Query psy5970
Match_columns 169
No_of_seqs 177 out of 784
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 23:16:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5970.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5970hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1565|consensus 100.0 3E-36 6.5E-41 270.9 10.4 150 2-160 30-204 (469)
2 cd04278 ZnMc_MMP Zinc-dependen 99.2 4.6E-11 9.9E-16 92.7 5.4 79 81-160 1-99 (157)
3 PF00413 Peptidase_M10: Matrix 99.0 8.2E-10 1.8E-14 84.2 5.2 78 81-159 1-98 (154)
4 PF01471 PG_binding_1: Putativ 98.4 4.5E-07 9.7E-12 58.9 4.0 47 3-54 6-57 (57)
5 smart00235 ZnMc Zinc-dependent 97.4 0.00016 3.5E-09 54.6 3.9 43 80-123 3-47 (140)
6 cd04279 ZnMc_MMP_like_1 Zinc-d 97.1 0.00079 1.7E-08 51.9 4.7 63 85-148 2-76 (156)
7 cd04268 ZnMc_MMP_like Zinc-dep 96.0 0.0053 1.2E-07 47.1 2.9 40 84-124 1-40 (165)
8 cd04327 ZnMc_MMP_like_3 Zinc-d 95.2 0.024 5.3E-07 45.6 3.8 43 81-124 2-45 (198)
9 PF01400 Astacin: Astacin (Pep 93.6 0.075 1.6E-06 42.7 3.4 42 81-123 2-43 (191)
10 cd04276 ZnMc_MMP_like_2 Zinc-d 92.8 0.078 1.7E-06 43.3 2.4 31 83-114 6-36 (197)
11 TIGR02869 spore_SleB spore cor 92.8 0.2 4.2E-06 40.9 4.7 58 3-64 17-77 (201)
12 cd04280 ZnMc_astacin_like Zinc 92.1 0.2 4.4E-06 39.8 3.8 38 85-124 2-40 (180)
13 cd04277 ZnMc_serralysin_like Z 90.6 0.29 6.4E-06 38.6 3.4 25 100-125 36-60 (186)
14 cd04281 ZnMc_BMP1_TLD Zinc-dep 90.3 0.35 7.6E-06 39.5 3.6 44 79-123 7-50 (200)
15 cd04282 ZnMc_meprin Zinc-depen 80.6 2.9 6.2E-05 35.0 4.4 43 79-123 43-85 (230)
16 cd00203 ZnMc Zinc-dependent me 80.1 2.1 4.5E-05 32.5 3.2 39 86-125 2-48 (167)
17 KOG3714|consensus 74.7 5.8 0.00013 35.7 5.0 45 79-124 79-123 (411)
18 cd04283 ZnMc_hatching_enzyme Z 62.0 8.4 0.00018 31.0 2.9 36 86-122 5-40 (182)
19 COG3409 Putative peptidoglycan 48.5 41 0.0009 25.5 4.8 54 3-57 49-105 (185)
20 PRK10594 murein L,D-transpepti 42.8 22 0.00048 33.9 2.9 29 29-57 310-343 (608)
21 COG3023 ampD N-acetyl-anhydrom 35.9 62 0.0013 27.7 4.2 48 3-54 201-251 (257)
22 COG5507 Uncharacterized conser 25.4 58 0.0013 24.2 2.1 47 110-166 29-75 (117)
23 PF08823 PG_binding_2: Putativ 22.7 1.7E+02 0.0036 20.1 3.9 14 41-54 34-47 (74)
24 cd03737 SOCS_SOCS3 SOCS (suppr 21.7 60 0.0013 20.1 1.3 11 5-15 31-41 (42)
25 smart00667 LisH Lissencephaly 21.3 56 0.0012 17.5 1.1 16 2-17 7-22 (34)
26 smart00513 SAP Putative DNA-bi 20.9 94 0.002 17.8 2.0 17 29-45 6-23 (35)
27 PF02402 Lysis_col: Lysis prot 20.9 51 0.0011 20.8 0.9 14 134-147 24-37 (46)
No 1
>KOG1565|consensus
Probab=100.00 E-value=3e-36 Score=270.95 Aligned_cols=150 Identities=27% Similarity=0.437 Sum_probs=126.8
Q ss_pred HHHHHHHHHhcCCCCCCCCchhhccCCHHHHHH----h-HhcCCCccccCCHHHHHhhcCCCCCCCCCCCcccccccccc
Q psy5970 2 KTILQSYLANFGYLEASSNSEIANLRTKEQVTE----A-RFGNIPVTGIVDDATLALMKKPRCGLPDTPPLDRRRTKRFT 76 (169)
Q Consensus 2 ~~~~k~YL~kfGYL~~~~~~~~~~l~~~~~l~~----a-~f~gL~~TG~LD~~T~~~M~~PRCGvpD~~~~~~~r~~ry~ 76 (169)
