Query 031740
Match_columns 153
No_of_seqs 110 out of 262
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:42:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031740.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031740hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00178 STI Soybean trypsin in 100.0 1.1E-39 2.5E-44 255.1 12.8 111 32-151 1-139 (172)
2 smart00452 STI Soybean trypsin 100.0 1.9E-38 4.2E-43 248.2 12.8 110 33-152 1-137 (172)
3 PF00197 Kunitz_legume: Trypsi 100.0 4.1E-38 9E-43 246.8 11.6 113 32-152 1-143 (176)
4 PF02402 Lysis_col: Lysis prot 63.8 6.4 0.00014 24.5 2.0 18 28-45 19-36 (46)
5 PF07172 GRP: Glycine rich pro 58.7 6.2 0.00013 28.1 1.5 11 33-43 32-42 (95)
6 PF12702 Lipocalin_3: Lipocali 55.3 9.8 0.00021 27.0 2.1 45 96-146 42-92 (93)
7 PF05474 Semenogelin: Semenoge 53.7 7.3 0.00016 35.7 1.4 15 1-15 1-15 (582)
8 PF14009 DUF4228: Domain of un 50.4 11 0.00023 28.1 1.7 21 36-56 64-84 (181)
9 PF10657 RC-P840_PscD: Photosy 49.5 17 0.00038 27.5 2.6 30 37-66 24-54 (144)
10 PF03831 PhnA: PhnA protein; 49.4 8.1 0.00018 25.2 0.7 19 32-50 1-19 (56)
11 COG2824 PhnA Uncharacterized Z 47.0 20 0.00043 26.4 2.6 22 31-52 43-64 (112)
12 COG5510 Predicted small secret 46.1 16 0.00035 22.6 1.7 17 1-17 2-18 (44)
13 PRK10220 hypothetical protein; 44.8 24 0.00052 26.0 2.7 22 31-52 42-63 (111)
14 TIGR00686 phnA alkylphosphonat 44.3 24 0.00052 26.0 2.6 22 31-52 41-62 (109)
15 TIGR02588 conserved hypothetic 41.4 1.4E+02 0.0031 22.3 6.5 57 29-85 33-93 (122)
16 PF08194 DIM: DIM protein; In 39.6 47 0.001 19.7 2.9 16 1-17 1-16 (36)
17 PF09466 Yqai: Hypothetical pr 38.4 24 0.00053 24.0 1.8 20 32-51 25-44 (71)
18 COG1999 Uncharacterized protei 35.8 13 0.00028 29.7 0.1 9 144-152 76-84 (207)
19 COG5402 Uncharacterized conser 35.7 1.6E+02 0.0036 23.5 6.3 28 33-66 79-107 (194)
20 PF15284 PAGK: Phage-encoded v 34.1 28 0.00061 23.0 1.5 17 1-17 1-19 (61)
21 KOG3352 Cytochrome c oxidase, 33.5 53 0.0011 25.6 3.2 36 109-148 109-149 (153)
22 PLN03207 stomagen; Provisional 33.3 46 0.001 24.3 2.6 12 6-17 12-23 (113)
23 PF15240 Pro-rich: Proline-ric 33.1 36 0.00079 27.1 2.3 13 5-17 2-14 (179)
24 PF10813 DUF2733: Protein of u 32.9 25 0.00054 20.4 1.0 19 29-47 11-29 (32)
25 KOG3858 Ephrin, ligand for Eph 32.2 33 0.00072 28.4 2.0 21 36-56 116-136 (233)
26 PF15165 REC114-like: Meiotic 32.1 70 0.0015 26.7 3.9 21 94-114 27-47 (243)
27 PF00879 Defensin_propep: Defe 31.9 48 0.001 21.2 2.3 18 1-19 1-18 (52)
28 KOG2792 Putative cytochrome C 30.6 33 0.00072 29.1 1.8 9 144-152 148-156 (280)
29 PF05550 Peptidase_C53: Pestiv 30.6 31 0.00067 26.9 1.5 17 28-44 19-35 (168)
30 PRK13701 psiB plasmid SOS inhi 29.0 85 0.0018 24.1 3.6 11 91-101 77-90 (144)
31 PRK10159 outer membrane phosph 28.7 55 0.0012 28.0 2.9 17 29-45 20-36 (351)
32 PRK01904 hypothetical protein; 27.6 3.1E+02 0.0066 22.1 6.9 12 32-43 31-42 (219)
33 PF07951 Toxin_R_bind_C: Clost 27.1 61 0.0013 26.5 2.7 99 30-137 7-146 (214)
34 PF00812 Ephrin: Ephrin; Inte 26.8 45 0.00097 25.5 1.8 20 37-56 101-120 (145)
35 PRK11289 ampC beta-lactamase/D 26.0 35 0.00076 29.7 1.2 15 1-15 2-16 (384)
36 PHA02283 hypothetical protein 24.9 71 0.0015 25.7 2.6 18 41-58 44-61 (210)
37 PF13209 DUF4017: Protein of u 22.9 77 0.0017 20.7 2.0 40 1-47 1-40 (60)
38 PF12262 Lipase_bact_N: Bacter 22.8 30 0.00066 29.0 0.2 26 40-65 161-188 (268)
39 COG0301 ThiI Thiamine biosynth 21.1 63 0.0014 28.7 1.8 22 39-60 150-171 (383)
No 1
>cd00178 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors. Inhibit proteases by binding with high affinity to their active sites. Trefoil fold, common to interleukins and fibroblast growth factors.
Probab=100.00 E-value=1.1e-39 Score=255.11 Aligned_cols=111 Identities=44% Similarity=0.842 Sum_probs=99.0
Q ss_pred ceeeCCCCeecCCCCEEEEeecCCCCC--------------------------ceEEEecCC-CCceeecCCceEEEecc
Q 031740 32 PLFDVHGNTVQPNCQYYLVSAIPGAGG--------------------------IKLALSPYE-NSTIVRESTDLNLIFPV 84 (153)
Q Consensus 32 ~VlD~~G~~l~~g~~YyI~pa~~g~GG--------------------------lPV~Fs~~~-~~~~I~e~t~lnI~F~~ 84 (153)
+|+|++||||++|.+|||+|+++|.|| +||+|+|++ ++++|||+++|||+|..
