Query 029293
Match_columns 195
No_of_seqs 121 out of 182
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 10:35:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029293.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029293hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3314 Ku70-binding protein [ 100.0 7.7E-86 1.7E-90 544.5 16.8 193 1-195 1-194 (194)
2 PF09768 Peptidase_M76: Peptid 100.0 1.7E-80 3.6E-85 515.1 18.1 169 24-193 1-173 (173)
3 PF10263 SprT-like: SprT-like 96.0 0.0039 8.4E-08 49.4 2.1 40 68-107 31-76 (157)
4 PF14891 Peptidase_M91: Effect 95.5 0.0068 1.5E-07 49.9 1.6 45 89-134 101-152 (174)
5 PF13485 Peptidase_MA_2: Pepti 95.3 0.022 4.8E-07 41.7 3.6 39 70-109 3-43 (128)
6 smart00731 SprT SprT homologue 94.0 0.1 2.2E-06 41.7 4.8 58 50-107 15-75 (146)
7 PF13058 DUF3920: Protein of u 93.9 0.077 1.7E-06 42.4 3.8 50 56-107 26-92 (126)
8 PF14247 DUF4344: Domain of un 93.9 0.19 4.2E-06 43.7 6.6 73 29-103 10-104 (220)
9 TIGR02290 M3_fam_3 oligoendope 93.4 0.37 8.1E-06 46.4 8.3 79 19-105 304-389 (587)
10 KOG3931 Uncharacterized conser 93.3 0.057 1.2E-06 50.7 2.5 26 84-109 98-123 (484)
11 PF15640 Tox-MPTase4: Metallop 93.2 0.13 2.8E-06 41.8 4.0 60 38-107 22-85 (132)
12 TIGR02289 M3_not_pepF oligoend 92.3 0.69 1.5E-05 44.3 8.4 79 21-106 268-352 (549)
13 TIGR00181 pepF oligoendopeptid 92.1 0.74 1.6E-05 44.2 8.4 78 20-105 309-392 (591)
14 PRK04897 heat shock protein Ht 90.1 0.68 1.5E-05 41.3 5.7 65 37-103 79-149 (298)
15 PRK02391 heat shock protein Ht 89.4 1.1 2.3E-05 40.2 6.4 65 37-103 75-145 (296)
16 PRK03982 heat shock protein Ht 89.3 0.84 1.8E-05 40.3 5.5 65 37-103 67-137 (288)
17 PRK04860 hypothetical protein; 89.1 0.91 2E-05 37.7 5.3 67 40-107 10-79 (160)
18 PF14521 Aspzincin_M35: Lysine 89.0 0.2 4.3E-06 40.4 1.3 71 39-109 30-114 (148)
19 PRK01345 heat shock protein Ht 88.8 1.1 2.3E-05 40.6 6.0 65 37-103 66-136 (317)
20 cd06459 M3B_Oligoendopeptidase 88.5 2 4.3E-05 38.8 7.5 78 21-105 153-236 (427)
21 PRK03001 M48 family peptidase; 88.5 1 2.2E-05 39.7 5.5 65 37-103 66-136 (283)
22 PRK05457 heat shock protein Ht 88.1 1.3 2.8E-05 39.5 5.9 60 42-103 81-146 (284)
23 PRK02870 heat shock protein Ht 87.1 1.3 2.8E-05 40.7 5.5 65 37-102 114-184 (336)
24 PRK04351 hypothetical protein; 86.3 1.6 3.6E-05 35.7 5.2 65 41-107 7-77 (149)
25 TIGR00043 metalloprotein, YbeY 85.5 1.5 3.2E-05 34.0 4.3 59 50-108 21-92 (110)
26 PF04450 BSP: Peptidase of pla 85.2 0.57 1.2E-05 40.2 2.0 35 69-104 67-109 (205)
27 PRK03072 heat shock protein Ht 84.6 2.1 4.5E-05 38.1 5.4 65 37-103 69-139 (288)
28 PF05569 Peptidase_M56: BlaR1 84.5 2.5 5.3E-05 37.0 5.7 44 58-103 159-208 (299)
29 PF06114 DUF955: Domain of unk 84.4 1.2 2.6E-05 32.1 3.2 72 68-140 17-92 (122)
30 PF10026 DUF2268: Predicted Zn 84.3 1.6 3.4E-05 36.6 4.2 41 71-114 43-85 (195)
31 PF01431 Peptidase_M13: Peptid 84.0 0.52 1.1E-05 38.8 1.3 24 88-112 33-56 (206)
32 PF01433 Peptidase_M1: Peptida 81.0 4.4 9.4E-05 36.0 6.0 62 42-103 236-307 (390)
33 PF01457 Peptidase_M8: Leishma 80.6 0.89 1.9E-05 43.6 1.6 35 73-107 189-226 (521)
34 PF08325 WLM: WLM domain; Int 79.1 2.3 4.9E-05 36.0 3.4 45 59-103 42-94 (186)
35 PF01435 Peptidase_M48: Peptid 78.6 4 8.7E-05 33.2 4.7 69 38-106 31-104 (226)
36 PHA02456 zinc metallopeptidase 76.9 1.6 3.4E-05 35.3 1.8 21 89-109 77-97 (141)
37 PF15639 Tox-MPTase3: Metallop 74.8 1.3 2.9E-05 36.1 0.8 51 56-106 49-115 (135)
38 PRK01265 heat shock protein Ht 74.0 6.6 0.00014 36.0 5.2 64 38-103 83-152 (324)
39 PTZ00337 surface protease GP63 73.0 2.5 5.4E-05 41.6 2.3 33 73-105 210-243 (567)
40 PF12315 DUF3633: Protein of u 72.8 2 4.3E-05 37.6 1.4 22 87-108 89-110 (212)
41 COG1164 Oligoendopeptidase F [ 71.0 21 0.00046 35.2 8.2 79 19-105 309-394 (598)
42 TIGR02411 leuko_A4_hydro leuko 70.9 11 0.00025 36.9 6.4 75 40-115 227-303 (601)
43 TIGR02412 pepN_strep_liv amino 70.5 11 0.00024 38.3 6.3 62 41-103 229-299 (831)
44 KOG3624 M13 family peptidase [ 66.6 3.7 8.1E-05 40.3 2.1 44 68-112 482-538 (687)
45 COG0501 HtpX Zn-dependent prot 64.4 5.6 0.00012 34.1 2.5 26 78-103 142-169 (302)
46 COG2856 Predicted Zn peptidase 63.9 8.4 0.00018 33.4 3.5 38 69-108 51-89 (213)
47 cd04268 ZnMc_MMP_like Zinc-dep 62.5 10 0.00022 29.7 3.5 32 74-105 70-108 (165)
48 COG0319 Predicted metal-depend 61.7 5 0.00011 33.2 1.6 37 71-107 78-126 (153)
49 PF01447 Peptidase_M4: Thermol 60.4 5.5 0.00012 32.5 1.7 12 92-103 136-147 (150)
50 PF13699 DUF4157: Domain of un 60.1 5.4 0.00012 29.2 1.4 65 43-107 6-77 (79)
51 PF01432 Peptidase_M3: Peptida 58.8 9.5 0.00021 35.3 3.1 31 78-109 221-260 (458)
52 PF01863 DUF45: Protein of unk 57.9 12 0.00025 30.6 3.2 51 49-103 124-176 (205)
53 COG3590 PepO Predicted metallo 57.7 2.8 6.1E-05 41.7 -0.6 65 45-112 430-507 (654)
54 TIGR02414 pepN_proteo aminopep 57.0 22 0.00048 36.7 5.6 62 41-103 223-295 (863)
55 PF15638 Tox-MPTase2: Metallop 56.1 8.1 0.00018 33.4 2.0 39 85-128 101-139 (194)
56 TIGR01477 RIFIN variant surfac 55.9 9.1 0.0002 35.8 2.5 57 23-79 89-161 (353)
57 PF02130 UPF0054: Uncharacteri 55.2 12 0.00027 30.1 2.9 31 76-106 83-125 (145)
58 PTZ00257 Glycoprotein GP63 (le 54.8 7.9 0.00017 38.7 2.0 33 73-105 235-270 (622)
59 PRK00016 metal-binding heat sh 54.7 6.2 0.00013 32.5 1.1 32 76-107 88-131 (159)
60 PRK13963 unkown domain/putativ 53.8 7.2 0.00016 35.1 1.4 32 75-106 189-232 (258)
61 PF01742 Peptidase_M27: Clostr 52.1 7.7 0.00017 36.9 1.4 14 93-106 216-229 (408)
62 COG1451 Predicted metal-depend 49.4 63 0.0014 28.0 6.5 57 46-106 132-190 (223)
63 PF00413 Peptidase_M10: Matrix 47.5 13 0.00029 28.6 1.9 18 86-103 100-117 (154)
64 PF11667 DUF3267: Protein of u 44.8 13 0.00027 28.2 1.3 16 94-109 7-22 (111)
65 KOG3854 SPRT-like metalloprote 44.6 15 0.00034 35.7 2.2 27 78-104 338-364 (505)
66 PF12388 Peptidase_M57: Dual-a 43.7 36 0.00079 29.7 4.1 38 78-121 120-158 (211)
67 PRK14015 pepN aminopeptidase N 43.3 52 0.0011 34.1 5.8 74 41-115 236-320 (875)
68 PF06167 Peptidase_M90: Glucos 43.2 15 0.00032 32.5 1.7 22 88-109 151-172 (253)
69 cd04279 ZnMc_MMP_like_1 Zinc-d 42.8 17 0.00037 28.6 1.9 17 88-104 101-117 (156)
70 cd06461 M2_ACE Peptidase famil 39.5 42 0.00092 32.3 4.3 82 77-167 236-330 (477)
71 PF02102 Peptidase_M35: Deuter 39.4 20 0.00044 33.5 2.1 48 56-103 248-309 (359)
72 KOG2983 Uncharacterized conser 39.3 17 0.00038 33.4 1.5 18 92-109 138-155 (334)
73 smart00235 ZnMc Zinc-dependent 39.3 15 0.00033 28.2 1.1 11 93-103 88-98 (140)
74 PHA00527 hypothetical protein 39.1 18 0.00039 29.0 1.4 20 93-112 75-95 (129)
75 cd00203 ZnMc Zinc-dependent me 38.3 29 0.00063 27.0 2.5 30 74-104 79-109 (167)
76 PF10460 Peptidase_M30: Peptid 36.9 25 0.00055 33.0 2.3 21 88-108 136-156 (366)
77 PF05299 Peptidase_M61: M61 gl 36.7 11 0.00025 29.9 -0.0 20 90-109 3-22 (122)
78 PF08014 DUF1704: Domain of un 35.6 1.3E+02 0.0028 27.9 6.7 70 39-109 114-184 (349)
79 PF13574 Reprolysin_2: Metallo 33.7 26 0.00057 28.6 1.7 16 91-106 111-126 (173)
80 cd04327 ZnMc_MMP_like_3 Zinc-d 31.9 31 0.00068 28.6 1.9 16 90-105 91-106 (198)
81 cd04278 ZnMc_MMP Zinc-dependen 31.7 24 0.00052 27.9 1.1 17 88-104 104-120 (157)
82 PF06505 XylR_N: Activator of 31.7 33 0.00071 26.5 1.8 37 72-109 8-47 (103)
83 cd04281 ZnMc_BMP1_TLD Zinc-dep 30.3 27 0.00058 29.8 1.2 25 93-117 89-122 (200)
84 PF15641 Tox-MPTase5: Metallop 30.3 46 0.001 25.9 2.4 36 72-107 45-80 (109)
85 PF13582 Reprolysin_3: Metallo 29.6 31 0.00068 25.7 1.4 12 93-104 109-120 (124)
86 PF05572 Peptidase_M43: Pregna 29.1 34 0.00073 27.8 1.6 18 87-104 65-82 (154)
87 PF13688 Reprolysin_5: Metallo 29.0 56 0.0012 26.4 2.9 20 86-105 137-156 (196)
88 KOG1047 Bifunctional leukotrie 28.4 1.4E+02 0.003 30.1 5.8 75 38-113 235-310 (613)
89 PF06262 DUF1025: Possibl zinc 27.6 55 0.0012 25.0 2.4 17 88-104 70-86 (97)
90 PF10023 DUF2265: Predicted am 27.1 40 0.00087 31.4 1.8 24 86-109 160-183 (337)
91 cd06258 Peptidase_M3_like The 26.3 1.1E+02 0.0023 27.4 4.3 27 23-49 35-63 (365)
92 KOG3714 Meprin A metalloprotea 26.0 32 0.0007 32.3 1.0 26 92-117 160-194 (411)
93 PTZ00046 rifin; Provisional 25.9 65 0.0014 30.3 3.0 57 23-79 86-157 (358)
94 COG0308 PepN Aminopeptidase N 25.3 41 0.00089 34.5 1.7 63 49-113 257-329 (859)
95 cd04270 ZnMc_TACE_like Zinc-de 25.1 76 0.0016 27.4 3.1 28 77-104 151-180 (244)
96 PLN02887 hydrolase family prot 24.9 35 0.00076 33.7 1.1 32 76-107 205-248 (580)
97 PRK15410 DgsA anti-repressor M 24.6 34 0.00075 30.6 0.9 37 71-107 119-158 (260)
98 PF07607 DUF1570: Protein of u 24.0 43 0.00092 26.9 1.3 15 93-107 3-17 (128)
99 PF01400 Astacin: Astacin (Pep 24.0 47 0.001 27.6 1.6 21 78-103 71-91 (191)
100 cd04283 ZnMc_hatching_enzyme Z 23.9 42 0.00092 28.2 1.3 26 92-117 78-112 (182)
101 COG3091 SprT Zn-dependent meta 23.6 65 0.0014 27.1 2.3 24 86-109 56-79 (156)
102 cd04280 ZnMc_astacin_like Zinc 23.5 40 0.00088 27.7 1.1 25 92-117 75-109 (180)
103 cd04267 ZnMc_ADAM_like Zinc-de 23.2 38 0.00083 27.4 0.9 17 88-104 130-146 (192)
104 cd04277 ZnMc_serralysin_like Z 23.2 52 0.0011 26.7 1.6 18 88-105 110-127 (186)
105 KOG2719 Metalloprotease [Gener 22.8 73 0.0016 30.7 2.8 37 74-110 258-299 (428)
106 cd04269 ZnMc_adamalysin_II_lik 22.7 1.3E+02 0.0029 24.3 4.0 31 74-104 114-144 (194)
107 COG0759 Uncharacterized conser 22.4 17 0.00036 28.0 -1.3 36 41-76 37-74 (92)
108 cd04282 ZnMc_meprin Zinc-depen 21.3 49 0.0011 29.0 1.2 25 92-117 121-155 (230)
109 cd06460 M32_Taq Peptidase fami 20.6 2.9E+02 0.0064 26.1 6.2 62 41-105 111-173 (396)
No 1
>KOG3314 consensus Ku70-binding protein [Replication, recombination and repair]
Probab=100.00 E-value=7.7e-86 Score=544.55 Aligned_cols=193 Identities=59% Similarity=1.110 Sum_probs=185.4
Q ss_pred CCCCCCCCCCCCCCCCcCCCCCChhhHHHHHHhHhc-CcHHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCCCCeE
Q 029293 1 MSEEPAPKSIPESSSSAVNGGRTIEECQDMIQRSLR-NPTVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEGIL 79 (195)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ce~~~~~~l~-sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~gIv 79 (195)
|+-.|+|.+ .++..|++++++.+.+|+.+++++|+ ||+||||+++|+++||.+++++|.|++|+++++|||.|+.|||
T Consensus 1 ~~~~~~p~~-~~e~npqar~~ks~~kCq~~~~~~l~~nP~Vkfl~~am~k~~c~~~d~~isc~~C~~~~~GGy~~~~gIv 79 (194)