+..++.||++|||+.+ .+...... ++..+++ + ++++|++||++|.+|++.|++||||||| ++++|+
T Consensus 30 ~~~~~~yl~~~~y~~~-~~~~~~~~-~~~~~~~al~~~q~~~~l~~tG~lD~~Tl~~m~~prCgvpd-------~~~~~~ 100 (469)
T KOG1565|consen 30 KVALQDYLECYGYLPP-TDLTATRA-SQNVLEDALKMMQDFFGLPVTGKLDNATLALMNKPRCGVPD-------GRYRYF 100 (469)
T ss_pred hhHHHHHhhhcccCCC-cccccccc-CchhhHHHHHhhhhhcCccccCCcchhhhhhccCCCcCCCC-------CccccC
Confidence 4678999999999988 44322211 3333444 4 9999999999999999999999999999 247899
Q ss_pred cCCCccccccceeEEecCCchhhHHHHHHHhh---hhcccccccceEeccc----------ccccCCCCCCcccCCCeee
Q psy5970 77 LDGRKWDHTDLTWRVLSRVDSLIMKLLLRSVG---NIVNSVNSSDFTQNKT----------RCYENLCGVEMQCQQGKFS 143 (169)
Q Consensus 77 ~~~~kW~k~~LTYrI~nyt~dL~~~~v~rAf~---k~Ws~vt~L~Fte~~~----------~~~~Hgd~~pFDG~gG~la 143 (169)
++++||+|++|||||.|||++|+..+|++|+. ++|++|+||+|+|+.. ..++|||++||||+||+||
T Consensus 101 ~~~~kW~k~~lT~ri~n~~~~l~~~~vr~~~~~Af~~Ws~vtpl~f~e~~~~~~aDi~i~F~~~~h~d~~PFDG~~g~la 180 (469)
T KOG1565|consen 101 PGKPKWNKEHLTYRIKNYTPYLPQAEVRCAKSEAFKLWSDVTPLTFQEVKEEGEADIRISFFPGDHGDGFPFDGPGGVLA 180 (469)
T ss_pred cccCcccccccceeccccCCCCCHHHHHHHHHHHHhhcccCCCCccccCCCCCCCceeeeeeccCCCCCCcccCCCCcee
Confidence 99999999999999999999999888765554 2799999999999975 2479999999999999999
Q ss_pred ccc-------cccccccCcceEEE
Q psy5970 144 LVS-------SLFKFLSQTKLVYS 160 (169)
Q Consensus 144 ~~~-------~~~~~~~~~~~~~~ 160 (169)
||+ +-.|||++|.|+|.
T Consensus 181 HAf~Pg~~~~G~~hfD~dE~Wt~~ 204 (469)
T KOG1565|consen 181 HAFFPGPGIGGDLHFDKDETWTYG 204 (469)
T ss_pred cccCCCCCCCCccccCcccceecc
Confidence 983 46999999999995
No 2
>cd04278 ZnMc_MMP Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate specification, cell migration, tissue repair, tumorigenesis, gain or loss of tissue-specific functions, and apoptosis. In many instances, they are anchored to cell membranes via trans-membrane domains, and their activity is controlled via TIMPs (tissue inhibitors of metalloproteinases).
Probab=99.16 E-value=4.6e-11 Score=92.73 Aligned_cols=79 Identities=16% Similarity=0.257 Sum_probs=63.2
Q ss_pred ccccccceeEEecCCc----hhhHHHHHHHhhhhcccccccceEecccc----------cccCCCCCCcccCCCeeeccc
Q psy5970 81 KWDHTDLTWRVLSRVD----SLIMKLLLRSVGNIVNSVNSSDFTQNKTR----------CYENLCGVEMQCQQGKFSLVS 146 (169)
Q Consensus 81 kW~k~~LTYrI~nyt~----dL~~~~v~rAf~k~Ws~vt~L~Fte~~~~----------~~~Hgd~~pFDG~gG~la~~~ 146 (169)
||+++.|||+|.+..+ ...++.|++||+ .|+++++++|+|+... ...|||+++|||++|+||+|.
T Consensus 1 kW~~~~itY~i~~~~~~~~~~~~~~~i~~A~~-~W~~~~~l~F~e~~~~~~adi~I~~~~~~~~~~~~~~~~~g~l~~a~ 79 (157)
T cd04278 1 KWSKTNLTYRILNYPPDLPRDDVRRAIARAFR-VWSDVTPLTFREVTSGQEADIRISFARGNHGDGYPFDGPGGTLAHAF 79 (157)
T ss_pred CCCCCceeEEEECCCCCCCHHHHHHHHHHHHH-HHHhhcCceeEEcccCCCCCEEEEEeecccCCCCCCCCCcccccccc
Confidence 7999999999998764 344567888888 7999999999998643 246899999999999999883
Q ss_pred ------cccccccCcceEEE
Q psy5970 147 ------SLFKFLSQTKLVYS 160 (169)
Q Consensus 147 ------~~~~~~~~~~~~~~ 160 (169)
+--+|++++.|.+.