T Consensus 1 ~VlD~~G~~l~~g~~YyI~p~~~g~GGGl~l~~~~~~~CPl~VvQ~~~~~~~GlPv~Fs~~~~~~~~I~e~t~lnI~F~~ 80 (172)
T cd00178 1 PVLDTDGNPLRNGGRYYILPAIRGGGGGLTLAATGNETCPLTVVQSPSELDRGLPVKFSPPNPKSDVIRESTDLNIEFDA 80 (172)
T ss_pred CcCcCCCCCCcCCCeEEEEEceeCCCCcEEEcCCCCCCCCCeeEECCCCCCCCeeEEEEeCCCCCCEEECCCcEEEEeCC
Confidence 599999999999999999999998654 999999987 89999999999999998
Q ss_pred CCCCCccc-CCCCcEEEeccCCCCcceEEEeCCccCCCCCCCCCCcEEEEEeCCCCCCcEEEecCCCc
Q 031740 85 LLSGREYC-NKQSLWKVDNYNASSGIWFVTTGGFVGYPGAETLLNWFKLEKFGTFPGAYKIVHCPSIC 151 (153)
Q Consensus 85 ~~~~~~~C-~~st~W~v~~~~~~~~~~~V~tGg~~g~pg~~t~~~~FkIek~~~~~~~YKLvfCp~vc 151 (153)
. +.| ++|++|+|++.++ .++|+|++||.+++ +.+|||||||++...+.|||+|||++|
T Consensus 81 ~----~~c~~~st~W~V~~~~~-~~~~~V~~Gg~~~~----~~~~~FkIek~~~~~~~YKL~~Cp~~~ 139 (172)
T cd00178 81 P----TWCCGSSTVWKVDRDST-PEGLFVTTGGVKGN----TLNSWFKIEKVSEGLNAYKLVFCPSSC 139 (172)
T ss_pred C----CcCCCCCCEEEEeccCC-ccCeEEEeCCcCCC----cccceEEEEECCCCCCcEEEEEcCCCC
Confidence 8 566 9999999997655 78999999998775 679999999998644679999999875
No 2
>smart00452 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors.
Probab=100.00 E-value=1.9e-38 Score=248.21 Aligned_cols=110 Identities=38% Similarity=0.781 Sum_probs=97.0
Q ss_pred eeeCCCCeecCCCCEEEEeecCCCCC--------------------------ceEEEecCC-CCceeecCCceEEEeccC
Q 031740 33 LFDVHGNTVQPNCQYYLVSAIPGAGG--------------------------IKLALSPYE-NSTIVRESTDLNLIFPVL 85 (153)
Q Consensus 33 VlD~~G~~l~~g~~YyI~pa~~g~GG--------------------------lPV~Fs~~~-~~~~I~e~t~lnI~F~~~ 85 (153)
|+|++||||++|++|||+|++||.|| +||+|+|++ ++.+|||+++|||+|...
T Consensus 1 VlDt~G~~l~~G~~YyI~p~~~g~GGGl~l~~~~n~~CPl~VvQ~~~~~~~GlPV~Fs~~~~~~~ii~e~t~lnI~F~~~ 80 (172)
T smart00452 1 VLDTDGNPLRNGGTYYILPAIRGHGGGLTLAATGNEICPLTVVQSPNEVDNGLPVKFSPPNPSDFIIRESTDLNIEFDAP 80 (172)
T ss_pred CCCCCCCCCcCCCcEEEEEccccCCCCEEEccCCCCCCCCeeEECCCCCCCceeEEEeecCCCCCEEecCceEEEEeCCC
Confidence 79999999999999999999997644 999999976 788999999999999987
Q ss_pred CCCCcccCCCCcEEEeccCCCCcceEEEeCCccCCCCCCCCCCcEEEEEeCCCCCCcEEEecCCCcC
Q 031740 86 LSGREYCNKQSLWKVDNYNASSGIWFVTTGGFVGYPGAETLLNWFKLEKFGTFPGAYKIVHCPSICE 152 (153)
Q Consensus 86 ~~~~~~C~~st~W~v~~~~~~~~~~~V~tGg~~g~pg~~t~~~~FkIek~~~~~~~YKLvfCp~vc~ 152 (153)
+.|++|++|+|++ ++..++|+|+||| +|+.. +|||||||++...+.|||+|||++|+
T Consensus 81 ----~~C~~st~W~V~~-~~~~~~~~V~~gg---~~~~~--~~~FkIek~~~~~~~YKLv~Cp~~~~ 137 (172)
T smart00452 81 ----PLCAQSTVWTVDE-DSAPEGLAVKTGG---YPGVR--DSWFKIEKYSGESNGYKLVYCPNGSD 137 (172)
T ss_pred ----CCCCCCCEEEEec-CCccccEEEEeCC---cCCCC--CCeEEEEECCCCCCCEEEEEcCCCCC
Confidence 7899999999995 6678899999998 44443 69999999986446799999998764
No 3
>PF00197 Kunitz_legume: Trypsin and protease inhibitor; InterPro: IPR002160 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The Kunitz-type soybean trypsin inhibitor (STI) family consists mainly of proteinase inhibitors from Leguminosae seeds []. They belong to MEROPS inhibitor family I3, clan IC. They exhibit proteinase inhibitory activity against serine proteinases; trypsin (MEROPS peptidase family S1, IPR001254 from INTERPRO) and subtilisin (MEROPS peptidase family S8, IPR000209 from INTERPRO), thiol proteinases (MEROPS peptidase family C1, IPR000668 from INTERPRO) and aspartic proteinases (MEROPS peptidase family A1, IPR001461 from INTERPRO) []. Inhibitors from cereals are active against subtilisin and endogenous alpha-amylases, while some also inhibit tissue plasminogen activator. The inhibitors are usually specific for either trypsin or chymotrypsin, and some are effective against both. They are thought to protect the seeds against consumption by animal predators, while at the same time existing as seed storage proteins themselves - all the actively inhibitory members contain 2 disulphide bridges. The existence of a member with no inhibitory activity, winged bean albumin 1, suggests that the inhibitors may have evolved from seed storage proteins. Proteins from the Kunitz family contain from 170 to 200 amino acid residues and one or two intra-chain disulphide bonds. The best conserved region is found in their N-terminal section. The crystal structures of soybean trypsin inhibitor (STI), trypsin inhibitor DE-3 from the Kaffir tree Erythrina caffra (ETI) [] and the bifunctional proteinase K/alpha-amylase inhibitor from wheat (PK13) have been solved, showing them to share the same 12-stranded beta-sheet structure as those of interleukin-1 and heparin-binding growth factors []. The beta-sheets are arranged in 3 similar lobes around a central axis, 6 strands forming an anti-parallel beta-barrel. Despite the structural similarity, STI shows no interleukin-1 bioactivity, presumably as a result of their primary sequence disparities. The active inhibitory site containing the scissile bond is located in the loop between beta-strands 4 and 5 in STI and ETI. The STIs belong to a superfamily that also contains the interleukin-1 proteins, heparin binding growth factors (HBGF) and histactophilin, all of which have very similar structures, but share no sequence similarity with the STI family.; GO: 0004866 endopeptidase inhibitor activity; PDB: 3TC2_B 3S8J_A 3S8K_A 1TIE_A 2GZB_A 3E8L_C 2IWT_B 3BX1_C 1AVA_D 3IIR_A ....