T KOG3314|consen 1 MEDAAAPNS-GSEFNPQARRGKSIDKCQDMIRRSLRTNPIVKFLMEAMEKSGCRVGDNFISCVVCTGPVAGGYTPGRGIV 79 (194)
T ss_pred CCcccCccc-cccCCchhhhhhHHHHHHHHHHHHhccCcHHHHHHHHHHHcCCCccCCceEEeeCCCCccCCccCCCceE
Confidence 344555543 56677888899999999999999999 9999999999999999999999999999999999999999999
Q ss_pred EecCcCCCHHHHHHHHHHHHHHHhhhcccccCCccCchhhhhhhhhhhcccCCcchhHHHhhcccccccchhhHHhhHHH
Q 029293 80 VCSNHMNIQDEVNQVIIHELIHAYDECRAANLDWSNCAHHACSEIRAGHLSGDCHYKRELLRGYMKIRGHEQDCVRRRVM 159 (195)
Q Consensus 80 lC~N~~~~~~~~~~tL~HELIHayD~cR~knvDw~nc~H~ACSEIRAa~LSGdC~~~~E~~rg~~~~~~~~q~CVkrRA~ 159 (195)
||||+|+.|+||++|++||||||||+||++ |||.||+|||||||||++|||||+|++|++||+|+.++|||+||||||+
T Consensus 80 lCqN~l~~q~h~n~vv~HElIH~fDd~r~~-vDW~NlrH~ACSEIRAsslSGdC~~~~El~r~~~k~r~hhQeCVkrRat 158 (194)
T KOG3314|consen 80 LCQNRLTIQDHVNQVVIHELIHAFDDCRAK-VDWTNLRHHACSEIRASSLSGDCRFKRELLRGFIKLRGHHQECVKRRAT 158 (194)
T ss_pred EeccccchHHHHHHHHHHHHHHHHHhhhhh-cccchhhHHHHHHHHhhccCCcchHHHHHHhhhcccchhhHHHHHHhhe
Confidence 999999999999999999999999999999 9999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 029293 160 KSVIANPYCSAAAAKDAMEAVWDVCYNDTQPFDRAP 195 (195)
Q Consensus 160 ~Sv~~~p~C~~~~Ae~aVd~Vf~~C~~Dt~PFd~ip 195 (195)
+||.+||+|++++|+++||+||++|||||+|||+||
T Consensus 159 iSv~gnpncSke~Akk~veeV~dSCfnD~rPFdri~ 194 (194)
T KOG3314|consen 159 ISVRGNPNCSKEAAKKAVEEVWDSCFNDTRPFDRIP 194 (194)
T ss_pred eeeccCCCccHHHHHHHHHHHHHHHhccCCCcccCC
Confidence 999999999999999999999999999999999998
No 2
>PF09768 Peptidase_M76: Peptidase M76 family; InterPro: IPR019165 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 []. Mitochondrial inner membrane protease ATP23 has two roles in the assembly of mitochondrial ATPase. Firstly, it acts as a protease that removes the N-terminal 10 residues of mitochondrial ATPase CF(0) subunit 6 (ATP6) at the intermembrane space side. Secondly, it is involved in the correct assembly of the membrane-embedded ATPase CF(0) particle, probably mediating association of ATP6 with the subunit 9 ring [, ].; GO: 0004222 metalloendopeptidase activity
Probab=100.00 E-value=1.7e-80 Score=515.06 Aligned_cols=169 Identities=50% Similarity=1.001 Sum_probs=165.1
Q ss_pred hhhHHHHHHhHhc-CcHHHHHHHHHHHhCCC-CCCCCeEEEeCCCCCcccccC-CCCeEEecCcCCCHHHHHHHHHHHHH
Q 029293 24 IEECQDMIQRSLR-NPTVKFLRQHLEKAGCG-FGDKFIKAVHCDKKIAGGYVR-GEGILVCSNHMNIQDEVNQVIIHELI 100 (195)
Q Consensus 24 ~~~Ce~~~~~~l~-sP~Vkfm~~~l~~~Gc~-~~~~~i~c~~C~~~~~GGf~p-~~gIvlC~N~~~~~~~~~~tL~HELI 100 (195)
+++||++++++|+ ||+|+||+++|+++||+ +++++|+|++|++.++|||+| +.||+||+|+|+++++|++||+||||
T Consensus 1 ~~~Ce~~~~~~l~~sp~v~fl~~~~~~~gc~~~~~~~i~c~~C~~~~~Ggf~p~~~~I~lC~N~~~~~~~l~~~l~HELI 80 (173)
T PF09768_consen 1 CERCEKMVDKLLKYSPTVRFLMEALKKLGCPPVPPRHIKCEPCDSSVSGGFDPSKKGIVLCQNRIRSQGHLEDTLTHELI 80 (173)
T ss_pred CcHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCCCCeEEEECcCCCcCCccCCCCCEEEeeCCCCCHHHHHHHHHHHHH
Confidence 4789999999999 99999999999999999 779999999999999999999 78899999999999999999999999
Q ss_pred HHhhhcccccCCccCchhhhhhhhhhhcccCCcchhHHHhhcccc-cccchhhHHhhHHHHHHhhCCCCCHHHHHHHHHH
Q 029293 101 HAYDECRAANLDWSNCAHHACSEIRAGHLSGDCHYKRELLRGYMK-IRGHEQDCVRRRVMKSVIANPYCSAAAAKDAMEA 179 (195)
Q Consensus 101 HayD~cR~knvDw~nc~H~ACSEIRAa~LSGdC~~~~E~~rg~~~-~~~~~q~CVkrRA~~Sv~~~p~C~~~~Ae~aVd~ 179 (195)
|||||||++ |||+||+||||||||||||||||+|++|++||+++ |++|||+||||||++||.+||+|++++|+++||+
T Consensus 81 HayD~cr~k-vD~~n~~h~ACSEIRAa~LSG~C~~~~e~~r~~~~~~~~~~q~CVkrrA~~Sv~~~p~c~~~~A~~~V~~ 159 (173)
T PF09768_consen 81 HAYDHCRAK-VDWTNCRHHACSEIRAANLSGDCRFKQELLRGNFKKFKKQHQECVKRRAILSVEANPNCKDEEAERAVDK 159 (173)
T ss_pred HHHHHHhcc-CCcccchhHHHHHHHhhcCCCcchhHHHHHcccchhhhhchHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 999999999 99999999999999999999999999999999887 9999999999999999999999987899999999
Q ss_pred HHHHHhcCCCCCCC
Q 029293 180 VWDVCYNDTQPFDR 193 (195)
Q Consensus 180 Vf~~C~~Dt~PFd~ 193 (195)
||++||+||+|||+
T Consensus 160 Vf~~C~~Dt~PF~~ 173 (173)
T PF09768_consen 160 VFDSCYNDTRPFDR 173 (173)
T ss_pred HHHHHhccCCCCCC
Confidence 99999999999996
No 3
>PF10263 SprT-like: SprT-like family; InterPro: IPR006640 This is a family of uncharacterised bacterial proteins which includes Escherichia coli SprT (P39902 from SWISSPROT). SprT is described as a regulator of bolA gene in stationary phase []. The majority of members contain the metallopeptidase zinc binding signature which has a HExxH motif, however there is no evidence for them being metallopeptidases.
Probab=96.03 E-value=0.0039 Score=49.39 Aligned_cols=40 Identities=20% Similarity=0.269 Sum_probs=31.0
Q ss_pred CcccccCCCC----eEEecCcCCC--HHHHHHHHHHHHHHHhhhcc
Q 029293 68 IAGGYVRGEG----ILVCSNHMNI--QDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 68 ~~GGf~p~~g----IvlC~N~~~~--~~~~~~tL~HELIHayD~cR 107 (195)
.+|-|.+..+ |.|=...+.. ...+.+||.|||+|+|-+..
T Consensus 31 ~~G~~~~~~~~~~~I~ls~~~~~~~~~~~~~~tL~HEm~H~~~~~~ 76 (157)
T PF10263_consen 31 TAGRCRYKRRSPCEIRLSPKLLDRNPEEELIDTLLHEMAHAAAYVF 76 (157)
T ss_pred ceEEEEECCCCceEEEECHHHHHhhHHHHHHHHHHHHHHHHHhhhc
Confidence 4555655544 7777666655 88999999999999999877
No 4
>PF14891 Peptidase_M91: Effector protein
Probab=95.50 E-value=0.0068 Score=49.93 Aligned_cols=45 Identities=33% Similarity=0.341 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhhhcccccC-Cc-----cCchhhhhhhhhhhcccC-Ccc
Q 029293 89 DEVNQVIIHELIHAYDECRAANL-DW-----SNCAHHACSEIRAGHLSG-DCH 134 (195)
Q Consensus 89 ~~~~~tL~HELIHayD~cR~knv-Dw-----~nc~H~ACSEIRAa~LSG-dC~ 134 (195)
..---+|.||||||||+.... . += ..-.-..=.|.||--|.. +..
T Consensus 101 ~~p~v~L~HEL~HA~~~~~Gt-~~~~~~~d~~~~~~~~~~E~~avGL~~y~~~ 152 (174)
T PF14891_consen 101 RPPFVVLYHELIHAYDYMNGT-MGDDRYGDNDPDSGVGNEELRAVGLPKYDHD 152 (174)
T ss_pred HHHHHHHHHHHHHHHHHHCCC-CCCCCCCCCCcCCcCchhhhhhcCCCCCCcc
Confidence 334578999999999999988 4 10 011122235888888854 444
No 5
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=95.30 E-value=0.022 Score=41.70 Aligned_cols=39 Identities=28% Similarity=0.334 Sum_probs=29.2
Q ss_pred ccc-cCCCC-eEEecCcCCCHHHHHHHHHHHHHHHhhhcccc
Q 029293 70 GGY-VRGEG-ILVCSNHMNIQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 70 GGf-~p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD~cR~k 109 (195)
||+ .|..+ |++.. ...+...+..+|+|||+|++=.-...
T Consensus 3 ~G~~~~~~~~i~~~~-~~~~~~~~~~~l~HE~~H~~~~~~~~ 43 (128)
T PF13485_consen 3 GGVYYPGFNRIVVYF-QGSDEDWLDRVLAHELAHQWFGNYFG 43 (128)
T ss_pred eEEEecCCCEEEEec-CCCCHHHHHHHHHHHHHHHHHHHHcC
Confidence 554 56666 55433 66788888999999999999776665
No 6
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=93.98 E-value=0.1 Score=41.70 Aligned_cols=58 Identities=17% Similarity=0.124 Sum_probs=36.8
Q ss_pred hCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecCcCC--CHHHHHHHHHHHHHHHhhhcc
Q 029293 50 AGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSNHMN--IQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 50 ~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~~--~~~~~~~tL~HELIHayD~cR 107 (195)
.+..++...|....=-....|.|.+..+ |.|=..-+. ....+.+||.|||+|++-+..
T Consensus 15 F~~~l~~~~i~w~~r~~~~~G~~~~~~~~I~ln~~l~~~~~~~~l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 15 FGRKLPHPKVVWNKRLRKTGGRCLLKSAEIRLNPKLLTENGRDRLRETLLHELCHAALYLF 75 (146)
T ss_pred HCCCCCCCEEEEehhhhhhhHHhhcCCCEEEeCHHHHhhccHHHHHhhHHHHHHHHHHHHh
Confidence 4556665455544311123455776444 766544444 568899999999999998864
No 7
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=93.93 E-value=0.077 Score=42.42 Aligned_cols=50 Identities=30% Similarity=0.511 Sum_probs=38.0
Q ss_pred CCCeEEEeCCCC---------------Cccc-ccCCCC-eEEecCcCCCHHHHHHHHHHHHHHHhhhcc
Q 029293 56 DKFIKAVHCDKK---------------IAGG-YVRGEG-ILVCSNHMNIQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 56 ~~~i~c~~C~~~---------------~~GG-f~p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD~cR 107 (195)
-+.|-|..|+.. -.|| |.-+.+ |+|| .+-....+-.||.||+-|++-|-+
T Consensus 26 ~pviFcdTc~an~vl~~LgeeeeefLf~~~g~y~kek~~iFv~--~we~y~qvlktllhefrh~mQh~~ 92 (126)
T PF13058_consen 26 IPVIFCDTCDANKVLLSLGEEEEEFLFPAGGFYHKEKQLIFVC--MWEEYEQVLKTLLHEFRHAMQHEK 92 (126)
T ss_pred CCeEEecccchhHHHHHhccchhhhccccchhhhccccEEEEE--ehHHHHHHHHHHHHHHHHHHHhhh
Confidence 557999999872 2455 455666 9999 355677899999999999998654
No 8
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=93.89 E-value=0.19 Score=43.71 Aligned_cols=73 Identities=19% Similarity=0.234 Sum_probs=46.4
Q ss_pred HHHHhHhc-CcHHHHHHHHHHHhCCCCC-CCCeEEEeCCCCCcccccCCCC-eEEecCcCCC------------------
Q 029293 29 DMIQRSLR-NPTVKFLRQHLEKAGCGFG-DKFIKAVHCDKKIAGGYVRGEG-ILVCSNHMNI------------------ 87 (195)
Q Consensus 29 ~~~~~~l~-sP~Vkfm~~~l~~~Gc~~~-~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~~~------------------ 87 (195)
+.+...|+ |....-+++.|-.. -+++ +-.|+...| +....-|+|+.. |.||..-+..
T Consensus 10 ~~~~~~L~~s~vlE~~~~~in~~-f~LP~~l~i~~~~C-Ge~nA~ydPe~~~I~iCYEf~~~~~~~f~~~~~~~~~~~~~ 87 (220)
T PF14247_consen 10 QQIYQLLQESRVLEDVADLINDY-FPLPRDLTIRFAEC-GEDNAFYDPENRSITICYEFVDEILDRFAKANDPDEEYGQA 87 (220)
T ss_pred HHHHHHHHHcchHHHHHHHHhhc-CCCCCCeEEEEeec-CCCCCccCCCCCEEEECHHHHHHHHHHHHhCCcCcchHHHH
Confidence 45666777 77765555554443 3333 445666669 444556899877 9999432211
Q ss_pred -HHHHHHHHHHHHHHHh
Q 029293 88 -QDEVNQVIIHELIHAY 103 (195)
Q Consensus 88 -~~~~~~tL~HELIHay 103 (195)
.+.+..||-||+-||+
T Consensus 88 ~~~~~~~~l~HE~GHAl 104 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHAL 104 (220)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 3456778999999997
No 9
>TIGR02290 M3_fam_3 oligoendopeptidase, pepF/M3 family. The M3 family of metallopeptidases contains several distinct clades. Oligoendopeptidase F as characterized in Lactococcus, the functionally equivalent oligoendopeptidase B of group B Streptococcus, and closely related sequences are described by TIGR00181. The present family is quite similar but forms a distinct clade, and a number of species have one member of each. A greater sequence difference separates members of TIGR02289, probable oligoendopeptidases of the M3 family that probably should not be designated PepF.