T Consensus 80 ~p~~~~g~i~~~~~~~~~~~ 99 (157)
T cd04278 80 FPGGIGGDIHFDDDEQWTLG 99 (157)
T ss_pred CCCCcceeEEECCCcccccC
Confidence 44567777777654
No 3
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=98.97 E-value=8.2e-10 Score=84.25 Aligned_cols=78 Identities=15% Similarity=0.233 Sum_probs=62.3
Q ss_pred ccccccceeEEecCCchhhH----HHHHHHhhhhcccccccceEecccc---------cccCCCCCCcccCCCeeecc--
Q psy5970 81 KWDHTDLTWRVLSRVDSLIM----KLLLRSVGNIVNSVNSSDFTQNKTR---------CYENLCGVEMQCQQGKFSLV-- 145 (169)
Q Consensus 81 kW~k~~LTYrI~nyt~dL~~----~~v~rAf~k~Ws~vt~L~Fte~~~~---------~~~Hgd~~pFDG~gG~la~~-- 145 (169)
||++++|||+|.+.+++++. +.+++||. .|+++++++|+|+..+ ...+++.++|+|.+|+++++
T Consensus 1 ~W~~~~ity~i~~~~~~~~~~~~~~~i~~A~~-~W~~~~~~~F~~~~~~~adi~i~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (154)
T PF00413_consen 1 KWPKKTITYSISNTTPQLSQSEQRDAIRQAFQ-AWNDVAPLNFTEVSDGNADIRISFGSNNHGDGYSFDGSGGTLAHAYF 79 (154)
T ss_dssp SSSSSEEEEEESSBCTTS-HHHHHHHHHHHHH-HHHTTSSEEEEEESSSSCSEEEEEESSSSSSSS-CSSSSSESEEEEE
T ss_pred CCCCCcEEEEEECCCCCCCHHHHHHHHHHHHH-HHHhcCCceEEeccCCCcceeeeeeccccCcccccccceeeeecccc
Confidence 79999999999998877654 45677777 7999999999998742 34689999999999999976
Q ss_pred -----ccccccccCcceEE
Q psy5970 146 -----SSLFKFLSQTKLVY 159 (169)
Q Consensus 146 -----~~~~~~~~~~~~~~ 159 (169)
.+..+|+.+++|.+
T Consensus 80 ~~~~~~~~i~~~~~~~~~~ 98 (154)
T PF00413_consen 80 PNNIVSGDIHFNDDESWTI 98 (154)
T ss_dssp SSSTTTTEEEEETTSHEES
T ss_pred ccccccccccccccccchh
Confidence 44568888888764
No 4
>PF01471 PG_binding_1: Putative peptidoglycan binding domain; InterPro: IPR002477 This entry represents peptidoglycan binding domain (PGBD), as well as related domains that share the same structure. PGBD may have a general peptidoglycan binding function, has a core structure consisting of a closed, three-helical bundle with a left-handed twist. It is found at the N or C terminus of a variety of enzymes involved in bacterial cell wall degradation [, , ]. Examples are: Muramoyl-pentapeptide carboxypeptidase (3.4.17.8 from EC) N-acetylmuramoyl-L-alanine amidase cwlA precursor (cell wall hydrolase, autolysin, 3.5.1.28 from EC) Autolytic lysozyme (1,4-beta-N-acetylmuramidase, autolysin, 3.2.1.17 from EC) Membrane-bound lytic murein transglycosylase B Zinc-containing D-alanyl-D-alanine-cleaving carboxypeptidase, VanX []. Many of the proteins having this domain are as yet uncharacterised. However, some are known to belong to MEROPS peptidase family M15 (clan MD), subfamily M15A metallopeptidases. A number of the proteins belonging to subfamily M15A are non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. Eukaryotic enzymes can contain structurally similar PGBD-like domains. Matrix metalloproteinases (MMP), which catalyse extracellular matrix degradation, have N-terminal domains that resemble PGBD. Examples are gelatinase A (MMP-2), which degrades type IV collagen [], stromelysin-1 (MMP-3), which plays a role in arthritis and tumour invasion [, ], and gelatinase B (MMP-9) secreted by neutrophils as part of the innate immune defence mechanism []. Several MMPs are implicated in cancer progression, since degradation of the extracellular matrix is an essential step in the cascade of metastasis [].; GO: 0008152 metabolic process; PDB: 1L6J_A 3BKH_A 3BKV_A 1GXD_A 1EAK_D 1CK7_A 1SLM_A 1LBU_A 1SU3_B.
Probab=98.38 E-value=4.5e-07 Score=58.92 Aligned_cols=47 Identities=32% Similarity=0.550 Sum_probs=33.4
Q ss_pred HHHHHHHHhcCCCCCCCCchhhccCCHHHHHHh-----HhcCCCccccCCHHHHHhh
Q psy5970 3 TILQSYLANFGYLEASSNSEIANLRTKEQVTEA-----RFGNIPVTGIVDDATLALM 54 (169)
Q Consensus 3 ~~~k~YL~kfGYL~~~~~~~~~~l~~~~~l~~a-----~f~gL~~TG~LD~~T~~~M 54 (169)
..+|.+|.++||++...+ + ...+.+++| +.+||++||++|.+|+++|
T Consensus 6 ~~lq~~L~~~gy~~~~~~---g--~~~~~t~~Av~~fQ~~~gL~~tG~~d~~T~~~L 57 (57)
T PF01471_consen 6 KALQQYLNRLGYYPGPVD---G--IFDPETREAVKAFQKANGLPVTGVVDPETWEAL 57 (57)
T ss_dssp HHHHHHHHHTTTT-SSTT---S--BSHHHHHHHHHHHHHHTTS-SSSSBCHHHHHHH
T ss_pred HHHHHHHHHcCCCCCCCC---C--CcCHHHHHHHHHHHHHcCcCCCCccCHHHHhcC
Confidence 468999999999944111 2 123344444 9999999999999999987
No 5
>smart00235 ZnMc Zinc-dependent metalloprotease. Neutral zinc metallopeptidases. This alignment represents a subset of known subfamilies. Highest similarity occurs in the HExxH zinc-binding site/ active site.
Probab=97.43 E-value=0.00016 Score=54.61 Aligned_cols=43 Identities=14% Similarity=0.264 Sum_probs=35.0
Q ss_pred CccccccceeEEe--cCCchhhHHHHHHHhhhhcccccccceEecc
Q psy5970 80 RKWDHTDLTWRVL--SRVDSLIMKLLLRSVGNIVNSVNSSDFTQNK 123 (169)
Q Consensus 80 ~kW~k~~LTYrI~--nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~ 123 (169)
.+|++..|||.|. .+++..-++.|++||. .|+++++++|+|+.
