs=16.5
Q ss_pred hHHHHHHHhccCcc-ccCCCCC
Q 033715 71 PCLFFCQKCCAKCL-CVPAGTY 91 (113)
Q Consensus 71 ~C~~~C~~CC~kC~-CVP~Gty 91 (113)
..+-.|++||++|. |..--+|
T Consensus 168 d~lH~C~tCcekcllCalk~n~ 189 (205)
T PF15079_consen 168 DSLHQCRTCCEKCLLCALKNNY 189 (205)
T ss_pred cchhhchhhhhhhhhhhccccc
Confidence 46778999999998 7766554
No 16
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=24.80 E-value=1.1e+02 Score=19.62 Aligned_cols=11 Identities=36% Similarity=0.259 Sum_probs=4.9
Q ss_pred HHHHHHHHhhh
Q 033715 15 MLVLVAQNQAA 25 (113)
Q Consensus 15 ~~l~~~~~~~~ 25 (113)
++++...|.++
T Consensus 16 ~~~l~~CnTv~ 26 (48)
T PRK10081 16 STVLTACNTTR 26 (48)
T ss_pred HHHHhhhhhhh
Confidence 33344445444
No 17
>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=24.31 E-value=4 Score=24.83 Aligned_cols=42 Identities=31% Similarity=0.834 Sum_probs=27.9
Q ss_pred CCCChhHhhHHhhcCCCCChHHHHHHHhccCccccCCCCCCCCC-CC
Q 033715 52 HQECAPKCHYRCSATSYKKPCLFFCQKCCAKCLCVPAGTYGNKQ-TC 97 (113)
Q Consensus 52 ~~~C~~~C~~RCs~~~~~~~C~~~C~~CC~kC~CVP~GtyGnk~-~C 97 (113)
..+|++.|...|+.......|...| =.-|.| |+|++-|.+ .|
T Consensus 7 y~~C~~~C~~tC~~~~~~~~C~~~C---~~gC~C-~~G~v~~~~~~C 49 (55)
T PF01826_consen 7 YSECGSPCPRTCDNPNNPEPCSEPC---VEGCFC-PPGYVRNDNGRC 49 (55)
T ss_dssp EESSETSTTCBSSCTTTSSSCSSS----ESEEEE-TTTEEEETTSEE
T ss_pred eCcccCCcCCcCCCCCCCcCcCCCC---CccCCC-CCCeeEcCCCCE
Confidence 3479999999999877777666333 334667 567776554 44
No 18
>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=23.81 E-value=1.3e+02 Score=19.60 Aligned_cols=18 Identities=39% Similarity=0.521 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 033715 7 LVVLFVALMLVLVAQNQAA 25 (113)
Q Consensus 7 ~~~~~l~~~~l~~~~~~~~ 25 (113)
-++|+.+ +||+-++.+++
T Consensus 3 TL~LLaA-lLLlAlqaQAe 20 (52)
T PF00879_consen 3 TLALLAA-LLLLALQAQAE 20 (52)
T ss_pred HHHHHHH-HHHHHHHHhcc
Confidence 3444433 33333444444
No 19
>PRK10523 lipoprotein involved with copper homeostasis and adhesion; Provisional
Probab=23.25 E-value=41 Score=27.46 Aligned_cols=14 Identities=21% Similarity=0.437 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCChh
Q 033715 44 GTTQGSLNHQECAP 57 (113)
Q Consensus 44 g~~~g~l~~~~C~~ 57 (113)
|.=+|-|+-.||++
T Consensus 43 gtY~G~LPCADC~G 56 (234)
T PRK10523 43 QSWRGVLPCADCEG 56 (234)
T ss_pred cEEeEEEECCCCCC
Confidence 44466788788864
No 20
>CHL00066 psbH photosystem II protein H
Probab=23.14 E-value=1.1e+02 Score=21.32 Aligned_cols=14 Identities=14% Similarity=0.510 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHHH
Q 033715 8 VVLFVALMLVLVAQ 21 (113)
Q Consensus 8 ~~~~l~~~~l~~~~ 21 (113)
.++|++++++++++
T Consensus 47 m~lf~vfl~iiLei 60 (73)
T CHL00066 47 MALFAVFLSIILEI 60 (73)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333334333
No 21
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=23.06 E-value=1.2e+02 Score=22.81 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 033715 8 VVLFVALMLVLV 19 (113)
Q Consensus 8 ~~~~l~~~~l~~ 19 (113)
.+||+++|+++|
T Consensus 20 A~L~i~~FiILL 31 (121)
T PF10669_consen 20 AFLFIVVFIILL 31 (121)
T ss_pred HHHHHHHHHHHH
Confidence 333343333333
No 22
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=21.91 E-value=1.2e+02 Score=21.11 Aligned_cols=13 Identities=15% Similarity=0.508 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHHH
Q 033715 9 VLFVALMLVLVAQ 21 (113)
Q Consensus 9 ~~~l~~~~l~~~~ 21 (113)
.+|++++++++++
T Consensus 48 ~lf~vfl~iilei 60 (73)
T PLN00055 48 ALFAVFLSIILEI 60 (73)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 23
>PF03823 Neurokinin_B: Neurokinin B; InterPro: IPR003635 Tachykinins [, , ] are a group of biologically active peptides which excite neurons, evoke behavioral responses, are potent vasodilatators and contract (directly or indirectly) many smooth muscles. This family includes neurokinins, as well as many other peptides. Like other tachykinins, neurokinins are synthesized as larger protein precursors that are enzymatically converted to their mature forms.; GO: 0007217 tachykinin receptor signaling pathway
Probab=21.68 E-value=1.2e+02 Score=20.47 Aligned_cols=17 Identities=29% Similarity=0.561 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 033715 6 RLVVLFVALMLVLVAQN 22 (113)
Q Consensus 6 ~~~~~~l~~~~l~~~~~ 22 (113)
|..++|.+|+.+.+...