Probab=93.38 E-value=0.37 Score=46.36 Aligned_cols=79 Identities=20% Similarity=0.325 Sum_probs=57.8
Q ss_pred CCCCChhhHHHHHHhHhc--CcHHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCC----C-CeEEecCcCCCHHHH
Q 029293 19 NGGRTIEECQDMIQRSLR--NPTVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRG----E-GILVCSNHMNIQDEV 91 (195)
Q Consensus 19 ~~~~~~~~Ce~~~~~~l~--sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~----~-gIvlC~N~~~~~~~~ 91 (195)
....+.++..+.+..+|+ +|.+.-+.+.+..- +.|...+.++..+|||... . -.++| |.-.+...|
T Consensus 304 ~~~~~~e~a~~~v~~~~~~l~~e~~~~~~~~~~~------~~iD~~~r~gK~~Ga~~~~~~~~~~p~i~~-N~~~~~~~v 376 (587)
T TIGR02290 304 AKTYTFDEAKELVLEAFGKFSPEMADFAEKAFEE------GWIDAEPRPGKRGGAFCTGFPPSKEPRVLM-NYDGSRRDV 376 (587)
T ss_pred CCeecHHHHHHHHHHHHHhcCHHHHHHHHHHHHc------CCcccCCCCCCCCCcccCCCCCCCCCEEEE-ecCCCchhH
Confidence 345678889999999998 88887777776544 4678888888889999522 1 25666 655555555
Q ss_pred HHHHHHHHHHHhhh
Q 029293 92 NQVIIHELIHAYDE 105 (195)
Q Consensus 92 ~~tL~HELIHayD~ 105 (195)
.||+|||=||+=+
T Consensus 377 -~TL~HE~GHa~H~ 389 (587)
T TIGR02290 377 -STLAHELGHAYHS 389 (587)
T ss_pred -HHHHHHhhHHHHH
Confidence 6899999988844
No 10
>KOG3931 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.34 E-value=0.057 Score=50.70 Aligned_cols=26 Identities=23% Similarity=0.470 Sum_probs=21.4
Q ss_pred cCCCHHHHHHHHHHHHHHHhhhcccc
Q 029293 84 HMNIQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 84 ~~~~~~~~~~tL~HELIHayD~cR~k 109 (195)
.++-+.+|-+||.|||||||=+-...
T Consensus 98 kLRPRkDLVETLLHEMIHAYlFV~n~ 123 (484)
T KOG3931|consen 98 KLRPRKDLVETLLHEMIHAYLFVTNN 123 (484)
T ss_pred ccCchHHHHHHHHHHHHHHheeEecc
Confidence 34778999999999999999766544
No 11
>PF15640 Tox-MPTase4: Metallopeptidase toxin 4
Probab=93.16 E-value=0.13 Score=41.77 Aligned_cols=60 Identities=22% Similarity=0.257 Sum_probs=42.8
Q ss_pred cHHHHHHHHHHHhCCCCC---CCCeEEEeCCCCCcccccCCCC-eEEecCcCCCHHHHHHHHHHHHHHHhhhcc
Q 029293 38 PTVKFLRQHLEKAGCGFG---DKFIKAVHCDKKIAGGYVRGEG-ILVCSNHMNIQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 38 P~Vkfm~~~l~~~Gc~~~---~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD~cR 107 (195)
-.++.+.+.|.+.|..|. .+.|. +...+|||+|..| |+|=-|- -.--+.||-+||=....
T Consensus 22 ~d~k~~kk~m~~~gIkV~Idkk~kil----P~n~aagFd~~tg~I~lr~~p------t~~~~~HE~~Ha~Qw~~ 85 (132)
T PF15640_consen 22 KDIKNFKKEMGKRGIKVKIDKKDKIL----PENKAAGFDPETGEIYLRKNP------TLISALHESYHAKQWLK 85 (132)
T ss_pred HHHHHHHHHHHhCCcEEEECCccCCC----CccccccCCCCCCcEEEcCCc------hHHHHHHHHHHHHHHHH
Confidence 346778899999998863 22344 6778999999999 7663331 22357899999976655
No 12
>TIGR02289 M3_not_pepF oligoendopeptidase, M3 family. This family consists of probable oligoendopeptidases in the M3 family, related to lactococcal PepF and group B streptococcal PepB (TIGR00181) but in a distinct clade with considerable sequence differences. The likely substrate is small peptides and not whole proteins, as with PepF, but members are not characterized and the activity profile may differ. Several bacteria have both a member of this family and a member of the PepF family.
Probab=92.34 E-value=0.69 Score=44.33 Aligned_cols=79 Identities=15% Similarity=0.217 Sum_probs=57.1
Q ss_pred CCChhhHHHHHHhHhc--CcHHHHHHHHHHHhCCCCCCCCeEEEeCCCCCccccc---CCC-CeEEecCcCCCHHHHHHH
Q 029293 21 GRTIEECQDMIQRSLR--NPTVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYV---RGE-GILVCSNHMNIQDEVNQV 94 (195)
Q Consensus 21 ~~~~~~Ce~~~~~~l~--sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~---p~~-gIvlC~N~~~~~~~~~~t 94 (195)
..+.+.+.+.+..+++ +|...-+.+.+.. ...|.-.+=++..+|||. |.. .-.|..|.-.+...| .|
T Consensus 268 ~~~~e~~~~~~~~~~~~l~~~~~e~~~~~~~------~~~iD~~~r~gK~~Gayc~~~~~~~~P~I~~Nf~~t~~dv-~T 340 (549)
T TIGR02289 268 FGNVDFLLEKAEKMYKELSLEFYEFFNFMRE------KNLLDLESRKGKAAGGYCTYLPKYKAPFIFSNFNGTSGDI-DV 340 (549)
T ss_pred CCCHHHHHHHHHHHhcCCCcHHHHHHHHHHh------cCccccCCCCCCCCCcccCCCCCCCCcEEEEeCCCChhHH-HH
Confidence 3677788888999888 8887766655443 346777777888899994 222 245556877777777 68
Q ss_pred HHHHHHHHhhhc
Q 029293 95 IIHELIHAYDEC 106 (195)
Q Consensus 95 L~HELIHayD~c 106 (195)
|+|||=||+=.-
T Consensus 341 L~HElGHa~H~~ 352 (549)
T TIGR02289 341 LTHEAGHAFHVY 352 (549)
T ss_pred HHHHhhHHHHHH
Confidence 999999999543
No 13
>TIGR00181 pepF oligoendopeptidase F. This family represents the oligoendopeptidase F clade of the family of larger M3 or thimet (for thiol-dependent metallopeptidase) oligopeptidase family. Lactococcus lactis PepF hydrolyzed peptides of 7 and 17 amino acids with fairly broad specificity. The homolog of lactococcal PepF in group B Streptococcus was named PepB (PubMed:8757883), with the name difference reflecting a difference in species of origin rather activity; substrate profiles were quite similar. Differences in substrate specificity should be expected in other species. The gene is duplicated in Lactococcus lactis on the plasmid that bears it. A shortened second copy is found in Bacillus subtilis.
Probab=92.14 E-value=0.74 Score=44.21 Aligned_cols=78 Identities=21% Similarity=0.294 Sum_probs=54.3
Q ss_pred CCCChhhHHHHHHhHhc--CcHHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCC----CCeEEecCcCCCHHHHHH
Q 029293 20 GGRTIEECQDMIQRSLR--NPTVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRG----EGILVCSNHMNIQDEVNQ 93 (195)
Q Consensus 20 ~~~~~~~Ce~~~~~~l~--sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~----~gIvlC~N~~~~~~~~~~ 93 (195)
...+.++..+.+-..|+ +|...-+++..- ..+-|.-.+-++..+|||... ...||+ |.-.+...| .
T Consensus 309 ~~~~~~~a~~~v~~~~~~~g~~~~~~~~~~~------~~~wiD~~~r~gK~~Ga~~~~~~~~~p~il~-N~~~~~~dv-~ 380 (591)
T TIGR00181 309 PKFSIEEAKELILKSLEPLGEEYIKILKRAF------NERWVDYAENKGKRSGAYSIGGYKVKPYILM-NWDGTLNSV-F 380 (591)
T ss_pred CcccHHHHHHHHHHHHhccCHHHHHHHHHHh------hCCCeeecCCCCCCCCcccCCCCCCCCeEEE-ecCCCcchH-H
Confidence 35778888888888887 777766543322 235888889999999999532 223333 665555555 6
Q ss_pred HHHHHHHHHhhh
Q 029293 94 VIIHELIHAYDE 105 (195)
Q Consensus 94 tL~HELIHayD~ 105 (195)
||+|||=||+=.
T Consensus 381 TLaHElGHa~H~ 392 (591)
T TIGR00181 381 TLAHELGHSMHS 392 (591)
T ss_pred HHHHHhhhHHHH
Confidence 999999999854
No 14
>PRK04897 heat shock protein HtpX; Provisional
Probab=90.15 E-value=0.68 Score=41.31 Aligned_cols=65 Identities=15% Similarity=0.182 Sum_probs=42.5
Q ss_pred CcHHHHHHHHHHH-hCCCCCCCCeEEEeCCC--CCcccccCCCCeEEecC---cCCCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLEK-AGCGFGDKFIKAVHCDK--KIAGGYVRGEGILVCSN---HMNIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~--~~~GGf~p~~gIvlC~N---~~~~~~~~~~tL~HELIHay 103 (195)
.|.+.-+++.|.+ +|-|++ .+...+=+. .-+-|+.|.+++++-.. ..-++++++.+|+|||-|..
T Consensus 79 ~p~L~~~v~~la~~~gip~p--~v~v~~~~~~NAfa~G~~~~~~~v~vt~gLl~~l~~~El~aVlAHElgHi~ 149 (298)
T PRK04897 79 APELWHIVEDMAMVAQIPMP--RVFIIDDPSPNAFATGSSPKNAAVAVTTGLLAIMNREELEGVIGHEISHIR 149 (298)
T ss_pred hHHHHHHHHHHHHHcCCCCC--cEEEecCCCCceEEeccCCCCcEEEeehHHHhhCCHHHHHHHHHHHHHHHh
Confidence 5667777777765 676643 344444222 13456677777666554 22378999999999999975
No 15
>PRK02391 heat shock protein HtpX; Provisional
Probab=89.43 E-value=1.1 Score=40.24 Aligned_cols=65 Identities=20% Similarity=0.237 Sum_probs=41.6
Q ss_pred CcHHHHHHHHHHH-hCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecCcC---CCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLEK-AGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSNHM---NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N~~---~~~~~~~~tL~HELIHay 103 (195)
+|.+.-+++.|-+ .|-+.+ .+....=+.. -+-|+.+..++++-...+ -+.++++.+|+|||-|..
T Consensus 75 ~p~L~~~v~~la~~~~~~~p--~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L~~~El~aVlaHElgHi~ 145 (296)
T PRK02391 75 YPELHAMVERLCALADLPKP--RVAVADSDVPNAFATGRSPKNAVVCVTTGLMRRLDPDELEAVLAHELSHVK 145 (296)
T ss_pred CHHHHHHHHHHHHHcCCCCC--cEEEEeCCCCceEEecCCCCCcEEEecHHHHhhCCHHHHHHHHHHHHHHHH
Confidence 5666667666655 666643 3444442211 245666777766664422 478999999999999974
No 16
>PRK03982 heat shock protein HtpX; Provisional
Probab=89.31 E-value=0.84 Score=40.32 Aligned_cols=65 Identities=22% Similarity=0.249 Sum_probs=41.4
Q ss_pred CcHHHHHHHHHHH-hCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecCcC---CCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLEK-AGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSNHM---NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N~~---~~~~~~~~tL~HELIHay 103 (195)
+|.++-+++.|.+ .|-+.+ .+...+=+.. -+-|+.|..++|+-...+ -++++++.+|+|||-|.-
T Consensus 67 ~p~L~~~v~~la~~~g~~~p--~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~l~~~El~AVlAHElgHi~ 137 (288)
T PRK03982 67 APELYRIVERLAERANIPKP--KVAIVPTQTPNAFATGRDPKHAVVAVTEGILNLLNEDELEGVIAHELTHIK 137 (288)
T ss_pred hHHHHHHHHHHHHHcCCCCC--eEEEEeCCCcceEEeccCCCCeEEEeehHHHhhCCHHHHHHHHHHHHHHHH
Confidence 4556666666654 665543 4555543221 255677777765444433 379999999999999974
No 17
>PRK04860 hypothetical protein; Provisional
Probab=89.08 E-value=0.91 Score=37.65 Aligned_cols=67 Identities=19% Similarity=0.061 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecCcC--CCHHHHHHHHHHHHHHHhhhcc
Q 029293 40 VKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSNHM--NIQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 40 Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~--~~~~~~~~tL~HELIHayD~cR 107 (195)
-..+..+.+..|.++....+....=-. .+|-|....+ |-+.-..+ .++..+.+||.|||.|..-|..
T Consensus 10 ~~~~~~a~~~f~~~f~~p~~~f~~R~r-taG~~~l~~~~I~~Np~ll~~~~~~~l~~~v~HEl~H~~~~~~ 79 (160)
T PRK04860 10 RECLAQANLYFKRTFPEPKVSYTQRGT-SAGTAWLQSNEIRLNPVLLLENQQAFIDEVVPHELAHLLVYQL 79 (160)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEeecch-hhcchhHhcCCeeeCHHHHhhCcHHHHHhHHHHHHHHHHHHHH
Confidence 367788888899998876666665322 2444554433 66653332 4688899999999999988866
No 18
>PF14521 Aspzincin_M35: Lysine-specific metallo-endopeptidase ; PDB: 2X3C_A 2X3A_A 2X3B_A 1GE7_B 1GE6_A 1GE5_A 1G12_A.