T Consensus 3 ~~W~~~~v~Y~i~~~~~~~~~~~~~i~~A~~-~w~~~t~i~F~e~~ 47 (140)
T smart00235 3 KKWPKGTVPYVIDSSSLSPEEVREAIARAFA-EWSDVTCLRFVERT 47 (140)
T ss_pred CcCCCCcEEEEEcCCCCCHHHHHHHHHHHHH-HHhcCCeeEEEECC
Confidence 6899999999996 3444333678889998 79999999999875
No 6
>cd04279 ZnMc_MMP_like_1 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=97.12 E-value=0.00079 Score=51.91 Aligned_cols=63 Identities=6% Similarity=-0.087 Sum_probs=44.0
Q ss_pred ccceeEEecCC------chhhHHHHHHHhhhhcccccccceEecccc--cc----cCCCCCCcccCCCeeeccccc
Q psy5970 85 TDLTWRVLSRV------DSLIMKLLLRSVGNIVNSVNSSDFTQNKTR--CY----ENLCGVEMQCQQGKFSLVSSL 148 (169)
Q Consensus 85 ~~LTYrI~nyt------~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~~--~~----~Hgd~~pFDG~gG~la~~~~~ 148 (169)
..|+|.|..-+ +.--++.|++||+ .|+++++|+|++.... .. .-..+.+|||.||.||++...
T Consensus 2 ~~i~~~i~~~~~~~~~~~~~~~~~v~~A~~-~W~~~~~l~F~~~~~~~~~adi~I~f~~~~~~~~~g~~~a~a~~p 76 (156)
T cd04279 2 SPIRVYIDPTPAPPDSRAQSWLQAVKQAAA-EWENVGPLKFVYNPEEDNDADIVIFFDRPPPVGGAGGGLARAGFP 76 (156)
T ss_pred CCeEEEEcCCCCccccchHHHHHHHHHHHH-HHHHhCCeEEEEccCCCCCCcEEEEecCCCCCCCCCCceEEeccc
Confidence 45778887643 2223567899999 6999999999987652 11 112233899999999998553
No 7
>cd04268 ZnMc_MMP_like Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases.
Probab=96.05 E-value=0.0053 Score=47.08 Aligned_cols=40 Identities=13% Similarity=0.191 Sum_probs=34.2
Q ss_pred cccceeEEecCCchhhHHHHHHHhhhhcccccccceEeccc
Q psy5970 84 HTDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNKT 124 (169)
Q Consensus 84 k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~ 124 (169)
++.|+|.|.+..+.--++.|++||. .|++++.++|+|+..
T Consensus 1 ~~~I~y~i~~~~~~~~r~~i~~A~~-~W~~~~~i~F~e~~~ 40 (165)
T cd04268 1 KKPITYYIDDSVPDKLRAAILDAIE-AWNKAFAIGFKNAND 40 (165)
T ss_pred CCCEEEEEcCCCCHHHHHHHHHHHH-HHHHHhCcCceeccc
Confidence 4679999998766666788999999 799999999998764
No 8
>cd04327 ZnMc_MMP_like_3 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=95.16 E-value=0.024 Score=45.59 Aligned_cols=43 Identities=14% Similarity=0.118 Sum_probs=34.6
Q ss_pred cccc-ccceeEEecCCchhhHHHHHHHhhhhcccccccceEeccc
Q psy5970 81 KWDH-TDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNKT 124 (169)
Q Consensus 81 kW~k-~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~ 124 (169)
+|+. +.|+|.+.+..+.-.++.|++||. .|++++.|+|+|+..
T Consensus 2 ~W~~~~~~~~~f~~~~~~~~r~~I~~A~~-~W~~~t~i~F~~~~~ 45 (198)
T cd04327 2 LWRNGTVLRIAFLGGPDAFLKDKVRAAAR-EWLPYANLKFKFVTD 45 (198)
T ss_pred CCCCCCeEEEEeCCCCcHHHHHHHHHHHH-HHhhhcCeEEEECCC
Confidence 5874 468898887655556788999998 799999999998764
No 9
>PF01400 Astacin: Astacin (Peptidase family M12A) This Prosite motif covers only the active site.; InterPro: IPR001506 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12A (astacin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The astacin () family of metalloendopeptidases encompasses a range of proteins found in hydra to humans, in mature and developmental systems []. Their functions include activation of growth factors, degradation of polypeptides, and processing of extracellular proteins []. The proteins are synthesised with N-terminal signal and pro-enzyme sequences, and many contain multiple domains C-terminal to the protease domain. They are either secreted from cells, or are associated with the plasma membrane. The astacin molecule adopts a kidney shape, with a deep active-site cleft between its N- and C-terminal domains []. The zinc ion, which lies at the bottom of the cleft, exhibits a unique penta-coordinated mode of binding, involving 3 histidine residues, a tyrosine and a water molecule (which is also bound to the carboxylate side chain of Glu93) []. The N-terminal domain comprises 2 alpha-helices and a 5-stranded beta-sheet. The overall topology of this domain is shared by the archetypal zinc-endopeptidase thermolysin. Astacin protease domains also share common features with serralysins, matrix metalloendopeptidases, and snake venom proteases; they cleave peptide bonds in polypeptides such as insulin B chain and bradykinin, and in proteins such as casein and gelatin; and they have arylamidase activity [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3LQB_A 3EDH_A 3EDG_A 3EDI_A 1IAE_A 1IAB_A 1IAA_A 1AST_A 1IAC_A 1QJJ_A ....