Probab=100.00 E-value=4.1e-38 Score=246.82 Aligned_cols=113 Identities=44% Similarity=0.870 Sum_probs=98.7
Q ss_pred ceeeCCCCeecCCCCEEEEeecCCCCC--------------------------ceEEEecC--C-CCceeecCCceEEEe
Q 031740 32 PLFDVHGNTVQPNCQYYLVSAIPGAGG--------------------------IKLALSPY--E-NSTIVRESTDLNLIF 82 (153)
Q Consensus 32 ~VlD~~G~~l~~g~~YyI~pa~~g~GG--------------------------lPV~Fs~~--~-~~~~I~e~t~lnI~F 82 (153)
||+|+|||||++|++|||+|+++|.|| +||+|+|+ . .+++|||+++|||+|
T Consensus 1 pVlD~~G~~l~~g~~YyI~p~~~~~GGGl~l~~~~n~~CPl~Vvq~~~~~~~GlPv~Fs~~~~~~~~~~ir~st~l~I~F 80 (176)
T PF00197_consen 1 PVLDTDGNPLRNGGEYYILPAIRGAGGGLTLAKTGNETCPLDVVQSPSELSRGLPVKFSPPYRNSFDTVIRESTDLNIEF 80 (176)
T ss_dssp B-BETTSCB-BTTSEEEEEESSTGCSEEEEEECCTTSSSSEEEEEESSTTS-BSEEEEEESSSSSSTBCTBTTSEEEEEE
T ss_pred CcCCCCCCCCcCCCCEEEEeCccCCCCeeEecCCCCCCCChheEEccCCCCCceeEEEEeCCcccCCCeeEcceEEEEEE
Confidence 699999999999999999999999877 99999994 3 678999999999999
Q ss_pred ccCCCCCcccCCCCcEEEeccCCCCcceEEEeCCccCCCCCCCCCCcEEEEEeCC-CCCCcEEEecCCCcC
Q 031740 83 PVLLSGREYCNKQSLWKVDNYNASSGIWFVTTGGFVGYPGAETLLNWFKLEKFGT-FPGAYKIVHCPSICE 152 (153)
Q Consensus 83 ~~~~~~~~~C~~st~W~v~~~~~~~~~~~V~tGg~~g~pg~~t~~~~FkIek~~~-~~~~YKLvfCp~vc~ 152 (153)
... +.|..+++|+|++.++++++ +|+|||.+| .++.+|||||||++. ..+.|||+|||+.|+
T Consensus 81 ~~~----~~c~~~~~W~V~~~~~~~~~-~V~~gg~~~---~~~~~~~FkIek~~~~~~~~YKLvfCp~~~~ 143 (176)
T PF00197_consen 81 SSP----TSCACSTVWKVVKDDPETGQ-FVKTGGVKG---PETVDSWFKIEKYEDGFNNAYKLVFCPSVCC 143 (176)
T ss_dssp SSE----CTTSSSSBEEEEEETTTTEE-EEEEESSSS---SGCGCCEEEEEEESSSSTTEEEEEEESSSSS
T ss_pred ccC----CCCCccCEEEEeecCcccce-EEEeCCccc---CCccCcEEEEEEeCCCCCCcEEEEECCCccc
Confidence 988 78999999999987766555 999999877 677899999999997 356899999999764
No 4
>PF02402 Lysis_col: Lysis protein; InterPro: IPR003059 The DNA sequence of the entire colicin E2 operon has been determined []. The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells []. A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB []. Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. By contrast, the lysis proteins of the ColE2, ColE1 and CloDF13 plasmids are almost identical except in the N-terminal regions, which themselves are similar to lipoprotein signal peptides []. Processing of the ColE2 prolysis protein to the mature form is prevented by globomycin, a specific inhibitor of the lipoprotein signal peptidase []. The mature ColE2 lysis protein is located in the cell envelope [].; GO: 0009405 pathogenesis, 0019835 cytolysis, 0019867 outer membrane
Probab=63.76 E-value=6.4 Score=24.52 Aligned_cols=18 Identities=33% Similarity=0.479 Sum_probs=14.6
Q ss_pred CCCCceeeCCCCeecCCC
Q 031740 28 SFPEPLFDVHGNTVQPNC 45 (153)
Q Consensus 28 a~~~~VlD~~G~~l~~g~ 45 (153)
-|.+-|.|+.|--|.+..
T Consensus 19 CQaN~iRDvqGGtVaPSS 36 (46)
T PF02402_consen 19 CQANYIRDVQGGTVAPSS 36 (46)
T ss_pred hhhcceecCCCceECCCc
Confidence 566789999999888764
No 5
>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=58.72 E-value=6.2 Score=28.14 Aligned_cols=11 Identities=27% Similarity=0.105 Sum_probs=5.2
Q ss_pred eeeCCCCeecC
Q 031740 33 LFDVHGNTVQP 43 (153)
Q Consensus 33 VlD~~G~~l~~ 43 (153)
+...+-|+|+.
T Consensus 32 ~~~~~~~~v~~ 42 (95)
T PF07172_consen 32 EKEEEENEVQD 42 (95)
T ss_pred cccccCCCCCc
Confidence 44444455544
No 6
>PF12702 Lipocalin_3: Lipocalin-like; InterPro: IPR024311 This is a family of proteins of 115 residues on average. There are 16 subunits in each asymmetric unit cell. The interface interaction indicates that the biomolecule of protein Q8A9E6 from SWISSPROT should be a monomer. The family has two highly conserved tryptophan residues. The fold is very similar to the lipocalin-like fold from several comparable structures.; PDB: 3HTY_I.