Probab=89.01 E-value=0.2 Score=40.45 Aligned_cols=71 Identities=14% Similarity=0.181 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhCCCCC----CCCeEEEeCCC---CCcccccCCC---CeEEecCcC----CCHHHHHHHHHHHHHHHhh
Q 029293 39 TVKFLRQHLEKAGCGFG----DKFIKAVHCDK---KIAGGYVRGE---GILVCSNHM----NIQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 39 ~Vkfm~~~l~~~Gc~~~----~~~i~c~~C~~---~~~GGf~p~~---gIvlC~N~~----~~~~~~~~tL~HELIHayD 104 (195)
.+..+++.+++..-.+. .-.+.|.+|.. .......|.. -|.||..-. .....-+.||.|||.|-.+
T Consensus 30 r~~~v~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~a~~~~~~~~~~IyLc~~F~~~p~~g~~Sk~~TLiHE~SHf~~ 109 (148)
T PF14521_consen 30 RYNTVKDVYKKINDGLSSNNVTYTYNCSPCKDCGNNTYAYVYPDSPTYTIYLCPAFFSAPTTGKDSKEGTLIHEWSHFTA 109 (148)
T ss_dssp HHHHHHHHHHHHHCCHHHCE--CEEE--------SSSSEEE-TTST-TEEEE-HHHHHS-SSSTT-HHHHHHHHHHHSCC
T ss_pred HHHHHHHHHHHHhccccCCceEEEECCCCCcccccceEEEEECCCCceEEEEChhhcCCCCCCCCchHHHHHHhhhhhhh
Confidence 35566666766554443 25677877874 3334444543 399998644 3446679999999999666
Q ss_pred hcccc
Q 029293 105 ECRAA 109 (195)
Q Consensus 105 ~cR~k 109 (195)
....+
T Consensus 110 ~~~T~ 114 (148)
T PF14521_consen 110 VGGTD 114 (148)
T ss_dssp CT--B
T ss_pred hcCCC
Confidence 66665
No 19
>PRK01345 heat shock protein HtpX; Provisional
Probab=88.79 E-value=1.1 Score=40.61 Aligned_cols=65 Identities=20% Similarity=0.277 Sum_probs=42.6
Q ss_pred CcHHHHHHHHHHH-hCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecCcC---CCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLEK-AGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSNHM---NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N~~---~~~~~~~~tL~HELIHay 103 (195)
+|.+.-+++.|-+ +|-+. ..+...+-+.. -+-|+.|..++|+-...+ -+.++++-+|+|||-|..
T Consensus 66 ~p~L~~~v~~La~~agi~~--p~v~vid~~~~NAFa~G~~~~~~~V~vt~gLL~~L~~dEL~aVlAHElgHi~ 136 (317)
T PRK01345 66 APELYRMVRDLARRAGLPM--PKVYIIDNPQPNAFATGRNPENAAVAATTGLLQRLSPEEVAGVMAHELAHVK 136 (317)
T ss_pred CHHHHHHHHHHHHHcCCCC--CcEEEEcCCCcceEEecCCCCCeEEEechHHHhhCCHHHHHHHHHHHHHHHH
Confidence 5677777777755 77764 34555553322 344566666665555322 378999999999999975
No 20
>cd06459 M3B_Oligoendopeptidase_F Peptidase family M3B Oligopeptidase F (PepF; Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and includes oligoendopeptidase F from Lactococcus lactis. This enzyme hydrolyzes peptides containing between 7 and 17 amino acids with fairly broad specificity. The PepF gene is duplicated in L. lactis on the plasmid that bears it, while a shortened second copy is found in Bacillus subtilis. Most bacterial PepFs are cytoplasmic endopeptidases; however, the PepF Bacillus amyloliquefaciens oligopeptidase is a secreted protein and may facilitate the process of sporulation. Specifically, the yjbG gene encoding the homolog of the PepF1 and PepF2 oligoendopeptidases of Lactococcus lactis has been identified in Bacillus subtilis as an inhibitor of sporulation initiation when over expressed from a multicopy plasmid.
Probab=88.55 E-value=2 Score=38.76 Aligned_cols=78 Identities=23% Similarity=0.369 Sum_probs=52.3
Q ss_pred CCChhhHHHHHHhHhc--CcHHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCC----CCeEEecCcCCCHHHHHHH
Q 029293 21 GRTIEECQDMIQRSLR--NPTVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRG----EGILVCSNHMNIQDEVNQV 94 (195)
Q Consensus 21 ~~~~~~Ce~~~~~~l~--sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~----~gIvlC~N~~~~~~~~~~t 94 (195)
..+.++..+.+..+++ +|.+.-+.+.+.. ...|.-.+=++...|||... ....|..|.-.+...+ .|
T Consensus 153 ~~~~~~~~~~v~~~~~~l~~~~~~~~~~~~~------~~~iD~~~r~gK~~gaf~~~~~~~~~p~i~~n~~~~~~~v-~t 225 (427)
T cd06459 153 KYTYEEAKELVLEALSPLGPEYAEFAKRAFE------ERWIDVEPRKGKRSGAYCTGLPPGKHPFILMNFNGTLDDV-FT 225 (427)
T ss_pred cCcHHHHHHHHHHHHHccCHHHHHHHHHHhh------CCCeeccCCCCCCCCeecCCCCCCCCCeEEecCCCChhhH-HH
Confidence 4667778888888887 7765555444333 44666677777788888533 2256666766666664 68
Q ss_pred HHHHHHHHhhh
Q 029293 95 IIHELIHAYDE 105 (195)
Q Consensus 95 L~HELIHayD~ 105 (195)
|+|||=||+=.
T Consensus 226 l~HE~GHa~h~ 236 (427)
T cd06459 226 LAHELGHAFHS 236 (427)
T ss_pred HHHHhhHHHHH
Confidence 99999997533
No 21
>PRK03001 M48 family peptidase; Provisional
Probab=88.51 E-value=1 Score=39.74 Aligned_cols=65 Identities=20% Similarity=0.276 Sum_probs=42.7
Q ss_pred CcHHHHHHHHHH-HhCCCCCCCCeEEEeCCC--CCcccccCCCC-eEEecCcC--CCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLE-KAGCGFGDKFIKAVHCDK--KIAGGYVRGEG-ILVCSNHM--NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~-~~Gc~~~~~~i~c~~C~~--~~~GGf~p~~g-IvlC~N~~--~~~~~~~~tL~HELIHay 103 (195)
+|.++-+++.|. +.|-+++ .+...+=+. .-+.|+.|..+ |+|=..-+ -+.++++-+|+|||-|.-
T Consensus 66 ~p~L~~~v~~la~~~g~~~p--~v~v~~~~~~NAfa~G~~~~~~~Ivvt~gLl~~l~~~El~aVlAHElgHi~ 136 (283)
T PRK03001 66 APQFYRMVRELAQRAGLPMP--KVYLINEDQPNAFATGRNPEHAAVAATTGILRVLSEREIRGVMAHELAHVK 136 (283)
T ss_pred cHHHHHHHHHHHHHcCCCCC--eEEEecCCCcceEEecCCCCCeEEEecHHHHhhCCHHHHHHHHHHHHHHHh
Confidence 477888888887 4776653 344443322 23456666666 55544433 379999999999999975
No 22
>PRK05457 heat shock protein HtpX; Provisional
Probab=88.15 E-value=1.3 Score=39.47 Aligned_cols=60 Identities=23% Similarity=0.286 Sum_probs=36.3
Q ss_pred HHHHHH-HHhCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecC---cCCCHHHHHHHHHHHHHHHh
Q 029293 42 FLRQHL-EKAGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSN---HMNIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 42 fm~~~l-~~~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N---~~~~~~~~~~tL~HELIHay 103 (195)
-+++.| ++.|-| .+.+...+.+.. -+-|+.+..++++-.. ..-++++++.+|+|||-|.-
T Consensus 81 ~~v~~la~~~g~p--~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L~~~El~aVlAHElgHi~ 146 (284)
T PRK05457 81 ETVARQARQAGIG--MPEVAIYHSPEINAFATGASKNNSLVAVSTGLLQNMSRDEVEAVLAHEISHIA 146 (284)
T ss_pred HHHHHHHHhCCCC--CCCEEEEeCCCceEEEecCCCCCeEEEeehHHhhhCCHHHHHHHHHHHHHHHH
Confidence 344444 447766 334555554332 2345666666444433 22488999999999999973
No 23
>PRK02870 heat shock protein HtpX; Provisional
Probab=87.13 E-value=1.3 Score=40.73 Aligned_cols=65 Identities=22% Similarity=0.302 Sum_probs=39.7
Q ss_pred CcHHHHHHHHH-HHhCCCCCCCCeEEEeCCC--CCcccccCCCCeEEecCcC---CCHHHHHHHHHHHHHHH
Q 029293 37 NPTVKFLRQHL-EKAGCGFGDKFIKAVHCDK--KIAGGYVRGEGILVCSNHM---NIQDEVNQVIIHELIHA 102 (195)
Q Consensus 37 sP~Vkfm~~~l-~~~Gc~~~~~~i~c~~C~~--~~~GGf~p~~gIvlC~N~~---~~~~~~~~tL~HELIHa 102 (195)
.|.++-+++.| +++|.|.. ..+...+=+. .-+-|+.|+.+.++....+ -+.++++.+|+|||-|.
T Consensus 114 ~~~L~~~ve~La~~ag~p~~-p~V~vi~~~~~NAFA~G~~~~~~~Ivvt~GLL~~L~~dEL~aVlAHELgHi 184 (336)
T PRK02870 114 ERQLYNVVEELLVAAGLRFM-PKVYIIDAPYMNAFASGYSEKSAMVAITTGLLEKLDRDELQAVMAHELSHI 184 (336)
T ss_pred hHHHHHHHHHHHHHcCCCCC-CeEEEEcCCCCceEEecCCCCCcEEEEehHHhhhCCHHHHHHHHHHHHHHH
Confidence 34566677777 44776522 2344433222 2344677776644443322 37899999999999998
No 24
>PRK04351 hypothetical protein; Provisional
Probab=86.34 E-value=1.6 Score=35.70 Aligned_cols=65 Identities=20% Similarity=0.181 Sum_probs=38.2
Q ss_pred HHHHHHHHH--hCCCCCCCCeEEEeCCCCCccc-ccCCCC-eEEecCcCCC--HHHHHHHHHHHHHHHhhhcc
Q 029293 41 KFLRQHLEK--AGCGFGDKFIKAVHCDKKIAGG-YVRGEG-ILVCSNHMNI--QDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 41 kfm~~~l~~--~Gc~~~~~~i~c~~C~~~~~GG-f~p~~g-IvlC~N~~~~--~~~~~~tL~HELIHayD~cR 107 (195)
+-|.+.+.. .|.+++. .+..-.=- ..+|| |..... |-|=..-+.. +..+.+||.|||.|+.-|..
T Consensus 7 ~~l~~~~s~~~F~~~f~~-~v~~n~Rl-rttgG~~~l~~~~I~lnp~ll~~~~~~~l~~vv~HElcH~~~~~~ 77 (149)
T PRK04351 7 QRLVEEISLEYFGKPFRH-QAYFNKRL-RTTGGRYLLKDHHIEFNPKMLEEYGLEELIGIIKHELCHYHLHLE 77 (149)
T ss_pred HHHHHHHHHHHhCCCCCc-EEEEeccc-hhhhheeecCCCeEEeCHHHHhhccHHHHHhhHHHHHHHHHHHHH
Confidence 344555544 5556552 33332211 23455 545544 6665444444 78899999999999987765
No 25
>TIGR00043 metalloprotein, YbeY/UPF0054 family. This minimally protein family is represented by a single member sequence only in nearly every bacterium. Crystallography demonstrates metal-binding activity, possibly to nickel. It is a predicted to be a metallohydrolase, and somewhat more weakly to be a metalloproteinase.
Probab=85.51 E-value=1.5 Score=34.03 Aligned_cols=59 Identities=15% Similarity=0.284 Sum_probs=41.2
Q ss_pred hCCCCCCCCeEEEeCCCCCcccccC-CCC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhccc
Q 029293 50 AGCGFGDKFIKAVHCDKKIAGGYVR-GEG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDECRA 108 (195)
Q Consensus 50 ~Gc~~~~~~i~c~~C~~~~~GGf~p-~~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~cR~ 108 (195)
.|.+-+.+.+.....+....+++.+ ..| |+||-..+.. +.++..+++|-+-|. |||-.-
T Consensus 21 r~~d~~TDVLSF~~~~~~~~~~~~~~~lGdI~Is~~~~~~qa~~~~~~~~~e~~~l~iHG~LHLlGyDH~~~ 92 (110)
T TIGR00043 21 RDKDYPTDVLSFPYEEEEPPDGFPEEVLGDIVISLEVAKEQAKEYGHSLERELAHLTVHGLLHLLGYDHETE 92 (110)
T ss_pred hCCCCCCceEeecccCCcccccCCCCcceeEEEcHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHcCCCCCCh
Confidence 4566667888887654432344544 367 9999887754 457889999999997 788543
No 26
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=85.23 E-value=0.57 Score=40.21 Aligned_cols=35 Identities=23% Similarity=0.449 Sum_probs=25.6
Q ss_pred cccccCCCC-eEEecCcCCC-------HHHHHHHHHHHHHHHhh
Q 029293 69 AGGYVRGEG-ILVCSNHMNI-------QDEVNQVIIHELIHAYD 104 (195)
Q Consensus 69 ~GGf~p~~g-IvlC~N~~~~-------~~~~~~tL~HELIHayD 104 (195)
.+| ++..+ |-+=.++|.. +.++..+|.|||+|+|=
T Consensus 67 t~g-d~~~~~I~~S~~~i~~~~~~~~~~~Ei~Gvl~HE~~H~~Q 109 (205)
T PF04450_consen 67 TSG-DDDHKEIHFSARYIAKYPADGDVRDEIIGVLYHEMVHCWQ 109 (205)
T ss_pred Eec-CCCccEEEEeHHHHhhcccccchHHHHHHHHHHHHHHHhh
Confidence 344 55555 8777666644 35899999999999984
No 27
>PRK03072 heat shock protein HtpX; Provisional
Probab=84.58 E-value=2.1 Score=38.10 Aligned_cols=65 Identities=20% Similarity=0.261 Sum_probs=39.4
Q ss_pred CcHHHHHHHHHHH-hCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecCcC---CCHHHHHHHHHHHHHHHh
Q 029293 37 NPTVKFLRQHLEK-AGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSNHM---NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 37 sP~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N~~---~~~~~~~~tL~HELIHay 103 (195)
+|...-+++.|-+ +|-++ +.+...+=+.. -+-|..|...++++...+ -++++++.+|+|||-|..