Probab=93.64 E-value=0.075 Score=42.70 Aligned_cols=42 Identities=10% Similarity=0.199 Sum_probs=33.2
Q ss_pred ccccccceeEEecCCchhhHHHHHHHhhhhcccccccceEecc
Q psy5970 81 KWDHTDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNK 123 (169)
Q Consensus 81 kW~k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~ 123 (169)
+|+...|-|.|.+--+...++.|++|+. .|++.|.++|.++.
T Consensus 2 ~Wp~~~IpY~~~~~~~~~~~~~I~~Am~-~~e~~TcI~F~~~~ 43 (191)
T PF01400_consen 2 KWPNGTIPYYIDPSFSSSQRQRIRKAMD-EWEKNTCIRFVERT 43 (191)
T ss_dssp S-GGGEEEEEEETTS-HHHHHHHHHHHH-HHHHHSSEEEEE-S
T ss_pred cCCCCEEEEEECCCCCHHHHHHHHHHHH-HHHhCCCEEEEECC
Confidence 7999999999986434445678999999 68999999999987
No 10
>cd04276 ZnMc_MMP_like_2 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=92.84 E-value=0.078 Score=43.25 Aligned_cols=31 Identities=6% Similarity=-0.017 Sum_probs=26.6
Q ss_pred ccccceeEEecCCchhhHHHHHHHhhhhcccc
Q psy5970 83 DHTDLTWRVLSRVDSLIMKLLLRSVGNIVNSV 114 (169)
Q Consensus 83 ~k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~v 114 (169)
+|+.|||+|.++++..-++.|++||. +|+++
T Consensus 6 pk~pItyyI~~~~p~~~r~aI~~A~~-~Wn~~ 36 (197)
T cd04276 6 PKEPIVYYLDNTFPEKYRDAIREGVL-YWNKA 36 (197)
T ss_pred CCCCEEEEecCCCcHHHHHHHHHHHH-HHHHH
Confidence 36889999999999777788999999 79876
No 11
>TIGR02869 spore_SleB spore cortex-lytic enzyme. Members of this protein family are the spore cortex-lytic enzyme SleB from Bacillus subtilis and other Gram-positive, endospore-forming bacterial species. This protein is stored in an inactive form in the spore and activated during germination.
Probab=92.79 E-value=0.2 Score=40.89 Aligned_cols=58 Identities=21% Similarity=0.209 Sum_probs=39.2
Q ss_pred HHHHHHHHhcCCCCCCCCchhhcc--CCHHHHHHh-HhcCCCccccCCHHHHHhhcCCCCCCCCC
Q psy5970 3 TILQSYLANFGYLEASSNSEIANL--RTKEQVTEA-RFGNIPVTGIVDDATLALMKKPRCGLPDT 64 (169)
Q Consensus 3 ~~~k~YL~kfGYL~~~~~~~~~~l--~~~~~l~~a-~f~gL~~TG~LD~~T~~~M~~PRCGvpD~ 64 (169)
..+|..|...||.....+ +.. .+.+.++.. +.+||+++|.+|..|+..|.. -|.++..
T Consensus 17 ~~LQ~~L~~lG~~~g~id---G~fg~~T~~AV~~FQ~~~GL~~dG~vg~~T~~~L~~-~~~~~~~ 77 (201)
T TIGR02869 17 IEIQRRLKAWGYYNGKVD---GVFGWLTYWAVRKFQSKNGLTVDGIVGPKTKAALGI-ATTQQSS 77 (201)
T ss_pred HHHHHHHHHcCCCCCCCC---CccCHHHHHHHHHHHHHhCCCCCCCcCHHHHHHhCC-ccccCcc
Confidence 468899999999754111 111 123334444 889999999999999999944 4555543
No 12
>cd04280 ZnMc_astacin_like Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to yield the active protease domain, which is consequently always found at the N-terminus in multi-domain architectures. This family includes: astacin, a digestive enzyme from Crayfish; meprin, a multiple domain membrane component that is constructed from a homologous alpha and beta chain, proteins involved in (bone) morphogenesis, tolloid from drosophila, and the sea urchin SPAN protein, which may also play a role in development.
Probab=92.06 E-value=0.2 Score=39.84 Aligned_cols=38 Identities=16% Similarity=0.162 Sum_probs=30.8
Q ss_pred ccceeEEec-CCchhhHHHHHHHhhhhcccccccceEeccc
Q psy5970 85 TDLTWRVLS-RVDSLIMKLLLRSVGNIVNSVNSSDFTQNKT 124 (169)
Q Consensus 85 ~~LTYrI~n-yt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~ 124 (169)
..|.|.|.+ +++ ..++.|++||. .|+++|.++|+|...
T Consensus 2 ~~VpY~i~~~~~~-~~~~~I~~A~~-~w~~~TcIrF~~~~~ 40 (180)
T cd04280 2 GTVPYVIDGSFDE-SDRSLILRAMR-EIESNTCIRFVPRTT 40 (180)
T ss_pred CEEEEEECCCCCH-HHHHHHHHHHH-HHHhCCcceEEECCC
Confidence 368899987 544 45778999999 799999999998654
No 13
>cd04277 ZnMc_serralysin_like Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not require n-terminal signal sequences which are cleaved after the transmembrane translocation. A calcium-binding domain c-terminal to the metalloprotease domain, which contains multiple tandem repeats of a nine-residue motif including the pattern GGxGxD, and which forms a parallel beta roll may be involved in the translocation mechanism and/or substrate binding. Serralysin family members may have a broad spectrum of substrates each, including host immunoglobulins, complement proteins, cell matrix and cytoskeletal proteins, as well as antimicrobial peptides.