Probab=55.32 E-value=9.8 Score=27.01 Aligned_cols=45 Identities=20% Similarity=0.356 Sum_probs=29.6
Q ss_pred CcEEEeccCCCCcceEEEeCCccCCCCCCCCCCcEEEEEeCCC------CCCcEEEe
Q 031740 96 SLWKVDNYNASSGIWFVTTGGFVGYPGAETLLNWFKLEKFGTF------PGAYKIVH 146 (153)
Q Consensus 96 t~W~v~~~~~~~~~~~V~tGg~~g~pg~~t~~~~FkIek~~~~------~~~YKLvf 146 (153)
..|++.. ..++..|-.+|+.+.......|+|+|...+ +..|.+.|
T Consensus 42 ~~Wk~~g------~~Lil~g~s~Gn~~~~~~~~t~~I~~lt~dsLvL~~~~g~~i~y 92 (93)
T PF12702_consen 42 EKWKLEG------NKLILEGESIGNGQSSEFTDTFDIEKLTSDSLVLKDGEGYTIRY 92 (93)
T ss_dssp EEEEEET------TEEEEEEEEEETTEEEEEEEEEEEEEE-SSEEEE-EETTEEEEE
T ss_pred eeEEEcC------CEEEEEEEEccCCccEEEEEEEEEEEeCCCeEEEEcCCcEEEEe
Confidence 4699652 236777777777544456788999999753 34566666
No 7
>PF05474 Semenogelin: Semenogelin; InterPro: IPR008836 This family consists of several mammalian semenogelin (I and II) proteins. Freshly ejaculated Homo sapiens semen has the appearance of a loose gel in which the predominant structural protein components are the seminal vesicle secreted semenogelins (Sg) [].; GO: 0005198 structural molecule activity, 0019953 sexual reproduction, 0005576 extracellular region, 0030141 stored secretory granule
Probab=53.68 E-value=7.3 Score=35.67 Aligned_cols=15 Identities=20% Similarity=0.284 Sum_probs=11.9
Q ss_pred CCCchhHHHHHHHHH
Q 031740 1 MKTPLPTTFFFLILT 15 (153)
Q Consensus 1 MK~~~~~~lsfll~a 15 (153)
||++++|.||+||++
T Consensus 1 MK~~I~F~lSLLLiL 15 (582)
T PF05474_consen 1 MKSIIFFVLSLLLIL 15 (582)
T ss_pred CCceeehHHHHHHHH
Confidence 999999888766654
No 8
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=50.35 E-value=11 Score=28.12 Aligned_cols=21 Identities=19% Similarity=0.276 Sum_probs=17.2
Q ss_pred CCCCeecCCCCEEEEeecCCC
Q 031740 36 VHGNTVQPNCQYYLVSAIPGA 56 (153)
Q Consensus 36 ~~G~~l~~g~~YyI~pa~~g~ 56 (153)
.-.++|+.|.-||++|..+-.
T Consensus 64 ~~d~~L~~G~~Y~llP~~~~~ 84 (181)
T PF14009_consen 64 PPDEELQPGQIYFLLPMSRLQ 84 (181)
T ss_pred CccCeecCCCEEEEEEccccC
Confidence 456889999999999987633
No 9
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 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. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=49.48 E-value=17 Score=27.48 Aligned_cols=30 Identities=33% Similarity=0.575 Sum_probs=25.4
Q ss_pred CCCeecCCCCEEEEeecCCCCC-ceEEEecC
Q 031740 37 HGNTVQPNCQYYLVSAIPGAGG-IKLALSPY 66 (153)
Q Consensus 37 ~G~~l~~g~~YyI~pa~~g~GG-lPV~Fs~~ 66 (153)
.||++--..+|||-.|.|+.-| |-+.|+|.
T Consensus 24 sGNa~HK~eKYfITsAkRD~~g~Lql~i~pa 54 (144)
T PF10657_consen 24 SGNAVHKAEKYFITSAKRDRYGKLQLTISPA 54 (144)
T ss_pred cCchhhhhheeEEeeeecccCCceEEEEecC
Confidence 7999999999999999998755 77777664
No 10
>PF03831 PhnA: PhnA protein; InterPro: IPR013988 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the C-terminal domain of PhnA.; PDB: 2AKK_A 2AKL_A.
Probab=49.36 E-value=8.1 Score=25.18 Aligned_cols=19 Identities=26% Similarity=0.303 Sum_probs=10.9
Q ss_pred ceeeCCCCeecCCCCEEEE
Q 031740 32 PLFDVHGNTVQPNCQYYLV 50 (153)
Q Consensus 32 ~VlD~~G~~l~~g~~YyI~ 50 (153)
.|.|.+|++|+.|-+--++
T Consensus 1 vv~DsnGn~L~dGDsV~~i 19 (56)
T PF03831_consen 1 VVKDSNGNELQDGDSVTLI 19 (56)
T ss_dssp S-B-TTS-B--TTEEEEES
T ss_pred CeEcCCCCCccCCCEEEEE
Confidence 3789999999999776654
No 11
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=47.02 E-value=20 Score=26.41 Aligned_cols=22 Identities=18% Similarity=0.143 Sum_probs=18.9
Q ss_pred CceeeCCCCeecCCCCEEEEee
Q 031740 31 EPLFDVHGNTVQPNCQYYLVSA 52 (153)
Q Consensus 31 ~~VlD~~G~~l~~g~~YyI~pa 52 (153)
..|.|.+||.|+.|..--|+-.
T Consensus 43 ~~v~DsnGn~L~dGDsV~lIKD 64 (112)
T COG2824 43 LIVKDSNGNLLADGDSVTLIKD 64 (112)
T ss_pred eEEEcCCCcEeccCCeEEEEEe
Confidence 5899999999999988777654
No 12
>COG5510 Predicted small secreted protein [Function unknown]
Probab=46.12 E-value=16 Score=22.61 Aligned_cols=17 Identities=18% Similarity=0.211 Sum_probs=10.0
Q ss_pred CCCchhHHHHHHHHHHH
Q 031740 1 MKTPLPTTFFFLILTLA 17 (153)
Q Consensus 1 MK~~~~~~lsfll~a~t 17 (153)
||.+.++.+++++.++.