T Consensus 69 ~p~L~~~v~~la~~~g~p~--p~vyv~~~~~~NAFa~G~~~~~~~v~vt~gLl~~l~~~El~aVlAHElgHi~ 139 (288)
T PRK03072 69 APAMYRIVRELSTAARQPM--PRLYISPTAAPNAFATGRNPRNAAVCCTEGILQILNERELRGVLGHELSHVY 139 (288)
T ss_pred hHHHHHHHHHHHHHcCCCC--CCEEEecCCCCceEEecCCCCCcEEEecHHHHHhCCHHHHHHHHHHHHHHHh
Confidence 5666666666655 77653 34555543322 122345555544444433 478999999999999975
No 28
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 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 MEROPS peptidase family M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=84.51 E-value=2.5 Score=36.97 Aligned_cols=44 Identities=18% Similarity=0.223 Sum_probs=28.2
Q ss_pred CeEEEeCCC---C-CcccccCCCCeEEecCcC--CCHHHHHHHHHHHHHHHh
Q 029293 58 FIKAVHCDK---K-IAGGYVRGEGILVCSNHM--NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 58 ~i~c~~C~~---~-~~GGf~p~~gIvlC~N~~--~~~~~~~~tL~HELIHay 103 (195)
.+....++. + ..|-+.| .|+|=..-. .+.++++.+|.|||+|.-
T Consensus 159 ~~~i~~s~~i~sP~~~G~~~p--~I~lP~~~~~~~~~~el~~il~HEl~Hik 208 (299)
T PF05569_consen 159 PIRIRVSSGISSPFVFGFLRP--VIVLPESLLEDLSEEELRAILLHELAHIK 208 (299)
T ss_pred ceEEEEcCCCCCCeeecCcce--EEEecCccccccCHHHHHHHHHHHHHHHH
Confidence 344444443 2 3455544 266555533 688999999999999974
No 29
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=84.41 E-value=1.2 Score=32.08 Aligned_cols=72 Identities=17% Similarity=0.068 Sum_probs=38.4
Q ss_pred Cccccc-CCC-CeEEecCcCCCHHHHHHHHHHHHHHHhhhcccccCCc--cCchhhhhhhhhhhcccCCcchhHHHh
Q 029293 68 IAGGYV-RGE-GILVCSNHMNIQDEVNQVIIHELIHAYDECRAANLDW--SNCAHHACSEIRAGHLSGDCHYKRELL 140 (195)
Q Consensus 68 ~~GGf~-p~~-gIvlC~N~~~~~~~~~~tL~HELIHayD~cR~knvDw--~nc~H~ACSEIRAa~LSGdC~~~~E~~ 140 (195)
..+|+. +.. +-+|.-|.-.+...-.-+|+|||.|.+=+-... .-+ .+-....--|.+|...++.-=...+.+
T Consensus 17 ~~~~~~~~~~~~~~I~in~~~~~~~~~f~laHELgH~~~~~~~~-~~~~~~~~~~~~~~E~~An~fA~~lL~p~~~~ 92 (122)
T PF06114_consen 17 DLGGFSIPKENNPIIFINSNLSPERQRFTLAHELGHILLHHGDE-TFNYYLNYFFNERQEREANAFAAALLMPEEDF 92 (122)
T ss_dssp -EEEETT----TTEEEEESSS-HHHHHHHHHHHHHHHHHHH-HH-HHHHHHHH--THHHHHHHHHHHHHHHS-HHHH
T ss_pred CcCEEEEecCcCCEEEECCCCCHHHHHHHHHHHHHHHHhhhccc-cchhhccccchhhHHHHHHHHHHHHhCCHHHH
Confidence 345543 332 445555555888888999999999998766653 100 011122234888887765444444443
No 30
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=84.27 E-value=1.6 Score=36.58 Aligned_cols=41 Identities=24% Similarity=0.352 Sum_probs=28.1
Q ss_pred cccCCCC-eEEe-cCcCCCHHHHHHHHHHHHHHHhhhcccccCCcc
Q 029293 71 GYVRGEG-ILVC-SNHMNIQDEVNQVIIHELIHAYDECRAANLDWS 114 (195)
Q Consensus 71 Gf~p~~g-IvlC-~N~~~~~~~~~~tL~HELIHayD~cR~knvDw~ 114 (195)
||..-.| |+|= -..-.+...+..+|+||+.|.- |.+.++|+
T Consensus 43 g~~~~~~~i~l~~~~~~~~~~~l~~~iaHE~hH~~---r~~~~~~~ 85 (195)
T PF10026_consen 43 GGGAIPGYIFLFLLPNDYSLEELPALIAHEYHHNC---RYEQIGWD 85 (195)
T ss_pred cccCCCCEEEEEecCCcccHHHHHHHHHHHHHHHH---HHhccCCC
Confidence 4444444 5554 5777788899999999999974 44445553
No 31
>PF01431 Peptidase_M13: Peptidase family M13 This is family M13 in the peptidase classification. ; InterPro: IPR018497 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 M13 (neprilysin family, clan MA(E)). 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 []. M13 peptidases are well-studied proteases found in a wide range of organisms including mammals and bacteria. In mammals they participate in processes such as cardiovascular development, blood-pressure regulation, nervous control of respiration, and regulation of the function of neuropeptides in the central nervous system. In bacteria they may be used for digestion of milk [, ]. The family includes eukaryotic and prokaryotic oligopeptidases, as well as some of the proteins responsible for the molecular basis of the blood group antigens e.g. Kell []. Neprilysin (3.4.24.11 from EC), is another member of this group, it is variously known as common acute lymphoblastic leukemia antigen (CALLA), enkephalinase (gp100) and neutral endopeptidase metalloendopeptidase (NEP). It is a plasma membrane-bound mammalian enzyme that is able to digest biologically-active peptides, including enkephalins []. The zinc ligands of neprilysin are known and are analogous to those in thermolysin, a related peptidase [, ]. Neprilysins, like thermolysin, are inhibited by phosphoramidon, which appears to selectively inhibit this family in mammals. The enzymes are all oligopeptidases, digesting oligo- and polypeptides, but not proteins []. Neprilysin consists of a short cytoplasmic domain, a membrane-spanning region and a large extracellular domain. The cytoplasmic domain contains a conformationally-restrained octapeptide, which is thought to act as a stop transfer sequence that prevents proteolysis and secretion [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QPJ_A 1R1I_A 1R1J_A 1Y8J_A 1R1H_A 1DMT_A 2YB9_A 3DWB_A 3ZUK_A.
Probab=84.04 E-value=0.52 Score=38.83 Aligned_cols=24 Identities=29% Similarity=0.497 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHhhhcccccCC
Q 029293 88 QDEVNQVIIHELIHAYDECRAANLD 112 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD~cR~knvD 112 (195)
.+-|=-+|+|||+|+||.--.. +|
T Consensus 33 yg~lG~ilahel~hafd~~g~~-~D 56 (206)
T PF01431_consen 33 YGGLGFILAHELMHAFDPEGIN-YD 56 (206)
T ss_dssp HHTHHHHHHHHHHHCTSTTGGG-B-
T ss_pred HHHHHHHHHHHHHHHHHHhHhh-cC
Confidence 4567789999999999996666 55
No 32
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 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 M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=81.03 E-value=4.4 Score=35.96 Aligned_cols=62 Identities=21% Similarity=0.152 Sum_probs=36.4
Q ss_pred HHHHHHHH-hCCCCCCCCeEEEeCCCCCcccccCCCCeEEecCcCC-C--------HHHHHHHHHHHHHHHh
Q 029293 42 FLRQHLEK-AGCGFGDKFIKAVHCDKKIAGGYVRGEGILVCSNHMN-I--------QDEVNQVIIHELIHAY 103 (195)
Q Consensus 42 fm~~~l~~-~Gc~~~~~~i~c~~C~~~~~GGf~p~~gIvlC~N~~~-~--------~~~~~~tL~HELIHay 103 (195)
.+++.+++ .|.+.+-..+.-...+....||..-..-|++=.+.+. + +..+..+|+|||.|.|
T Consensus 236 ~~l~~~~~~~g~~yp~~k~~~v~~p~~~~~~me~~g~i~~~~~~l~~~~~~~~~~~~~~~~~~iahElahqW 307 (390)
T PF01433_consen 236 KALEYYEEYFGIPYPFKKLDIVAVPDFPFGGMENWGLITYRESYLLYDPDISTIGDKQEIASLIAHELAHQW 307 (390)
T ss_dssp HHHHHHHHHHTS--SSSEEEEEEEST-SSSEE--TTEEEEEGGGTS-STTTS-HHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHhhccccceecceeEEEEeccccccccccccccccccccccCcccccchhhhhhHHHHHHHHHHHH
Confidence 33344433 5777664455555556655576643222677777653 2 4678999999999986
No 33
>PF01457 Peptidase_M8: Leishmanolysin This Prosite motif covers only the active site. This is family M8 in the peptidase classification. ; InterPro: IPR001577 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 M8 (leishmanolysin 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. Leishmanolysin is an enzyme found in the eukaryotes including Leishmania and related parasitic protozoa []. The endopeptidase is the most abundant protein on the cell surface during the promastigote stage of the parasite, and is attached to the membrane by a glycosylphosphatidylinositol anchor []. In the amastigote form, the parasite lives in lysosomes of host macrophages, producing a form of the protease that has an acidic pH optimum []. This differs from most other metalloproteases and may be an adaptation to the environment in which the organism survives [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0007155 cell adhesion, 0016020 membrane; PDB: 1LML_A.
Probab=80.57 E-value=0.89 Score=43.62 Aligned_cols=35 Identities=23% Similarity=0.230 Sum_probs=22.5
Q ss_pred cCCCC-eEEecCcCCC--HHHHHHHHHHHHHHHhhhcc
Q 029293 73 VRGEG-ILVCSNHMNI--QDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 73 ~p~~g-IvlC~N~~~~--~~~~~~tL~HELIHayD~cR 107 (195)
.|-.| |.||...|.+ ...+-+|++|||+||.-+-.
T Consensus 189 RP~~G~in~~p~~i~~~~~~~~~~~~~HEi~HaLGFs~ 226 (521)
T PF01457_consen 189 RPIAGVININPSYIPSFYFQEFFRTVIHEIAHALGFSS 226 (521)
T ss_dssp -EEEEEEE--GGG---S--HHHHHHHHHHHHHHTT-SH
T ss_pred CCeeEEEEEchhHccchhhhcccceeeeeeeeeeeecc
Confidence 56667 9999999988 67788999999999975543
No 34
>PF08325 WLM: WLM domain; InterPro: IPR013536 The WLM (WSS1-like metalloprotease) domain is a globular domain related to the zincin-like superfamily of Zn-dependent peptidase. Since the WLM domain contains all known active site residues of zincins, it is predicted to be a catalytically active peptidase domain. The WLM domain is a eukaryotic domain represented in plants, fungi, Plasmodium, and kinetoplastids. By contrast, it is absent in animals, Cryptosporidium, and Microsporidia, suggesting that it has been lost on multiple occasions during the evolution of eukaryotes. The WLM domain is found either in stand-alone form or in association with other domains such as the RanBP2 zinc finger , the ubiquitin domain, or the PUB/PUG domain. This domain could function as a specific de-SUMOylating domain of distinct protein complexes in the nucleus and the cytoplasm []. It has been suggested to form a segregated alpha/beta structure with eight helices and five strands. Proteins containign this domain include yeast WSS1 (a weak suppressor of the Ub-related protein SMT3), and various putative metalloproteases from plant and fungal species.
Probab=79.11 E-value=2.3 Score=36.00 Aligned_cols=45 Identities=16% Similarity=0.096 Sum_probs=31.9
Q ss_pred eEEEeCCCCC-cccccCCCC--eEEec-----CcCCCHHHHHHHHHHHHHHHh
Q 029293 59 IKAVHCDKKI-AGGYVRGEG--ILVCS-----NHMNIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 59 i~c~~C~~~~-~GGf~p~~g--IvlC~-----N~~~~~~~~~~tL~HELIHay 103 (195)
.-.+.++... .=|+.-..| |.||- +.+.+...+..||.|||.|.-
T Consensus 42 ~L~E~~P~~~~llG~N~N~G~~I~lrLR~~~~~~fl~~~~i~~t~lHELaH~~ 94 (186)
T PF08325_consen 42 SLEEFYPNGERLLGLNVNKGEKICLRLRTPDDGGFLPYETILGTMLHELAHNV 94 (186)
T ss_pred eeeccCCCCCCCcceecCCCcEEEEEeCCCCCCCEeeHHHHHHHHHHHHHhcc
Confidence 4455555542 456655555 88883 566778999999999999964
No 35
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 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 MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=78.63 E-value=4 Score=33.25 Aligned_cols=69 Identities=25% Similarity=0.305 Sum_probs=38.6
Q ss_pred cHHHHHHHHH-HHhCCCCCCCCeEEEeCCCC--CcccccCCCCeEEecCc--CCCHHHHHHHHHHHHHHHhhhc
Q 029293 38 PTVKFLRQHL-EKAGCGFGDKFIKAVHCDKK--IAGGYVRGEGILVCSNH--MNIQDEVNQVIIHELIHAYDEC 106 (195)
Q Consensus 38 P~Vkfm~~~l-~~~Gc~~~~~~i~c~~C~~~--~~GGf~p~~gIvlC~N~--~~~~~~~~~tL~HELIHayD~c 106 (195)
|.++-+++.+ +++|..++...|....=+.. -+-|+.+...|+|-..- ..+.+++.-+|+|||-|..-.-
T Consensus 31 ~~L~~~v~~l~~~~~~~~~~~~v~v~~~~~~NA~~~g~~~~~~I~v~~~ll~~~~~~el~aVlaHElgH~~~~h 104 (226)
T PF01435_consen 31 PELRRIVEELARRAGLGIPPPRVYVIDSPSPNAFATGGGPRKRIVVTSGLLESLSEDELAAVLAHELGHIKHRH 104 (226)
T ss_dssp HHHHHHHHHHHHHHHCTSS--EEEEE--SSEEEEEETTTC--EEEEEHHHHHHSSHHHHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHHhcCCCCCCeEEEEcCCCCcEEEEccCCCcEEEEeChhhhcccHHHHHHHHHHHHHHHHcCC
Confidence 3444444443 34655565666666654432 11122223338888775 4778999999999999996443
No 36
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=76.94 E-value=1.6 Score=35.29 Aligned_cols=21 Identities=24% Similarity=0.305 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHhhhcccc
Q 029293 89 DEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 89 ~~~~~tL~HELIHayD~cR~k 109 (195)
+--++||+|||-|+|-+.-..