T Consensus 2 R~~lLf~aiLalsla~s 18 (59)
T PF03823_consen 2 RSTLLFAAILALSLARS 18 (59)
T ss_pred hhHHHHHHHHHHHHHHH
Confidence 45566666655555443
No 24
>PF05170 AsmA: AsmA family; InterPro: IPR007844 The AsmA protein is involved in the assembly of outer membrane proteins in Escherichia coli []. AsmA mutations were isolated as extragenic suppressors of an OmpF assembly mutant []. AsmA may have a role in LPS biogenesis [].
Probab=21.61 E-value=88 Score=26.95 Aligned_cols=17 Identities=18% Similarity=0.759 Sum_probs=10.8
Q ss_pred ChhhHHHHHHHHHHHHH
Q 033715 1 MARMLRLVVLFVALMLV 17 (113)
Q Consensus 1 Ma~~~~~~~~~l~~~~l 17 (113)
|.+..++++++|+++++
T Consensus 1 Mkk~lki~~~~l~~lvl 17 (604)
T PF05170_consen 1 MKKLLKILLIILAVLVL 17 (604)
T ss_pred CchHHHHHHHHHHHHHH
Confidence 78877777666544433
No 25
>PRK12596 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=20.67 E-value=1.2e+02 Score=23.10 Aligned_cols=22 Identities=36% Similarity=0.599 Sum_probs=14.5
Q ss_pred ChhhHHHHHHHHHHHHHHHHHH
Q 033715 1 MARMLRLVVLFVALMLVLVAQN 22 (113)
Q Consensus 1 Ma~~~~~~~~~l~~~~l~~~~~ 22 (113)
|+|++..++++++++++++.++
T Consensus 1 m~~~~~~~~l~~~L~~~WllL~ 22 (171)
T PRK12596 1 MKKILPYPLLFVSLVLFWLLLN 22 (171)
T ss_pred CcchhhHHHHHHHHHHHHHHHH
Confidence 7777776666666666655554
No 26
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=20.53 E-value=1.7e+02 Score=18.43 Aligned_cols=6 Identities=33% Similarity=0.899 Sum_probs=2.3
Q ss_pred HHHHHH
Q 033715 13 ALMLVL 18 (113)
Q Consensus 13 ~~~~l~ 18 (113)
+||+++
T Consensus 22 ~imlii 27 (43)
T PF11395_consen 22 IIMLII 27 (43)
T ss_pred HHHHHH
Confidence 334433
No 27
>PRK09810 entericidin A; Provisional
Probab=20.33 E-value=1.4e+02 Score=18.58 Aligned_cols=21 Identities=33% Similarity=0.373 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 033715 5 LRLVVLFVALMLVLVAQNQAA 25 (113)
Q Consensus 5 ~~~~~~~l~~~~l~~~~~~~~ 25 (113)
.++++++++.++++..-|..+
T Consensus 3 kk~~~l~~~~~~~L~aCNTv~ 23 (41)
T PRK09810 3 KRLIVLVLLASTLLTGCNTAR 23 (41)
T ss_pred HHHHHHHHHHHHHHhhhhhcc
Confidence 344554444444455555554
No 28
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=20.10 E-value=1.4e+02 Score=20.33 Aligned_cols=11 Identities=27% Similarity=0.884 Sum_probs=4.1
Q ss_pred HHHHHHHHHHH
Q 033715 10 LFVALMLVLVA 20 (113)
Q Consensus 10 ~~l~~~~l~~~ 20 (113)
+|+++++++++
T Consensus 37 Lf~vFl~iiLe 47 (64)
T PRK02624 37 LFLVFLLIILQ 47 (64)
T ss_pred HHHHHHHHHHH
Confidence 33333333333
Done!