T Consensus 2 mk~t~l~i~~vll~s~l 18 (44)
T COG5510 2 MKKTILLIALVLLASTL 18 (44)
T ss_pred chHHHHHHHHHHHHHHH
Confidence 77776665545555543
No 13
>PRK10220 hypothetical protein; Provisional
Probab=44.85 E-value=24 Score=26.05 Aligned_cols=22 Identities=18% Similarity=0.146 Sum_probs=18.4
Q ss_pred CceeeCCCCeecCCCCEEEEee
Q 031740 31 EPLFDVHGNTVQPNCQYYLVSA 52 (153)
Q Consensus 31 ~~VlD~~G~~l~~g~~YyI~pa 52 (153)
..|.|++|++|..|-+--++=.
T Consensus 42 ~~vkDsnG~~L~dGDsV~viKD 63 (111)
T PRK10220 42 LIVKDANGNLLADGDSVTIVKD 63 (111)
T ss_pred ceEEcCCCCCccCCCEEEEEee
Confidence 4799999999999988777654
No 14
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=44.27 E-value=24 Score=25.98 Aligned_cols=22 Identities=18% Similarity=0.173 Sum_probs=18.4
Q ss_pred CceeeCCCCeecCCCCEEEEee
Q 031740 31 EPLFDVHGNTVQPNCQYYLVSA 52 (153)
Q Consensus 31 ~~VlD~~G~~l~~g~~YyI~pa 52 (153)
..|.|.+|++|+.|-+=-++=.
T Consensus 41 ~~~kDsnG~~L~dGDsV~liKD 62 (109)
T TIGR00686 41 LIVKDCNGNLLANGDSVILIKD 62 (109)
T ss_pred ceEEcCCCCCccCCCEEEEEee
Confidence 4699999999999988777654
No 15
>TIGR02588 conserved hypothetical protein TIGR02588. The function of this protein is unknown. It is always found as part of a two-gene operon with TIGR02587, a protein that appears to span the membrane seven times. It is found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus, so far, all of which are bacterial.
Probab=41.36 E-value=1.4e+02 Score=22.30 Aligned_cols=57 Identities=16% Similarity=0.157 Sum_probs=39.2
Q ss_pred CCCceeeCCCCeecCCCCEEEEeecCCCCC---ceEEEec-CCCCceeecCCceEEEeccC
Q 031740 29 FPEPLFDVHGNTVQPNCQYYLVSAIPGAGG---IKLALSP-YENSTIVRESTDLNLIFPVL 85 (153)
Q Consensus 29 ~~~~VlD~~G~~l~~g~~YyI~pa~~g~GG---lPV~Fs~-~~~~~~I~e~t~lnI~F~~~ 85 (153)
.|....+..+..=+.+++||+--.+++.|| --|...- ....+-+.|.-...|.|-..
T Consensus 33 pp~l~v~~~~~~r~~~gqyyVpF~V~N~gg~TAasV~V~geL~~~~~v~E~~e~tiDfl~g 93 (122)
T TIGR02588 33 AAVLEVAPAEVERMQTGQYYVPFAIHNLGGTTAAAVNIRGELRQAGAVVENAEVTIDYLAS 93 (122)
T ss_pred CCeEEEeehheeEEeCCEEEEEEEEEeCCCcEEEEEEEEEEEccCCceeEEeeEEEEEcCC
Confidence 344555666665558889999999999988 3444432 22344578888899999755
No 16
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=39.58 E-value=47 Score=19.73 Aligned_cols=16 Identities=38% Similarity=0.339 Sum_probs=9.0
Q ss_pred CCCchhHHHHHHHHHHH
Q 031740 1 MKTPLPTTFFFLILTLA 17 (153)
Q Consensus 1 MK~~~~~~lsfll~a~t 17 (153)
||...+.++ ++|+|+.
T Consensus 1 Mk~l~~a~~-l~lLal~ 16 (36)
T PF08194_consen 1 MKCLSLAFA-LLLLALA 16 (36)
T ss_pred CceeHHHHH-HHHHHHH
Confidence 888766322 4555543
No 17
>PF09466 Yqai: Hypothetical protein Yqai; InterPro: IPR018474 The hypothetical protein YqaI is expressed in bacteria, particularly Bacillus subtilis. It forms a homo-dimer, with each monomer containing an alpha helix and four beta strands.; PDB: 2DSM_B.
Probab=38.41 E-value=24 Score=24.01 Aligned_cols=20 Identities=25% Similarity=0.652 Sum_probs=12.1
Q ss_pred ceeeCCCCeecCCCCEEEEe
Q 031740 32 PLFDVHGNTVQPNCQYYLVS 51 (153)
Q Consensus 32 ~VlD~~G~~l~~g~~YyI~p 51 (153)
++.|.-|+++.+|.+|++.|
T Consensus 25 ~i~D~yG~EI~~~D~y~i~~ 44 (71)
T PF09466_consen 25 PIEDFYGDEIFPGDDYFISP 44 (71)
T ss_dssp B---TTSS-B-TTS-EEE-E
T ss_pred ceeeeeccccccCCeEEEeC
Confidence 67789999999999999965
No 18
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=35.85 E-value=13 Score=29.75 Aligned_cols=9 Identities=44% Similarity=1.442 Sum_probs=7.3
Q ss_pred EEecCCCcC
Q 031740 144 IVHCPSICE 152 (153)
Q Consensus 144 LvfCp~vc~ 152 (153)
..+||.|||
T Consensus 76 yT~CpdVCP 84 (207)
T COG1999 76 YTHCPDVCP 84 (207)
T ss_pred cCCCCccCh
Confidence 467999997
No 19
>COG5402 Uncharacterized conserved protein [Function unknown]
Probab=35.70 E-value=1.6e+02 Score=23.55 Aligned_cols=28 Identities=21% Similarity=0.422 Sum_probs=23.1
Q ss_pred eeeCCCCeecCCCCEEEEeecCCCCC-ceEEEecC
Q 031740 33 LFDVHGNTVQPNCQYYLVSAIPGAGG-IKLALSPY 66 (153)
Q Consensus 33 VlD~~G~~l~~g~~YyI~pa~~g~GG-lPV~Fs~~ 66 (153)
-.|..|++|+.+-+|-|- || -|.+|...