T Consensus 77 KGC~~TL~HEL~H~WQ~RsYG 97 (141)
T PHA02456 77 KGCRDTLAHELNHAWQFRTYG 97 (141)
T ss_pred cchHHHHHHHHHHHHhhhccc
Confidence 345899999999999886544
No 37
>PF15639 Tox-MPTase3: Metallopeptidase toxin 3
Probab=74.77 E-value=1.3 Score=36.11 Aligned_cols=51 Identities=25% Similarity=0.301 Sum_probs=29.9
Q ss_pred CCCeEEEeCCC-CCcccccCCCC---eEEecCcCCC----H--------HHHHHHHHHHHHHHhhhc
Q 029293 56 DKFIKAVHCDK-KIAGGYVRGEG---ILVCSNHMNI----Q--------DEVNQVIIHELIHAYDEC 106 (195)
Q Consensus 56 ~~~i~c~~C~~-~~~GGf~p~~g---IvlC~N~~~~----~--------~~~~~tL~HELIHayD~c 106 (195)
..-|+..+=.. ...|.|+|..+ |.|=..-... + --++.||.|||||.=|.-
T Consensus 49 GP~IkI~~~~~~~A~G~t~p~~~~~~i~I~~~lV~~~Ek~~~~~r~~~~~~v~~TlLHEliHw~~~q 115 (135)
T PF15639_consen 49 GPYIKITPLVGGTAYGYTTPDDGSQVIRIDGDLVNMFEKGPGERRAGNVYLVGSTLLHELIHWGDDQ 115 (135)
T ss_pred CCEEEEeecccceeeeeecCCCCCcEEEeeHHHhhhhhcCCcccccceEEEeehHHHHHHHHhcchh
Confidence 34566555433 14677888765 4443221111 1 136789999999987653
No 38
>PRK01265 heat shock protein HtpX; Provisional
Probab=73.99 E-value=6.6 Score=35.97 Aligned_cols=64 Identities=19% Similarity=0.068 Sum_probs=37.7
Q ss_pred cHHHHHHHHHHH-hCCCCCCCCeEEEeCCCC--CcccccCCCC-eEEecCcC--CCHHHHHHHHHHHHHHHh
Q 029293 38 PTVKFLRQHLEK-AGCGFGDKFIKAVHCDKK--IAGGYVRGEG-ILVCSNHM--NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 38 P~Vkfm~~~l~~-~Gc~~~~~~i~c~~C~~~--~~GGf~p~~g-IvlC~N~~--~~~~~~~~tL~HELIHay 103 (195)
|.++-+++.|.+ .|-+++ .+...+=+.. -+-|+.+..+ |+|=..-+ -+.++++.+|+|||-|.-
T Consensus 83 ~~L~~~v~~la~~~g~~~p--~vyv~~~~~~NAfa~G~~~~~~~Ivvt~gLl~~l~~~El~aVlAHElgHik 152 (324)
T PRK01265 83 GWLYSIVAEVAKYNGIRVP--KVYIADVPFPNAFAYGSPIAGKRIAITLPLLKILNRDEIKAVAGHELGHLK 152 (324)
T ss_pred HHHHHHHHHHHHHcCCCCC--eEEEecCCCCCeEEeccCCCCCEEEEehHHHhhCCHHHHHHHHHHHHHHHH
Confidence 456666666654 666533 4444442211 1334445444 55544432 478999999999999974
No 39
>PTZ00337 surface protease GP63; Provisional
Probab=72.95 E-value=2.5 Score=41.57 Aligned_cols=33 Identities=18% Similarity=0.102 Sum_probs=27.3
Q ss_pred cCCCC-eEEecCcCCCHHHHHHHHHHHHHHHhhh
Q 029293 73 VRGEG-ILVCSNHMNIQDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 73 ~p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD~ 105 (195)
.|-.| |.++...|.+....-+|++|||+||-=+
T Consensus 210 RPi~G~in~np~~i~~~~~~~~v~~HEi~HALGF 243 (567)
T PTZ00337 210 RPFAAAVNFDPRQIAVTNGDVRVAAHELGHALGF 243 (567)
T ss_pred CceEEEEEECHHHccchhHHHHHHHHHHHHHHcc
Confidence 45567 8888888888888889999999999744
No 40
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=72.76 E-value=2 Score=37.56 Aligned_cols=22 Identities=23% Similarity=0.336 Sum_probs=17.5
Q ss_pred CHHHHHHHHHHHHHHHhhhccc
Q 029293 87 IQDEVNQVIIHELIHAYDECRA 108 (195)
Q Consensus 87 ~~~~~~~tL~HELIHayD~cR~ 108 (195)
.+-..-.+|+|||.|||=.+..
T Consensus 89 Prll~gsiLAHE~mHa~Lrl~g 110 (212)
T PF12315_consen 89 PRLLTGSILAHELMHAWLRLNG 110 (212)
T ss_pred CHHHHhhHHHHHHHHHHhcccC
Confidence 3556788999999999976653
No 41
>COG1164 Oligoendopeptidase F [Amino acid transport and metabolism]
Probab=71.00 E-value=21 Score=35.17 Aligned_cols=79 Identities=20% Similarity=0.316 Sum_probs=53.3
Q ss_pred CCCCChhhHHHHHHhHhc--Cc-HHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccC---C-CCeEEecCcCCCHHHH
Q 029293 19 NGGRTIEECQDMIQRSLR--NP-TVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVR---G-EGILVCSNHMNIQDEV 91 (195)
Q Consensus 19 ~~~~~~~~Ce~~~~~~l~--sP-~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p---~-~gIvlC~N~~~~~~~~ 91 (195)
+...+.+.=.+.+.++|+ +| .+.++..++.+ | -|...+=++..+|||.- . ....|=-|...+...|
T Consensus 309 ~~~~s~~ea~~~v~~~l~~lg~ey~~~~~~a~~~-~------WiD~~~~~gKrsGaYs~~~~~~~~p~IlmN~~gt~~dV 381 (598)
T COG1164 309 SPEYSYEEAKELVLKALAPLGPEYAKIARRAFDE-R------WIDVYPRKGKRSGAYSIGFYKGDHPFILMNYDGTLRDV 381 (598)
T ss_pred CccccHHHHHHHHHHHHHhhCHHHHHHHHHHHhc-C------CeeccCCCCCCCCcccCCCCCCCCCeEEEeCCCchhHH
Confidence 455667777777777777 55 44555555554 3 23444445778999952 2 2367777888888887
Q ss_pred HHHHHHHHHHHhhh
Q 029293 92 NQVIIHELIHAYDE 105 (195)
Q Consensus 92 ~~tL~HELIHayD~ 105 (195)
.||+|||=|++=.
T Consensus 382 -~TLaHElGHs~Hs 394 (598)
T COG1164 382 -FTLAHELGHSVHS 394 (598)
T ss_pred -HHHHHHccHHHHH
Confidence 6999999999865
No 42
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=70.94 E-value=11 Score=36.89 Aligned_cols=75 Identities=15% Similarity=0.137 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhCCCCCCCCeEEEeC-CCCCcccccCCCCeEEecCc-CCCHHHHHHHHHHHHHHHhhhcccccCCccC
Q 029293 40 VKFLRQHLEKAGCGFGDKFIKAVHC-DKKIAGGYVRGEGILVCSNH-MNIQDEVNQVIIHELIHAYDECRAANLDWSN 115 (195)
Q Consensus 40 Vkfm~~~l~~~Gc~~~~~~i~c~~C-~~~~~GGf~p~~gIvlC~N~-~~~~~~~~~tL~HELIHayD~cR~knvDw~n 115 (195)
..-|++.++.++.|-+-..+.-... ++...||-.-. ||.+=... +.......++++|||.|.|=-.-.-|-+|.+
T Consensus 227 ~~~~l~~~e~~~~pYp~~k~d~vvlpp~f~~GgMEN~-~ltf~~~~ll~~d~s~~~viaHElAHqWfGNlVT~~~W~d 303 (601)
T TIGR02411 227 TENFIKTAEDLIFPYEWGQYDLLVLPPSFPYGGMENP-NLTFATPTLIAGDRSNVDVIAHELAHSWSGNLVTNCSWEH 303 (601)
T ss_pred HHHHHHHHHHhCCCCcCccceEEEecCcccccccccc-cceeeccccccCChhhhhhHHHHHHhhccCceeecCCchH
Confidence 3455666788888877444444434 34456776332 33333222 2233345689999999987433222245643
No 43
>TIGR02412 pepN_strep_liv aminopeptidase N, Streptomyces lividans type. This family is a subset of the members of the zinc metallopeptidase family M1 (pfam01433), with a single member characterized in Streptomyces lividans 66 and designated aminopeptidase N. The spectrum of activity may differ somewhat from the aminopeptidase N clade of E. coli and most other Proteobacteria, well separated phylogenetically within the M1 family. The M1 family also includes leukotriene A-4 hydrolase/aminopeptidase (with a bifunctional active site).
Probab=70.53 E-value=11 Score=38.26 Aligned_cols=62 Identities=18% Similarity=0.269 Sum_probs=35.3
Q ss_pred HHHHHHHHH-hCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecCcC-------CCHHHHHHHHHHHHHHHh
Q 029293 41 KFLRQHLEK-AGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSNHM-------NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 41 kfm~~~l~~-~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~-------~~~~~~~~tL~HELIHay 103 (195)
+-+++-+++ .|.|.+-+.+.-...+....||..- .| |++=.+.+ ..+..+..+++|||.|.|
T Consensus 229 ~~~l~~~e~~fg~pYP~~k~d~V~vP~f~~GaMEn-~Glit~~e~~l~~~~~~~~~~~~~~~viaHElAHqW 299 (831)
T TIGR02412 229 RQGLAFFHRKFGYPYPFKKYDQIFVPEFNAGAMEN-AGCVTFAENFLHRAEATRAEKENRAGVILHEMAHMW 299 (831)
T ss_pred HHHHHHHHHHhCCCCCcccCCEEEcCCCCCCcccc-cceeeechhhccCCcCCHHHHHHHHHHHHHHHHHHH
Confidence 344444444 5655553444444456666677653 34 44333322 124457789999999987
No 44
>KOG3624 consensus M13 family peptidase [Amino acid transport and metabolism]
Probab=66.60 E-value=3.7 Score=40.31 Aligned_cols=44 Identities=23% Similarity=0.290 Sum_probs=30.0
Q ss_pred CcccccCCCC-eEEecCcC------------CCHHHHHHHHHHHHHHHhhhcccccCC
Q 029293 68 IAGGYVRGEG-ILVCSNHM------------NIQDEVNQVIIHELIHAYDECRAANLD 112 (195)
Q Consensus 68 ~~GGf~p~~g-IvlC~N~~------------~~~~~~~~tL~HELIHayD~cR~knvD 112 (195)
+...|.|..+ |++=+.-+ ...+.+=-+|+|||+|+||+.-.. .|
T Consensus 482 ~na~Y~~~~N~i~~pa~ilq~P~f~~~~P~~~nyg~iG~vigHEl~H~FD~~G~~-~D 538 (687)
T KOG3624|consen 482 VNAFYSPEKNEIVFPAGLLQPPFFDLSYPDYLNYGGIGFVIGHELTHGFDDQGRQ-YD 538 (687)
T ss_pred eeccccCCCceEEEehhcccCCCCCcccchhhhhHHHHHHHHHHHhhcccccccc-cC
Confidence 3455677665 55544322 235567789999999999999766 54
No 45
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=64.39 E-value=5.6 Score=34.11 Aligned_cols=26 Identities=31% Similarity=0.438 Sum_probs=21.5
Q ss_pred eEEecCcC--CCHHHHHHHHHHHHHHHh
Q 029293 78 ILVCSNHM--NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 78 IvlC~N~~--~~~~~~~~tL~HELIHay 103 (195)
|+|=.--+ -++++++.+|+|||-|..
T Consensus 142 V~vt~gLl~~l~~dEl~aVlaHElgHi~ 169 (302)
T COG0501 142 VVVTTGLLDLLNDDELEAVLAHELGHIK 169 (302)
T ss_pred EEecHHHHhhCCHHHHHHHHHHHHHHHh
Confidence 77766544 489999999999999975
No 46
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=63.92 E-value=8.4 Score=33.40 Aligned_cols=38 Identities=24% Similarity=0.222 Sum_probs=29.1
Q ss_pred cccccCCCC-eEEecCcCCCHHHHHHHHHHHHHHHhhhccc
Q 029293 69 AGGYVRGEG-ILVCSNHMNIQDEVNQVIIHELIHAYDECRA 108 (195)
Q Consensus 69 ~GGf~p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD~cR~ 108 (195)
.|-|+...+ |+|=+|. +...-.=||+|||-|++=|-+-
T Consensus 51 ~~~~~~~~~~I~iN~n~--~~~r~rFtlAHELGH~llH~~~ 89 (213)
T COG2856 51 YGLYDEEKPVIYINANN--SLERKRFTLAHELGHALLHTDL 89 (213)
T ss_pred ceeeeccCceEEEeCCC--CHHHHHHHHHHHHhHHHhcccc
Confidence 355666665 6666665 8888889999999999988775
No 47
>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=62.47 E-value=10 Score=29.70 Aligned_cols=32 Identities=25% Similarity=0.207 Sum_probs=21.6
Q ss_pred CCCC-eEEecCcCC------CHHHHHHHHHHHHHHHhhh
Q 029293 74 RGEG-ILVCSNHMN------IQDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 74 p~~g-IvlC~N~~~------~~~~~~~tL~HELIHayD~ 105 (195)
|..| |.+=...+. ....+..|++|||-||.-.
T Consensus 70 ~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~HEiGHaLGL 108 (165)
T cd04268 70 PLTGEILLARVYLYSSFVEYSGARLRNTAEHELGHALGL 108 (165)
T ss_pred CCCccEEeeEEEEchhHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4455 766444443 3356899999999999643
No 48
>COG0319 Predicted metal-dependent hydrolase [General function prediction only]
Probab=61.72 E-value=5 Score=33.17 Aligned_cols=37 Identities=27% Similarity=0.511 Sum_probs=27.2
Q ss_pred cccCCCC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhcc
Q 029293 71 GYVRGEG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDECR 107 (195)
Q Consensus 71 Gf~p~~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~cR 107 (195)
++.|-.| |+||...+.. ..++-..++|-+.|. |||-.
T Consensus 78 ~~~~~LGDIvI~~~~~~~qA~e~g~s~~~e~~~l~vHG~LHLlGYDH~~ 126 (153)
T COG0319 78 GEPPLLGDIVICPEVAEEQAKEQGHSLERELAHLTIHGILHLLGYDHEE 126 (153)
T ss_pred CCCccceeeEEcHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHccCCCCC
Confidence 5666778 9999887743 567777888888887 66643
No 49
>PF01447 Peptidase_M4: Thermolysin metallopeptidase, catalytic domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR013856 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 that belong to the MEROPS peptidase family M4 (thermolysin family, clan MA(E)). The protein fold of the peptidase domain of thermolysin, is the type example for members of the clan MA. The thermolysin family is composed only of secreted eubacterial endopeptidases. The zinc-binding residues are H-142, H-146 and E-166, with E-143 acting as the catalytic residue. Thermolysin also contains 4 calcium-binding sites, which contribute to its unusual thermostability. The family also includes enzymes from a number of pathogens, including Legionella and Listeria, and the protein pseudolysin, all with a substrate specificity for an aromatic residue in the P1' position. Three-dimensional structure analysis has shown that the enzymes undergo a hinge-bend motion during catalysis. Pseudolysin has a broader specificity, acting on large molecules such as elastin and collagen, possibly due to its wider active site cleft []. This entry represents a domain found in peptidase M4 family members.; GO: 0004222 metalloendopeptidase activity; PDB: 3NQX_A 3NQZ_B 3NQY_B 1BQB_A 1U4G_A 1EZM_A 3DBK_A 1ESP_A 1NPC_A 1LND_E ....