Probab=90.63 E-value=0.29 Score=38.58 Aligned_cols=25 Identities=12% Similarity=0.098 Sum_probs=21.0
Q ss_pred HHHHHHHhhhhcccccccceEecccc
Q psy5970 100 MKLLLRSVGNIVNSVNSSDFTQNKTR 125 (169)
Q Consensus 100 ~~~v~rAf~k~Ws~vt~L~Fte~~~~ 125 (169)
++.|++||. .|+++++|+|+|+...
T Consensus 36 ~~~i~~A~~-~w~~~~~l~F~e~~~~ 60 (186)
T cd04277 36 QAAARDALE-AWEDVADIDFVEVSDN 60 (186)
T ss_pred HHHHHHHHH-HHHhhcCceeEECCCC
Confidence 456889999 7999999999998653
No 14
>cd04281 ZnMc_BMP1_TLD Zinc-dependent metalloprotease; BMP1/TLD-like subfamily. BMP1 (Bone morphogenetic protein 1) and TLD (tolloid)-like metalloproteases play vital roles in extracellular matrix formation, by cleaving precursor proteins such as enzymes, structural proteins, and proteins involved in the mineralization of the extracellular matrix. The drosophila protein tolloid and its Xenopus homologue xolloid cleave and inactivate Sog and chordin, respectively, which are inhibitors of Dpp (the Drosophila decapentaplegic gene product) and its homologue BMP4, involved in dorso-ventral patterning.
Probab=90.26 E-value=0.35 Score=39.52 Aligned_cols=44 Identities=7% Similarity=0.160 Sum_probs=35.3
Q ss_pred CCccccccceeEEecCCchhhHHHHHHHhhhhcccccccceEecc
Q psy5970 79 GRKWDHTDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNK 123 (169)
Q Consensus 79 ~~kW~k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~ 123 (169)
..+|++..+-|.|..--+...++.|++|+. .|++.|-++|.+..
T Consensus 7 ~~~Wp~~~VpY~i~~~~~~~~~~~I~~Am~-~~~~~TCirF~~r~ 50 (200)
T cd04281 7 ERIWPGGVIPYVIDGNFTGSQRAMFKQAMR-HWENFTCVTFVERT 50 (200)
T ss_pred cCcCCCCEEEEEECCCCCHHHHHHHHHHHH-HHHhCCceEEEECC
Confidence 368999999999975333345678999999 79999999998753
No 15
>cd04282 ZnMc_meprin Zinc-dependent metalloprotease, meprin_like subfamily. Meprins are membrane-bound or secreted extracellular proteases, which cleave a variety of targets, including peptides such as parathyroid hormone, gastrin, and cholecystokinin, cytokines such as osteopontin, and proteins such as collagen IV, fibronectin, casein and gelatin. Meprins may also be able to release proteins from the cell surface. Closely related meprin alpha- and beta-subunits form homo- and hetero-oligomers; these complexes are found on epithelial cells of the intestine, for example, and are also expressed in certain cancer cells.
Probab=80.59 E-value=2.9 Score=35.00 Aligned_cols=43 Identities=12% Similarity=0.267 Sum_probs=33.8
Q ss_pred CCccccccceeEEecCCchhhHHHHHHHhhhhcccccccceEecc
Q psy5970 79 GRKWDHTDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNK 123 (169)
Q Consensus 79 ~~kW~k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~ 123 (169)
..+|++ .+=|.|..--+...++.|++|+. .|++.|-+.|.+..
T Consensus 43 ~~~Wp~-~VPY~i~~~~~~~~~~~I~~Am~-~~~~~TCirF~~rt 85 (230)
T cd04282 43 TYRWPF-PIPYILDDSLDLNAKGVILKAFE-MYRLKSCVDFKPYE 85 (230)
T ss_pred ccCCCc-ceeEEECCCCCHHHHHHHHHHHH-HHHhCCCeeEEECC
Confidence 358998 89999975333345678999999 79999999998653
No 16
>cd00203 ZnMc Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which are involved in vertebrate development and disease.
Probab=80.08 E-value=2.1 Score=32.48 Aligned_cols=39 Identities=15% Similarity=0.154 Sum_probs=27.1
Q ss_pred cceeEEecCC--------chhhHHHHHHHhhhhcccccccceEecccc
Q psy5970 86 DLTWRVLSRV--------DSLIMKLLLRSVGNIVNSVNSSDFTQNKTR 125 (169)
Q Consensus 86 ~LTYrI~nyt--------~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~~ 125 (169)
.|+|.|.... +.--.+.|++|+. +|+++++++|+++...
T Consensus 2 ~i~~~i~~d~~~~~~~~~~~~~~~~v~~a~~-~w~~~~~i~f~~~~~~ 48 (167)
T cd00203 2 VIPYVVVADDRDVEEENLSAQIQSLILIAMQ-IWRDYLNIRFVLVGVE 48 (167)
T ss_pred EEEEEEEecccccchhhhHHHHHHHHHHHHH-HHHhhhCceEEEeccC
Confidence 3566676552 2223456788888 8999999999988653
No 17
>KOG3714|consensus
Probab=74.67 E-value=5.8 Score=35.71 Aligned_cols=45 Identities=13% Similarity=0.269 Sum_probs=38.3
Q ss_pred CCccccccceeEEecCCchhhHHHHHHHhhhhcccccccceEeccc
Q psy5970 79 GRKWDHTDLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQNKT 124 (169)
Q Consensus 79 ~~kW~k~~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~~~ 124 (169)
..+|+...+-|.|.+--....++.|++||. -|++.|=++|.|...