T Consensus 79 ~~Ds~g~~Lr~~C~Yri~------G~~ppARfWTl 107 (194)
T COG5402 79 TTDSAGQRLRRECSYRIE------GGTPPARFWTL 107 (194)
T ss_pred eecCCCchhhccCcEEec------CCCCCceeEEE
Confidence 359999999999999874 66 68899763
No 20
>PF15284 PAGK: Phage-encoded virulence factor
Probab=34.10 E-value=28 Score=23.04 Aligned_cols=17 Identities=18% Similarity=0.370 Sum_probs=8.5
Q ss_pred CCC--chhHHHHHHHHHHH
Q 031740 1 MKT--PLPTTFFFLILTLA 17 (153)
Q Consensus 1 MK~--~~~~~lsfll~a~t 17 (153)
||. ..++.|.|.|.|.+
T Consensus 1 Mkk~ksifL~l~~~LsA~~ 19 (61)
T PF15284_consen 1 MKKFKSIFLALVFILSAAG 19 (61)
T ss_pred ChHHHHHHHHHHHHHHHhh
Confidence 773 33444445555544
No 21
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=33.53 E-value=53 Score=25.55 Aligned_cols=36 Identities=25% Similarity=0.167 Sum_probs=25.2
Q ss_pred ceEEEeCCccCCCCCCCCCCcEEEEEeCCC-----CCCcEEEecC
Q 031740 109 IWFVTTGGFVGYPGAETLLNWFKLEKFGTF-----PGAYKIVHCP 148 (153)
Q Consensus 109 ~~~V~tGg~~g~pg~~t~~~~FkIek~~~~-----~~~YKLvfCp 148 (153)
.+.|.-|..+++ +.-.||.|||-+.. +..|||+.=+
T Consensus 109 ~RiVGC~c~eD~----~~V~Wmwl~Kge~~rc~eCG~~fkL~~v~ 149 (153)
T KOG3352|consen 109 KRIVGCGCEEDS----HAVVWMWLEKGETQRCPECGHYFKLVPVG 149 (153)
T ss_pred ceEEeecccCCC----cceEEEEEEcCCcccCCcccceEEeeecC
Confidence 567777665553 34589999998753 4679998643
No 22
>PLN03207 stomagen; Provisional
Probab=33.35 E-value=46 Score=24.28 Aligned_cols=12 Identities=42% Similarity=0.653 Sum_probs=5.5
Q ss_pred hHHHHHHHHHHH
Q 031740 6 PTTFFFLILTLA 17 (153)
Q Consensus 6 ~~~lsfll~a~t 17 (153)
.+.|+||||+|.
T Consensus 12 ~~~lffLl~~ll 23 (113)
T PLN03207 12 CLTLFFLLFFLL 23 (113)
T ss_pred hHHHHHHHHHHH
Confidence 444445555443
No 23
>PF15240 Pro-rich: Proline-rich
Probab=33.08 E-value=36 Score=27.10 Aligned_cols=13 Identities=23% Similarity=0.283 Sum_probs=7.2
Q ss_pred hhHHHHHHHHHHH
Q 031740 5 LPTTFFFLILTLA 17 (153)
Q Consensus 5 ~~~~lsfll~a~t 17 (153)
||++|+..||||+
T Consensus 2 LlVLLSvALLALS 14 (179)
T PF15240_consen 2 LLVLLSVALLALS 14 (179)
T ss_pred hhHHHHHHHHHhh
Confidence 3444556666664
No 24
>PF10813 DUF2733: Protein of unknown function (DUF2733); InterPro: IPR024360 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=32.89 E-value=25 Score=20.38 Aligned_cols=19 Identities=32% Similarity=0.482 Sum_probs=14.3
Q ss_pred CCCceeeCCCCeecCCCCE
Q 031740 29 FPEPLFDVHGNTVQPNCQY 47 (153)
Q Consensus 29 ~~~~VlD~~G~~l~~g~~Y 47 (153)
..+++.|.+|+++.--.+|
T Consensus 11 r~n~l~Dv~G~~Inl~~dF 29 (32)
T PF10813_consen 11 RHNPLKDVKGNPINLYKDF 29 (32)
T ss_pred cCCcccccCCCEEechhcc
Confidence 3468999999998755444
No 25
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=32.20 E-value=33 Score=28.40 Aligned_cols=21 Identities=33% Similarity=0.561 Sum_probs=17.9
Q ss_pred CCCCeecCCCCEEEEeecCCC
Q 031740 36 VHGNTVQPNCQYYLVSAIPGA 56 (153)
Q Consensus 36 ~~G~~l~~g~~YyI~pa~~g~ 56 (153)
..|.+-++|.+||+++...|.
T Consensus 116 p~G~EF~pG~~YY~IStStg~ 136 (233)
T KOG3858|consen 116 PLGFEFQPGHTYYYISTSTGD 136 (233)
T ss_pred CCCccccCCCeEEEEeCCCcc
Confidence 369999999999999987654
No 26
>PF15165 REC114-like: Meiotic recombination protein REC114-like
Probab=32.14 E-value=70 Score=26.67 Aligned_cols=21 Identities=33% Similarity=0.463 Sum_probs=15.2
Q ss_pred CCCcEEEeccCCCCcceEEEe
Q 031740 94 KQSLWKVDNYNASSGIWFVTT 114 (153)
Q Consensus 94 ~st~W~v~~~~~~~~~~~V~t 114 (153)
.|+.|||.+.+++.+...+++
T Consensus 27 ~s~~wkv~es~ee~~~lvlti 47 (243)
T PF15165_consen 27 SSPSWKVFESNEESGYLVLTI 47 (243)
T ss_pred CCccceeecccccCCceEEEE
Confidence 478999998777776655444
No 27
>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=31.93 E-value=48 Score=21.22 Aligned_cols=18 Identities=28% Similarity=0.357 Sum_probs=12.1
Q ss_pred CCCchhHHHHHHHHHHHhh
Q 031740 1 MKTPLPTTFFFLILTLATN 19 (153)
Q Consensus 1 MK~~~~~~lsfll~a~tt~ 19 (153)
||+..|++- .||+||-..