Probab=60.42 E-value=5.5 Score=32.54 Aligned_cols=12 Identities=42% Similarity=0.612 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHh
Q 029293 92 NQVIIHELIHAY 103 (195)
Q Consensus 92 ~~tL~HELIHay 103 (195)
-+|++|||.|++
T Consensus 136 lDVvaHEltHGV 147 (150)
T PF01447_consen 136 LDVVAHELTHGV 147 (150)
T ss_dssp HHHHHHHHHHHH
T ss_pred cceeeecccccc
Confidence 699999999986
No 50
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=60.06 E-value=5.4 Score=29.18 Aligned_cols=65 Identities=22% Similarity=0.306 Sum_probs=32.3
Q ss_pred HHHHHHH-hCCCCCCCCeEEE-----eCCCCCcccccCCCCeEEecCcC-CCHHHHHHHHHHHHHHHhhhcc
Q 029293 43 LRQHLEK-AGCGFGDKFIKAV-----HCDKKIAGGYVRGEGILVCSNHM-NIQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 43 m~~~l~~-~Gc~~~~~~i~c~-----~C~~~~~GGf~p~~gIvlC~N~~-~~~~~~~~tL~HELIHayD~cR 107 (195)
++..|+. .|.++..-.|.-- ......+-+|..+.-|++=.... .+-..=..+|+|||.|..-+.+
T Consensus 6 ~r~~~e~~~G~dl~~Vrvh~~~~a~~~~~~~~A~A~T~G~~I~f~~g~~~~~s~~~~~llaHEl~Hv~Qq~~ 77 (79)
T PF13699_consen 6 IRSRLERAFGADLSDVRVHTGPAASRAAAALGARAFTVGNDIYFAPGKYNPDSPEGRALLAHELAHVVQQRR 77 (79)
T ss_pred HHHHHHHHhCCCccceEEEeCCchhhhhhccCCeEEEECCEEEEcCCCcCCCCCCcchhHhHHHHHHHhhcc
Confidence 3445554 5655544333332 11222233455544466632221 2222346899999999875543
No 51
>PF01432 Peptidase_M3: Peptidase family M3 This Prosite motif covers only the active site. This family belongs to family M3 of the peptidase classification.; InterPro: IPR001567 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 MEROPS peptidase family M3 (clan MA(E)), subfamilies M3A and M3B. The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. The Thimet oligopeptidase family, is a large family of archaeal, bacterial and eukaryotic oligopeptidases that cleave medium sized peptides. The group contains: mitochondrial intermediate peptidase (3.4.24.59 from EC) Neurolysin, mitochondrial precursor, (3.4.24.16 from EC) Thimet oligopeptidase (3.4.24.15 from EC) Dipeptidyl carboxypeptidase (3.4.15.5 from EC) Oligopeptidase A (3.4.24.70 from EC) Oligoendopeptidase F ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QR4_B 3CE2_A 1Y79_1 2H1J_A 2H1N_A 2O36_A 1S4B_P 2O3E_A 1I1I_P.
Probab=58.77 E-value=9.5 Score=35.30 Aligned_cols=31 Identities=23% Similarity=0.342 Sum_probs=23.0
Q ss_pred eEEecCcCC---------CHHHHHHHHHHHHHHHhhhcccc
Q 029293 78 ILVCSNHMN---------IQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 78 IvlC~N~~~---------~~~~~~~tL~HELIHayD~cR~k 109 (195)
++|-.|.-. +...+ .||.|||=||+=+.-.+
T Consensus 221 ~~i~~n~~~~~~~~~~ll~~~~v-~tLfHE~GHa~H~~ls~ 260 (458)
T PF01432_consen 221 PYIFCNFTGPSAGKPSLLSHDDV-ETLFHEFGHAMHSLLSR 260 (458)
T ss_dssp EEEEEEE-S-BTTC--B-SHHHH-HHHHHHHHHHHHHHHCC
T ss_pred eEEEecCCCCCCCCCCccChhhH-HHHHHHHhHHHHHHHhc
Confidence 444447666 77788 89999999999777655
No 52
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=57.85 E-value=12 Score=30.56 Aligned_cols=51 Identities=27% Similarity=0.296 Sum_probs=31.2
Q ss_pred HhCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecC-cCCCHHHHHHHHHHHHHHHh
Q 029293 49 KAGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSN-HMNIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 49 ~~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N-~~~~~~~~~~tL~HELIHay 103 (195)
.+|-+ ...|....= .+.-|.+ +..| |.|=-. .+....-++-+++|||.|..
T Consensus 124 ~~~~~--~~~i~ir~~-ksrWGsc-~~~~~I~ln~~L~~~P~~~idYVvvHEL~Hl~ 176 (205)
T PF01863_consen 124 KLGLP--PPKIKIRDM-KSRWGSC-SSKGNITLNWRLVMAPPEVIDYVVVHELCHLR 176 (205)
T ss_pred HcCCC--cceEEEeeh-hhccccC-CCCCcEEeecccccCCccHHHHHHHHHHHHhc
Confidence 34543 344544421 2356888 5555 544333 22567789999999999985
No 53
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=57.69 E-value=2.8 Score=41.71 Aligned_cols=65 Identities=20% Similarity=0.214 Sum_probs=43.9
Q ss_pred HHHHHhCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecCcC------------CCHHHHHHHHHHHHHHHhhhcccccC
Q 029293 45 QHLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSNHM------------NIQDEVNQVIIHELIHAYDECRAANL 111 (195)
Q Consensus 45 ~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~------------~~~~~~~~tL~HELIHayD~cR~knv 111 (195)
..+.|.|.||++.-- .+=+..+...|+|..+ ||.=+-.+ .+.+-+-.|+.||+-|+||+--++ .
T Consensus 430 ~~l~K~~kPVDr~eW--~M~pq~VNAYYnp~~N~IVFPAAILQ~PFfd~ea~~a~NYGgIGaVIgHEI~HgFDdqGak-f 506 (654)
T COG3590 430 HELSKIGKPVDRDEW--EMPPQTVNAYYNPQKNEIVFPAAILQAPFFDPEADSAANYGGIGAVIGHEIGHGFDDQGAK-F 506 (654)
T ss_pred hhHHHhCCCCchhhc--CCCHHHhhhhcCCCCceEeeeHHhcCCCCCCCCcchhhcccCccceehhhhcccccCCccc-c
Confidence 367888999874321 1222336677888877 55433222 345667789999999999998887 6
Q ss_pred C
Q 029293 112 D 112 (195)
Q Consensus 112 D 112 (195)
|
T Consensus 507 D 507 (654)
T COG3590 507 D 507 (654)
T ss_pred C
Confidence 6
No 54
>TIGR02414 pepN_proteo aminopeptidase N, Escherichia coli type. The M1 family of zinc metallopeptidases contains a number of distinct, well-separated clades of proteins with aminopeptidase activity. Several are designated aminopeptidase N, EC 3.4.11.2, after the Escherichia coli enzyme, suggesting a similar activity profile. This family consists of all aminopeptidases closely related to E. coli PepN and presumed to have similar (not identical) function. Nearly all are found in Proteobacteria, but members are found also in Cyanobacteria, plants, and apicomplexan parasites. This family differs greatly in sequence from the family of aminopeptidases typified by Streptomyces lividans PepN (TIGR02412), from the membrane bound aminopeptidase N family in animals, etc.
Probab=56.95 E-value=22 Score=36.68 Aligned_cols=62 Identities=21% Similarity=0.250 Sum_probs=34.8
Q ss_pred HHHHHHHHH-hCCCCCCCCeEEEeCCCCCcccccCCCC-eEEecCcC-------C--CHHHHHHHHHHHHHHHh
Q 029293 41 KFLRQHLEK-AGCGFGDKFIKAVHCDKKIAGGYVRGEG-ILVCSNHM-------N--IQDEVNQVIIHELIHAY 103 (195)
Q Consensus 41 kfm~~~l~~-~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-IvlC~N~~-------~--~~~~~~~tL~HELIHay 103 (195)
+-+++.+++ .|.+.+-..+.-...+....||-.- .| |++-.+.+ . ++..++.+++|||.|.|
T Consensus 223 ~~~L~~~E~~fG~pYPl~k~diVavpdf~~GaMEN-~GLi~f~e~~lL~~~~~~td~~~~~i~~VIaHElaHqW 295 (863)
T TIGR02414 223 KKAMKWDEEVFGLEYDLDIFMIVAVDDFNMGAMEN-KGLNIFNSKYVLADPETATDADYERIESVIAHEYFHNW 295 (863)
T ss_pred HHHHHHHHHHhCCCCChhhccEEecCCCCCccccc-cceeccccceEEeCCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 344444444 6755554445555556666676622 23 32222222 2 23457899999999988
No 55
>PF15638 Tox-MPTase2: Metallopeptidase toxin 2
Probab=56.14 E-value=8.1 Score=33.41 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHHHhhhcccccCCccCchhhhhhhhhhhc
Q 029293 85 MNIQDEVNQVIIHELIHAYDECRAANLDWSNCAHHACSEIRAGH 128 (195)
Q Consensus 85 ~~~~~~~~~tL~HELIHayD~cR~knvDw~nc~H~ACSEIRAa~ 128 (195)
|.+...|+.||.||-.|-||.-|.+ .+ . .+++ -++||..
T Consensus 101 l~NiYnl~stL~HE~~H~~d~~rg~-~~-~--~~~~-Vi~~a~e 139 (194)
T PF15638_consen 101 LDNIYNLMSTLFHESFHKFDQSRGG-YD-G--HVLH-VIMRAME 139 (194)
T ss_pred HHHHHHHHHHHHHHHhhhhhccCCC-CC-c--eeee-eehhhhc
Confidence 4557889999999999999999999 66 2 2222 6667653
No 56
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=55.92 E-value=9.1 Score=35.81 Aligned_cols=57 Identities=25% Similarity=0.444 Sum_probs=43.7
Q ss_pred ChhhHHHHHHh-HhcCcHHHHHHHHHHHhCCCCCCCCe---------------EEEeCCCCCcccccCCCCeE
Q 029293 23 TIEECQDMIQR-SLRNPTVKFLRQHLEKAGCGFGDKFI---------------KAVHCDKKIAGGYVRGEGIL 79 (195)
Q Consensus 23 ~~~~Ce~~~~~-~l~sP~Vkfm~~~l~~~Gc~~~~~~i---------------~c~~C~~~~~GGf~p~~gIv 79 (195)
--++|++.+++ .|++-+=|-|.+++..+.-+++.+.| -|..|....+||-.|.-|++
T Consensus 89 cKeqCDKeIQKIILKDKiEKeL~ekf~tL~TdI~tddIPTCvCEKSlADKvEK~CLkCg~~LGggVaP~~Gll 161 (353)
T TIGR01477 89 CKEQCDKEIQKIILKDKLEKELTEKFSTLQTDIQTDAIPTCVCEKSLADKVEKGCLRCGCGLGGGVAPGVGLL 161 (353)
T ss_pred hHHhhchHHHHHHHHHHHHHHHHHhhhhcccCCccCcCccccccchHHHHHHHhHHhcCCccCcccccccccc
Confidence 45789999999 55599999999999999988886555 34445554556889998854
No 57
>PF02130 UPF0054: Uncharacterized protein family UPF0054; InterPro: IPR002036 These, as yet, uncharacterised proteins are of 17 to 21 kDa. They contain a conserved region with three histidines at the C terminus. The protein family is represented by a single member sequence only in nearly every bacterium. The crystal structure of the protein from the hyperthermophilic bacteria Aquifex aeolicus has been determined. The overall fold consists of one central alpha-helix surrounded by a four-stranded beta-sheet and four other alpha-helices. Structure-based homology analysis reveals a good resemblance to the metal-dependent proteinases such as collagenases and gelatinases. However, experimental tests for collagenase and gelatinase-type function show no detectable activity under standard assay conditions [].; GO: 0046872 metal ion binding; PDB: 1TVI_A 1OZ9_A 1XM5_A 1XAX_A.
Probab=55.18 E-value=12 Score=30.06 Aligned_cols=31 Identities=26% Similarity=0.629 Sum_probs=23.7
Q ss_pred CC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhc
Q 029293 76 EG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDEC 106 (195)
Q Consensus 76 ~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~c 106 (195)
.| |+||-..+.. ..++-..++|-+.|. |||-
T Consensus 83 lGdI~Is~~~~~~qA~e~~~~~~~el~~l~vHG~LHLlGyDH~ 125 (145)
T PF02130_consen 83 LGDIFISPDTAERQAEEYGHSFEEELARLLVHGLLHLLGYDHE 125 (145)
T ss_dssp EEEEEEEHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHTT-SST
T ss_pred CceEEECHHHHHHHHHHccCChHHHHhHHHHHHHHHHcCCCCC
Confidence 68 9999776644 567888899999997 6775
No 58
>PTZ00257 Glycoprotein GP63 (leishmanolysin); Provisional
Probab=54.82 E-value=7.9 Score=38.69 Aligned_cols=33 Identities=15% Similarity=0.234 Sum_probs=24.4
Q ss_pred cCCCC-eEEecCcCCC--HHHHHHHHHHHHHHHhhh
Q 029293 73 VRGEG-ILVCSNHMNI--QDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 73 ~p~~g-IvlC~N~~~~--~~~~~~tL~HELIHayD~ 105 (195)
.|-.| |.|+...+.+ ...+-+|++|||+||--+
T Consensus 235 RPi~G~iNinp~~i~s~~~~~~~rv~~HEi~HALGF 270 (622)
T PTZ00257 235 HPAVGVMNIPAANIVSRYDQGTTRTVTHEVAHALGF 270 (622)
T ss_pred CceEEEEeeCHHHCCCccchHHHHHHHHHHHHHhcC
Confidence 56667 7888777643 234568999999999766
No 59
>PRK00016 metal-binding heat shock protein; Provisional
Probab=54.74 E-value=6.2 Score=32.46 Aligned_cols=32 Identities=25% Similarity=0.634 Sum_probs=25.7
Q ss_pred CC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhcc
Q 029293 76 EG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDECR 107 (195)
Q Consensus 76 ~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~cR 107 (195)
.| |+||-..+.. ..++-.+++|-+-|. |||-.