T Consensus 79 ~~~Wp~~~ipY~i~~~~~~~~r~~i~~A~~-~~~~~TCi~F~~~~~ 123 (411)
T KOG3714|consen 79 ERRWPNGVIPYYIDGSFTSSQRALIRQAMR-EIENHTCIRFVERTT 123 (411)
T ss_pred hhcCCCCeeeeEECCCCCHHHHHHHHHHHH-HHhhCcceEEEeCCC
Confidence 468999999999986545567889999999 699999999999763
No 18
>cd04283 ZnMc_hatching_enzyme Zinc-dependent metalloprotease, hatching enzyme-like subfamily. Hatching enzymes are secreted by teleost embryos to digest the egg envelope or chorion. In some teleosts, the hatching enzyme may be a system consisting of two evolutionary related metalloproteases, high choriolytic enzyme and low choriolytic enzyme (HCE and LCE), which may have different substrate specificities and cooperatively digest the chorion.
Probab=61.96 E-value=8.4 Score=31.02 Aligned_cols=36 Identities=3% Similarity=0.096 Sum_probs=27.1
Q ss_pred cceeEEecCCchhhHHHHHHHhhhhcccccccceEec
Q psy5970 86 DLTWRVLSRVDSLIMKLLLRSVGNIVNSVNSSDFTQN 122 (169)
Q Consensus 86 ~LTYrI~nyt~dL~~~~v~rAf~k~Ws~vt~L~Fte~ 122 (169)
.+=|.|..--+...++.|++|+. .|++.|-++|.+.
T Consensus 5 ~IpY~i~~~~~~~~~~~I~~A~~-~~~~~TCirF~~~ 40 (182)
T cd04283 5 YVPYVISPQYSENERAVIEKAMQ-EFETLTCVRFVPR 40 (182)
T ss_pred EEEEEECCCCCHHHHHHHHHHHH-HHHhCCceeeEEC
Confidence 35678864323345788999999 6999999999975
No 19
>COG3409 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]
Probab=48.54 E-value=41 Score=25.53 Aligned_cols=54 Identities=30% Similarity=0.372 Sum_probs=37.4
Q ss_pred HHHHHHHHhcCCCC-CCCCchhhccCCHHHHHHh-HhcCC-CccccCCHHHHHhhcCC
Q psy5970 3 TILQSYLANFGYLE-ASSNSEIANLRTKEQVTEA-RFGNI-PVTGIVDDATLALMKKP 57 (169)
Q Consensus 3 ~~~k~YL~kfGYL~-~~~~~~~~~l~~~~~l~~a-~f~gL-~~TG~LD~~T~~~M~~P 57 (169)
..+|.-|...||.. ...+-..+ -.+...++.. +.+|| +++|..+.+|...+...
T Consensus 49 ~~lq~~L~~~g~~~~~~~dg~~g-~~t~~av~~fQ~~~gl~~~dG~~g~~t~~al~~~ 105 (185)
T COG3409 49 RILQAALNALGYYPDGVIDGVYG-PETAAAVRAFQQKNGLSPVDGIVGPATRAALPSQ 105 (185)
T ss_pred HHHHHHHHhcCCCCCCCccCccC-cccHHHHHHHhhhcCcccccccccHHHHHHHHHH
Confidence 35788999999986 21111111 1234556555 99999 89999999999888763
No 20
>PRK10594 murein L,D-transpeptidase; Provisional
Probab=42.82 E-value=22 Score=33.91 Aligned_cols=29 Identities=14% Similarity=0.318 Sum_probs=24.1
Q ss_pred HHHHHHh-----HhcCCCccccCCHHHHHhhcCC
Q psy5970 29 KEQVTEA-----RFGNIPVTGIVDDATLALMKKP 57 (169)
Q Consensus 29 ~~~l~~a-----~f~gL~~TG~LD~~T~~~M~~P 57 (169)
+++|.+| +.+||..+|++...|++.|+.|
T Consensus 310 D~~Lv~AVK~FQ~rhGL~~DGvIG~~T~~~LNvs 343 (608)
T PRK10594 310 DNELVEAVKRFQAWQGLGADGVIGPRTRDWLNVT 343 (608)
T ss_pred CHHHHHHHHHHHHHcCCCCCcCcCHHHHHHHcCC
Confidence 4566666 8899999999999999997753
No 21
>COG3023 ampD N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]
Probab=35.88 E-value=62 Score=27.70 Aligned_cols=48 Identities=29% Similarity=0.340 Sum_probs=31.5
Q ss_pred HHHHHHHHhcCCCCCCCCchhhccCCHHHHHHh---HhcCCCccccCCHHHHHhh
Q psy5970 3 TILQSYLANFGYLEASSNSEIANLRTKEQVTEA---RFGNIPVTGIVDDATLALM 54 (169)
Q Consensus 3 ~~~k~YL~kfGYL~~~~~~~~~~l~~~~~l~~a---~f~gL~~TG~LD~~T~~~M 54 (169)
..+|+=|.+|||--+ .+.. . ...+.+..| +|--=..+|+.|-+|++.+
T Consensus 201 ~~lq~~L~~YGY~v~-~~~~-d--~~t~~vv~aFQ~hfrp~~~dg~~d~et~a~l 251 (257)
T COG3023 201 AALQEMLARYGYGVE-IGVF-D--QETQQVVRAFQMHFRPGLYDGEADVETIAIL 251 (257)
T ss_pred HHHHHHHHHhCcCCC-cchh-h--HHHHHHHHHHHHHhCCCCCCCCCChHHHHHH
Confidence 467888999999876 3211 0 011234444 6666678899999998765
No 22
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=25.44 E-value=58 Score=24.21 Aligned_cols=47 Identities=15% Similarity=0.230 Sum_probs=36.1
Q ss_pred hcccccccceEecccccccCCCCCCcccCCCeeeccccccccccCcceEEEEeccCC
Q psy5970 110 IVNSVNSSDFTQNKTRCYENLCGVEMQCQQGKFSLVSSLFKFLSQTKLVYSLINVPK 166 (169)
Q Consensus 110 ~Ws~vt~L~Fte~~~~~~~Hgd~~pFDG~gG~la~~~~~~~~~~~~~~~~~~~~~~~ 166 (169)
+|.+.-.|...|- +.=|-|+|.|-----+-+..|||.+|+|.|--|.