T Consensus 1 MRTL~LLaA-lLLlAlqaQ 18 (52)
T PF00879_consen 1 MRTLALLAA-LLLLALQAQ 18 (52)
T ss_pred CcHHHHHHH-HHHHHHHHh
Confidence 887766644 677777644
No 28
>KOG2792 consensus Putative cytochrome C oxidase assembly protein [Energy production and conversion]
Probab=30.63 E-value=33 Score=29.10 Aligned_cols=9 Identities=56% Similarity=1.538 Sum_probs=7.7
Q ss_pred EEecCCCcC
Q 031740 144 IVHCPSICE 152 (153)
Q Consensus 144 LvfCp~vc~ 152 (153)
+.+||.+||
T Consensus 148 FThCPDICP 156 (280)
T KOG2792|consen 148 FTHCPDICP 156 (280)
T ss_pred ccCCCCcCh
Confidence 567999998
No 29
>PF05550 Peptidase_C53: Pestivirus Npro endopeptidase C53; InterPro: IPR008751 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C53 (clan C-). The active site residues occur in the order E, H, C in the sequence which is unlike that in any other family. They are unique to pestiviruses. The N-terminal cysteine peptidase (Npro) encoded by the bovine viral diarrhoea virus genome is responsible for the self-cleavage that releases the N terminus of the core protein. This unique protease is dispensable for viral replication, and its coding region can be replaced by a ubiquitin gene directly fused in frame to the core [, , , ].; GO: 0016032 viral reproduction, 0019082 viral protein processing
Probab=30.61 E-value=31 Score=26.87 Aligned_cols=17 Identities=29% Similarity=0.589 Sum_probs=14.3
Q ss_pred CCCCceeeCCCCeecCC
Q 031740 28 SFPEPLFDVHGNTVQPN 44 (153)
Q Consensus 28 a~~~~VlD~~G~~l~~g 44 (153)
...|||+|..|+||.-.
T Consensus 19 Gv~EPVyd~~g~plfGe 35 (168)
T PF05550_consen 19 GVEEPVYDSAGNPLFGE 35 (168)
T ss_pred ccccccccCCCCCccCC
Confidence 45589999999999865
No 30
>PRK13701 psiB plasmid SOS inhibition protein B; Provisional
Probab=28.98 E-value=85 Score=24.14 Aligned_cols=11 Identities=18% Similarity=0.776 Sum_probs=8.6
Q ss_pred ccCC---CCcEEEe
Q 031740 91 YCNK---QSLWKVD 101 (153)
Q Consensus 91 ~C~~---st~W~v~ 101 (153)
.|.. |+.|.++
T Consensus 77 vCSpG~~sP~W~~V 90 (144)
T PRK13701 77 LCSPGDVSPVWVLV 90 (144)
T ss_pred EeCCCCCCcceEEE
Confidence 4764 8999998
No 31
>PRK10159 outer membrane phosphoporin protein E; Provisional
Probab=28.69 E-value=55 Score=27.99 Aligned_cols=17 Identities=12% Similarity=0.257 Sum_probs=12.4
Q ss_pred CCCceeeCCCCeecCCC
Q 031740 29 FPEPLFDVHGNTVQPNC 45 (153)
Q Consensus 29 ~~~~VlD~~G~~l~~g~ 45 (153)
.+.+|+|.||.-|.-.+
T Consensus 20 ~A~~vy~~d~ssvtlyG 36 (351)
T PRK10159 20 QAAEVYNKDGNKLDVYG 36 (351)
T ss_pred cEEEEEECCCCEEEEEE
Confidence 33589999998777554
No 32
>PRK01904 hypothetical protein; Provisional
Probab=27.57 E-value=3.1e+02 Score=22.06 Aligned_cols=12 Identities=8% Similarity=0.379 Sum_probs=8.8
Q ss_pred ceeeCCCCeecC
Q 031740 32 PLFDVHGNTVQP 43 (153)
Q Consensus 32 ~VlD~~G~~l~~ 43 (153)
.++=.||+.+..
T Consensus 31 ~lL~vnG~kv~~ 42 (219)
T PRK01904 31 DFLAIDGQKASK 42 (219)
T ss_pred EEEEECCEECcc
Confidence 567788888764
No 33
>PF07951 Toxin_R_bind_C: Clostridium neurotoxin, C-terminal receptor binding; InterPro: IPR013104 The Clostridium neurotoxin family is composed of tetanus neurotoxins and seven serotypes of botulinum neurotoxin. The structure of the botulinum neurotoxin reveals a four domain protein. The N-terminal catalytic domain (IPR000395 from INTERPRO), the central translocation domains and two receptor-binding domains []. This domain is the C-terminal receptor-binding domain, which adopts a modified beta-trefoil fold with a six stranded beta-barrel and a beta-hairpin triplet capping the domain []. The first step in the intoxication process is a binding event between this domain and the pre-synaptic nerve ending []. ; PDB: 3AZW_A 3N7L_A 3AZV_A 3N7M_A 3RSJ_B 3FUQ_A 3RMX_D 3OBT_A 3RMY_B 3OGG_A ....
Probab=27.06 E-value=61 Score=26.55 Aligned_cols=99 Identities=14% Similarity=0.216 Sum_probs=56.9
Q ss_pred CCceeeCCCCeecCCCCEEEEeecCCC-------C-------------------------CceEEEecC----CCCceee
Q 031740 30 PEPLFDVHGNTVQPNCQYYLVSAIPGA-------G-------------------------GIKLALSPY----ENSTIVR 73 (153)
Q Consensus 30 ~~~VlD~~G~~l~~g~~YyI~pa~~g~-------G-------------------------GlPV~Fs~~----~~~~~I~ 73 (153)
...+.|==||||+-..+||++++..-. . |++|++-.. +.+..||
T Consensus 7 ~niLKDfWGN~L~YdkeYYl~N~~~~n~yi~~~~~~~~~~n~~r~~~~~ni~~n~r~LY~G~k~iIkr~~~~~~~Dn~Vr 86 (214)
T PF07951_consen 7 TNILKDFWGNYLRYDKEYYLLNVLYPNKYIKRKSDSILSINNQRGTGVFNIYLNYRDLYTGIKFIIKRYADNSNNDNRVR 86 (214)
T ss_dssp TTB-BBTTSSB-BTTSEEEEEESSSTTEEEEEETTSEEEEEEEEEEEEEEEESEETSSSSS-EEEEEESSTSSSTSSB-B
T ss_pred ccHHHHhcCCccccCceeEEEecCCcccceeecccceeeecccccccceeeeeeehhhccCceEEEEEccCCCCCcceee
Confidence 458899999999999999999875411 1 156665432 2678999
Q ss_pred cCCceEEEeccCCCCCcccCCCCcEEEecc-----CCCCcceEEEeCCccCCCCCCCCCCcEEEEEeCC
Q 031740 74 ESTDLNLIFPVLLSGREYCNKQSLWKVDNY-----NASSGIWFVTTGGFVGYPGAETLLNWFKLEKFGT 137 (153)
Q Consensus 74 e~t~lnI~F~~~~~~~~~C~~st~W~v~~~-----~~~~~~~~V~tGg~~g~pg~~t~~~~FkIek~~~ 137 (153)
.+..+-|.|... ...|+|-.. +.+..+-++-+.+....-+.-..-.-|+|++..+
T Consensus 87 ~~D~iy~n~~~~---------n~ey~l~~~~~Y~~~~~~~~kli~l~~l~~~~~~~~~~~vmqik~~~~ 146 (214)
T PF07951_consen 87 NGDYIYFNVVIN---------NKEYRLYADTMYKNSKNQSEKLIYLLRLSDSNDNINQYIVMQIKNYNS 146 (214)
T ss_dssp TTEEEEEEEEET---------TEEEEEEEETEECTTSSSSEEEEEEEEEECSCTTTCEECEEEEEEEEE
T ss_pred cCCEEEEEEEeC---------CceEEEEeeeecccccccchheeeEEecccCCCCcCceEEEEEEeccc
Confidence 999998888654 346887210 1222334453333211100111235799999864
No 34
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=26.80 E-value=45 Score=25.52 Aligned_cols=20 Identities=35% Similarity=0.650 Sum_probs=15.6
Q ss_pred CCCeecCCCCEEEEeecCCC
Q 031740 37 HGNTVQPNCQYYLVSAIPGA 56 (153)
Q Consensus 37 ~G~~l~~g~~YyI~pa~~g~ 56 (153)
.|-+-++|.+||++....|.
T Consensus 101 ~G~EF~pG~~YY~ISts~g~ 120 (145)
T PF00812_consen 101 LGLEFQPGHDYYYISTSTGT 120 (145)
T ss_dssp TSSS--TTEEEEEEEEESSS
T ss_pred CCeeecCCCeEEEEEccCCC
Confidence 79999999999999987654
No 35
>PRK11289 ampC beta-lactamase/D-alanine carboxypeptidase; Provisional
Probab=26.05 E-value=35 Score=29.65 Aligned_cols=15 Identities=40% Similarity=0.319 Sum_probs=9.9
Q ss_pred CCCchhHHHHHHHHH
Q 031740 1 MKTPLPTTFFFLILT 15 (153)
Q Consensus 1 MK~~~~~~lsfll~a 15 (153)
||..+++++.+|+++
T Consensus 2 ~~~~~~~~~~~~~~~ 16 (384)
T PRK11289 2 MKMMLLLLLAALLLT 16 (384)
T ss_pred cchhhHHHHHHHHHH
Confidence 888887766444444
No 36
>PHA02283 hypothetical protein
Probab=24.87 E-value=71 Score=25.73 Aligned_cols=18 Identities=17% Similarity=0.279 Sum_probs=14.4
Q ss_pred ecCCCCEEEEeecCCCCC
Q 031740 41 VQPNCQYYLVSAIPGAGG 58 (153)
Q Consensus 41 l~~g~~YyI~pa~~g~GG 58 (153)
.+.|.+|||-|+.+..+|
T Consensus 44 ~kkg~ey~IYPv~~d~~~ 61 (210)
T PHA02283 44 VSEGEELFLYPVQTDGKG 61 (210)
T ss_pred EecccceEEEEEEEcCCc
Confidence 456788999999888776
No 37
>PF13209 DUF4017: Protein of unknown function (DUF4017)
Probab=22.91 E-value=77 Score=20.67 Aligned_cols=40 Identities=18% Similarity=0.299 Sum_probs=22.7
Q ss_pred CCCchhHHHHHHHHHHHhhhccccCCCCCCCceeeCCCCeecCCCCE
Q 031740 1 MKTPLPTTFFFLILTLATNYLLVLGTTSFPEPLFDVHGNTVQPNCQY 47 (153)
Q Consensus 1 MK~~~~~~lsfll~a~tt~~l~~~~~~a~~~~VlD~~G~~l~~g~~Y 47 (153)
||+.+...+..+......-.+|+| .=+.+-|=.|.-|.-|
T Consensus 1 MKni~paL~~Y~IVCiiaii~PaS-------egYN~vgWKlfvGQ~Y 40 (60)
T PF13209_consen 1 MKNIIPALLVYIIVCIIAIILPAS-------EGYNTVGWKLFVGQAY 40 (60)
T ss_pred CCcchHHHHHHHHHHHHheeeecc-------cCccccchhheecchh
Confidence 898775444344444333344422 3466677777777665
No 38
>PF12262 Lipase_bact_N: Bacterial virulence factor lipase N-terminal
Probab=22.80 E-value=30 Score=29.04 Aligned_cols=26 Identities=19% Similarity=0.411 Sum_probs=12.2
Q ss_pred eecCCCCEEEEee--cCCCCCceEEEec
Q 031740 40 TVQPNCQYYLVSA--IPGAGGIKLALSP 65 (153)
Q Consensus 40 ~l~~g~~YyI~pa--~~g~GGlPV~Fs~ 65 (153)
||.++.+|+++-- +.+.-|-||.=++
T Consensus 161 PL~~~s~Y~~~vT~~i~Ds~G~pv~~S~ 188 (268)
T PF12262_consen 161 PLKPSSSYIVAVTDGIKDSNGRPVGPSS 188 (268)
T ss_pred cCCCCCccEEEEcccccccCCCCCCCCc
Confidence 3555655555432 2233445554443
No 39
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=21.07 E-value=63 Score=28.66 Aligned_cols=22 Identities=23% Similarity=0.498 Sum_probs=17.8
Q ss_pred CeecCCCCEEEEeecCCCCCce
Q 031740 39 NTVQPNCQYYLVSAIPGAGGIK 60 (153)
Q Consensus 39 ~~l~~g~~YyI~pa~~g~GGlP 60 (153)
=+++...-|..-..+.|.||||
T Consensus 150 iEIr~~~ayi~~~~~~G~GGLP 171 (383)
T COG0301 150 IEIREDKAYIYTERIKGPGGLP 171 (383)
T ss_pred EEEecCeEEEEEeeeccCCCCc
Confidence 3678888899988899999933
Done!