T Consensus 29 v~kE~Gal~~VEc----------~~dDVP~Gk~T~F~rAVkA~ddE~VvFsW~~Y~s 75 (117)
T COG5507 29 VWKEFGALRYVEC----------WADDVPYGKLTDFPRAVKAKDDEEVVFSWIEYPS 75 (117)
T ss_pred HHHHhCchhhhhh----------cccCCCCCcccchhhhhhccCCcEEEEEEEEcCc
Confidence 7877666766643 3446678888877777899999999999998764
No 23
>PF08823 PG_binding_2: Putative peptidoglycan binding domain; InterPro: IPR014927 This entry may be a peptidoglycan binding domain.
Probab=22.75 E-value=1.7e+02 Score=20.08 Aligned_cols=14 Identities=29% Similarity=0.418 Sum_probs=8.4
Q ss_pred CccccCCHHHHHhh
Q psy5970 41 PVTGIVDDATLALM 54 (169)
Q Consensus 41 ~~TG~LD~~T~~~M 54 (169)
+++|..|++|.+.+
T Consensus 34 ~~~g~~d~a~~~Al 47 (74)
T PF08823_consen 34 EADGVWDEATEDAL 47 (74)
T ss_pred CCCCcccHHHHHHH
Confidence 56666666666554
No 24
>cd03737 SOCS_SOCS3 SOCS (suppressors of cytokine signaling) box of SOCS3-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS3, like CIS1 and SOCS1, is involved in the down-regulation of the JAK/STAT pathway. SOCS3 inhibits JAK activity indirectly through recruitment to the cytokine receptors. SOCS3 has been shown to play an essential role in placental development and a non-essential role in embryo development. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.
Probab=21.67 E-value=60 Score=20.05 Aligned_cols=11 Identities=9% Similarity=0.446 Sum_probs=9.3
Q ss_pred HHHHHHhcCCC
Q psy5970 5 LQSYLANFGYL 15 (169)
Q Consensus 5 ~k~YL~kfGYL 15 (169)
+++||+.|.|.
T Consensus 31 Lk~yL~~Y~~~ 41 (42)
T cd03737 31 IKEFLDQYDAP 41 (42)
T ss_pred HHHHHHhCCCC
Confidence 78999999874
No 25
>smart00667 LisH Lissencephaly type-1-like homology motif. Alpha-helical motif present in Lis1, treacle, Nopp140, some katanin p60 subunits, muskelin, tonneau, LEUNIG and numerous WD40 repeat-containing proteins. It is suggested that LisH motifs contribute to the regulation of microtubule dynamics, either by mediating dimerisation, or else by binding cytoplasmic dynein heavy chain or microtubules directly.
Probab=21.32 E-value=56 Score=17.51 Aligned_cols=16 Identities=31% Similarity=0.592 Sum_probs=12.0
Q ss_pred HHHHHHHHHhcCCCCC
Q psy5970 2 KTILQSYLANFGYLEA 17 (169)
Q Consensus 2 ~~~~k~YL~kfGYL~~ 17 (169)
...+-+||.+.||...
T Consensus 7 ~~lI~~yL~~~g~~~t 22 (34)
T smart00667 7 NRLILEYLLRNGYEET 22 (34)
T ss_pred HHHHHHHHHHcCHHHH
Confidence 3467799999998644
No 26
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=20.94 E-value=94 Score=17.76 Aligned_cols=17 Identities=6% Similarity=0.282 Sum_probs=13.3
Q ss_pred HHHHHHh-HhcCCCcccc
Q psy5970 29 KEQVTEA-RFGNIPVTGI 45 (169)
Q Consensus 29 ~~~l~~a-~f~gL~~TG~ 45 (169)
..+|++. +..||+.+|.
T Consensus 6 ~~~Lk~~l~~~gl~~~G~ 23 (35)
T smart00513 6 VSELKDELKKRGLSTSGT 23 (35)
T ss_pred HHHHHHHHHHcCCCCCCC
Confidence 4567777 8899999986
No 27
>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=20.85 E-value=51 Score=20.84 Aligned_cols=14 Identities=29% Similarity=0.173 Sum_probs=11.3
Q ss_pred CcccCCCeeecccc
Q psy5970 134 EMQCQQGKFSLVSS 147 (169)
Q Consensus 134 pFDG~gG~la~~~~ 147 (169)
-=|-+||++|+-||
T Consensus 24 iRDvqGGtVaPSSs 37 (46)
T PF02402_consen 24 IRDVQGGTVAPSSS 37 (46)
T ss_pred eecCCCceECCCcc
Confidence 34789999999876
Done!