T Consensus 88 LGDI~Is~~~~~~qa~~~~~s~~~e~~~l~iHG~LHLlGYDH~~ 131 (159)
T PRK00016 88 LGDIVICPEVAEEQAEEQGHSLERELAHLTVHGILHLLGYDHIE 131 (159)
T ss_pred ceeEEEcHHHHHHHHHHcCCCHHHHHHHHHHHhhHHhcCCCCCC
Confidence 57 9999887754 458888999999997 88854
No 60
>PRK13963 unkown domain/putative metalloprotease fusion protein; Provisional
Probab=53.85 E-value=7.2 Score=35.06 Aligned_cols=32 Identities=22% Similarity=0.527 Sum_probs=25.1
Q ss_pred CCC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhc
Q 029293 75 GEG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDEC 106 (195)
Q Consensus 75 ~~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~c 106 (195)
..| |+||...+.. ..++..+|+|-+.|. |||-
T Consensus 189 ~LGDIvIc~e~v~rqA~e~~~sl~~El~~LlIHGlLHLLGYDHe 232 (258)
T PRK13963 189 VIGDLVLCCPVVEKEAREQGKPLEAHYAHLLVHGALHAQGYDHE 232 (258)
T ss_pred cceeEEEEHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHcCCCCC
Confidence 467 9999887754 458888899999997 6775
No 61
>PF01742 Peptidase_M27: Clostridial neurotoxin zinc protease This family is a subset of the Prosite family; InterPro: IPR000395 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 MEROPS peptidase family M27 (clan MA(E)). A number of the proteins have been classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases in the family. There are seven antigenically distinct forms of botulinum neurotoxin, designated A, B, C1, D, E, F and G. The seven neurotoxins are potent protein toxins that inhibit neurotransmitter release from peripheral cholinergic synapses []. On binding to the neuronal synapses, the molecules are internalised and move by retrograde transport up the axon into the spinal cord, where they can move between post- and presynaptic neurons. The toxin inhibits neurotransmitter release by acting as a zinc endopeptidase that cleaves synaptic proteins such as synaptobrevins, syntaxin and SNAP-25 []. The protein toxins exist as disulphide-linked heterodimers of light and heavy chains. The light chain has the pharmacological activity, while the N- and C-termini of the heavy chain mediate channel formation and toxin binding []. The light chain exhibits a high level of sequence similarity to tetanus toxin (TeTx). Alignment of all characterised neurotoxin sequences reveals the presence of highly conserved amino acid domains interspersed with amino acid tracts with little overall similarity. The most divergent region corresponds to the C-terminal extremity of each toxin, which may reflect differences in specificity of binding to neurone acceptor sites []. ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0009405 pathogenesis; PDB: 2QN0_A 3D3X_A 3NF3_A 2ISG_A 2ISE_B 2IMC_B 2IMA_B 2ILP_A 2IMB_A 2ISH_A ....
Probab=52.08 E-value=7.7 Score=36.89 Aligned_cols=14 Identities=36% Similarity=0.586 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhhhc
Q 029293 93 QVIIHELIHAYDEC 106 (195)
Q Consensus 93 ~tL~HELIHayD~c 106 (195)
=+|+|||||+-=.+
T Consensus 216 l~LmheLIh~Lh~L 229 (408)
T PF01742_consen 216 LELMHELIHSLHGL 229 (408)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhh
Confidence 47999999986544
No 62
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=49.37 E-value=63 Score=27.99 Aligned_cols=57 Identities=23% Similarity=0.250 Sum_probs=35.0
Q ss_pred HHHHhCCCCCCCCeEEEeCCCCCcccccCCCCeEEecCc--CCCHHHHHHHHHHHHHHHhhhc
Q 029293 46 HLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEGILVCSNH--MNIQDEVNQVIIHELIHAYDEC 106 (195)
Q Consensus 46 ~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~gIvlC~N~--~~~~~~~~~tL~HELIHayD~c 106 (195)
...++|-+. ..+... =..+.-|++++...|.+ ... +..+..++-+++|||.|..=.-
T Consensus 132 ~~~~l~~~~--~~~~ik-~~k~~WGScs~~~~i~~-~~~l~~~p~~~i~YVvvHELaHLke~n 190 (223)
T COG1451 132 YAKKLGVPP--RAIKLK-NMKRRWGSCSKAGEIRF-NWRLVMAPEEVIDYVVVHELAHLKEKN 190 (223)
T ss_pred HHHHhCCCc--cceeee-eccceeeeecCCCcEEe-ehhhhcCCHHHHHHHHHHHHHHHhhhh
Confidence 334456553 333333 12346788888774443 333 3568889999999999975433
No 63
>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=47.49 E-value=13 Score=28.56 Aligned_cols=18 Identities=33% Similarity=0.554 Sum_probs=15.2
Q ss_pred CCHHHHHHHHHHHHHHHh
Q 029293 86 NIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 86 ~~~~~~~~tL~HELIHay 103 (195)
.+..++..|++|||=||.
T Consensus 100 ~~~~~~~~v~~HEiGHaL 117 (154)
T PF00413_consen 100 DSGNDLQSVAIHEIGHAL 117 (154)
T ss_dssp SSSEEHHHHHHHHHHHHT
T ss_pred hhhhhhhhhhhhcccccc
Confidence 355689999999999995
No 64
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=44.79 E-value=13 Score=28.17 Aligned_cols=16 Identities=31% Similarity=0.256 Sum_probs=11.7
Q ss_pred HHHHHHHHHhhhcccc
Q 029293 94 VIIHELIHAYDECRAA 109 (195)
Q Consensus 94 tL~HELIHayD~cR~k 109 (195)
++.||++|+-=.-.++
T Consensus 7 ~~~HEliH~l~~~~~~ 22 (111)
T PF11667_consen 7 IPLHELIHGLFFKLFG 22 (111)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 5789999986555443
No 65
>KOG3854 consensus SPRT-like metalloprotease [Function unknown]
Probab=44.61 E-value=15 Score=35.73 Aligned_cols=27 Identities=22% Similarity=0.404 Sum_probs=21.8
Q ss_pred eEEecCcCCCHHHHHHHHHHHHHHHhh
Q 029293 78 ILVCSNHMNIQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 78 IvlC~N~~~~~~~~~~tL~HELIHayD 104 (195)
|.|=--..+..+-+.+||+|||-||-=
T Consensus 338 IeLs~kV~tTAERir~TLiHEmCHaAa 364 (505)
T KOG3854|consen 338 IELSDKVCTTAERIRDTLIHEMCHAAA 364 (505)
T ss_pred EEehhhhhhHHHHHHHHHHHHHHHHHH
Confidence 666556667888899999999999843
No 66
>PF12388 Peptidase_M57: Dual-action HEIGH metallo-peptidase; InterPro: IPR024653 This entry represents the metallopeptidases M10, M27 and M57. The catalytic triad for proteases in this entry is HE-H-H, which in many members is in the sequence motif HEIGH [].
Probab=43.75 E-value=36 Score=29.68 Aligned_cols=38 Identities=24% Similarity=0.332 Sum_probs=28.3
Q ss_pred eEEecCc-CCCHHHHHHHHHHHHHHHhhhcccccCCccCchhhhh
Q 029293 78 ILVCSNH-MNIQDEVNQVIIHELIHAYDECRAANLDWSNCAHHAC 121 (195)
Q Consensus 78 IvlC~N~-~~~~~~~~~tL~HELIHayD~cR~knvDw~nc~H~AC 121 (195)
|.| .+. -.+...++.+|+|||=|+.=+.- - ||.|-. .|
T Consensus 120 I~I-~~~~~~~~~~~~hvi~HEiGH~IGfRH-T--D~~~R~--SC 158 (211)
T PF12388_consen 120 IQI-YGLSNYSVNVIEHVITHEIGHCIGFRH-T--DYFNRS--SC 158 (211)
T ss_pred EEE-EecCCCchhHHHHHHHHHhhhhccccc-c--CcCCcc--cc
Confidence 888 442 24567799999999999987654 3 798844 77
No 67
>PRK14015 pepN aminopeptidase N; Provisional
Probab=43.29 E-value=52 Score=34.06 Aligned_cols=74 Identities=20% Similarity=0.275 Sum_probs=38.2
Q ss_pred HHHHHHHHH-hCCCCCCCCeEEEeCCCCCcccccCCCC-e------EEecCcC-C--CHHHHHHHHHHHHHHHhhhcccc
Q 029293 41 KFLRQHLEK-AGCGFGDKFIKAVHCDKKIAGGYVRGEG-I------LVCSNHM-N--IQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 41 kfm~~~l~~-~Gc~~~~~~i~c~~C~~~~~GGf~p~~g-I------vlC~N~~-~--~~~~~~~tL~HELIHayD~cR~k 109 (195)
+-+++.+++ .|.+.+-..+.-...+....||=.- .| | +|-.... . ++..++.+++|||.|.|==-+--
T Consensus 236 ~~~L~~~E~~FG~pYP~~k~diVavp~f~~GaMEN-~Gl~~f~~~~lL~~~~~~t~~~~~~i~~vIaHElaHqWFGNlVT 314 (875)
T PRK14015 236 KKSMKWDEERFGLEYDLDIFMIVAVDDFNMGAMEN-KGLNIFNSKYVLADPETATDADYERIESVIAHEYFHNWTGNRVT 314 (875)
T ss_pred HHHHHHHHHHhCCCCChhhhCEEeCCCCCCccccc-ccccccccceEecCcccCCHHHHHHHHHHHHHHHHHHHHhCcce
Confidence 445555555 6755554444445556666665321 22 2 2222211 1 23458899999999988322222
Q ss_pred cCCccC
Q 029293 110 NLDWSN 115 (195)
Q Consensus 110 nvDw~n 115 (195)
+-||.+
T Consensus 315 ~~~W~d 320 (875)
T PRK14015 315 CRDWFQ 320 (875)
T ss_pred ecchhh
Confidence 136643
No 68
>PF06167 Peptidase_M90: Glucose-regulated metallo-peptidase M90; InterPro: IPR010384 MtfA (earlier known as YeeI) is a transcription factor that binds Mlc (make large colonies), itself a repressor of glucose and hence a protein important in regulation of the phosphoenolpyruvate:glucose-phosphotransferase (PtsG) system, the major glucose transporter in Escherichia coli. Mlc is a repressor of ptsG, and MtfA is found to bind and inactivate Mlc with high affinity []. The membrane-bound protein EIICBGlc encoded by the ptsG gene is the major glucose transporter in E. coli. ; PDB: 3DL1_A 3KHI_A.
Probab=43.19 E-value=15 Score=32.53 Aligned_cols=22 Identities=32% Similarity=0.493 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHhhhcccc
Q 029293 88 QDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD~cR~k 109 (195)
...=.++..||+.|+.|..-..
T Consensus 151 ~~dg~NVviHEfAH~LD~~~g~ 172 (253)
T PF06167_consen 151 PNDGHNVVIHEFAHKLDMEDGA 172 (253)
T ss_dssp SSSS--HHHHHHHHHHHCTTS-
T ss_pred CCCCcchHHHHHHHHHHhhcCC
Confidence 3444589999999999998765
No 69
>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=42.78 E-value=17 Score=28.65 Aligned_cols=17 Identities=29% Similarity=0.558 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHhh
Q 029293 88 QDEVNQVIIHELIHAYD 104 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD 104 (195)
...+..|++|||=|+.=
T Consensus 101 ~~~~~~~~~HEiGHaLG 117 (156)
T cd04279 101 AENLQAIALHELGHALG 117 (156)
T ss_pred chHHHHHHHHHhhhhhc
Confidence 56899999999999963
No 70
>cd06461 M2_ACE Peptidase family M2 Angiotensin converting enzyme (ACE, EC 3.4.15.1) is a membrane-bound, zinc dependent dipeptidase that catalyzes the conversion of the decapeptide angiotensin I to the potent vasopressor ocatapeptide angiotensin II, by removing two C-terminal amino acids. There are two forms of the enzyme in humans, the ubiquitous somatic ACE and the sperm-specific germinal ACE, both encoded by the same gene through transcription from alternative promoters. Somatic ACE has two tandem active sites with distinct catalytic properties, whereas germinal ACE, the function of which is largely unknown, has just a single active site. Recently, an ACE homolog, ACE2, has been identified in humans that differs from ACE; it preferentially removes carboxy-terminal hydrophobic or basic amino acids and appears to be important in cardiac function. ACE homologs (also known as members of the M2 gluzincin family) have been found in a wide variety of species, including those that neither h
Probab=39.52 E-value=42 Score=32.32 Aligned_cols=82 Identities=16% Similarity=0.229 Sum_probs=43.8
Q ss_pred CeEEecCcCCCHHHHHHHHHHHHHHHhhhccc-ccCCc--c----CchhhhhhhhhhhcccCCcchhHHHhh--cccccc
Q 029293 77 GILVCSNHMNIQDEVNQVIIHELIHAYDECRA-ANLDW--S----NCAHHACSEIRAGHLSGDCHYKRELLR--GYMKIR 147 (195)
Q Consensus 77 gIvlC~N~~~~~~~~~~tL~HELIHayD~cR~-knvDw--~----nc~H~ACSEIRAa~LSGdC~~~~E~~r--g~~~~~ 147 (195)
-|..|.|. +...+ .||.|||-|+| +-+. ++... . ---|=|-.||=+-+.+ .-|++. |.+.-.
T Consensus 236 rI~~c~~~--t~~D~-~t~~HE~GH~~-yy~~y~~~p~~~r~~anp~fheav~e~~smS~~-----tpe~L~~~~ll~~~ 306 (477)
T cd06461 236 RIKMCTKV--NMEDF-VTVHHEMGHIQ-YYLQYKDQPVLFREGANPGFHEAVGDAIALSVS-----TPKHLHKIGLLDSE 306 (477)
T ss_pred ceeeCCCC--CHHHH-HHHHHHHHHHH-HHHHhccCCHHHhCCCCCChHHHHHHHHHHhcC-----CHHHHhhccccccc
Confidence 38887776 55555 56889999998 4333 32221 1 1123366777776654 345554 333311
Q ss_pred -cchh---hHHhhHHHHHHhhCCC
Q 029293 148 -GHEQ---DCVRRRVMKSVIANPY 167 (195)
Q Consensus 148 -~~~q---~CVkrRA~~Sv~~~p~ 167 (195)
...+ +=-.+.|+..|.--|.
T Consensus 307 ~~~~~~~i~~l~~~al~~i~fLP~ 330 (477)
T cd06461 307 VDDEEADINFLLKMALDKIAFLPF 330 (477)
T ss_pred CCCcHHHHHHHHHHHHHHHHHhhH
Confidence 1111 2334566666665555
No 71
>PF02102 Peptidase_M35: Deuterolysin metalloprotease (M35) family; InterPro: IPR001384 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 MEROPS peptidase family M35 (deuterolysin 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. Deuterolysin is a microbial zinc-containing metalloprotease that shows some similarity to thermolysin []. The protein is expressed with a possible 19-residue signal sequence, a 155-residue propeptide, and an active peptide of 177 residues []. The latter contains an HEXXH motif towards the C terminus, but the other zinc ligands are as yet undetermined [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 1EB6_A.
Probab=39.38 E-value=20 Score=33.47 Aligned_cols=48 Identities=15% Similarity=0.283 Sum_probs=22.8
Q ss_pred CCCeEEEe----CCCCCcccccCCCC-eEEecCcCC------C---HHHHHHHHHHHHHHHh
Q 029293 56 DKFIKAVH----CDKKIAGGYVRGEG-ILVCSNHMN------I---QDEVNQVIIHELIHAY 103 (195)
Q Consensus 56 ~~~i~c~~----C~~~~~GGf~p~~g-IvlC~N~~~------~---~~~~~~tL~HELIHay 103 (195)
...+.|.. |...+.+.-.|..+ |+.|-..+. + ...--.|+.|||.|+-
T Consensus 248 ~~t~~C~D~~~~C~~~vlAYT~p~~~~I~~Cp~ff~~lp~~~~~C~~qDqatt~LHE~TH~~ 309 (359)
T PF02102_consen 248 STTYYCTDPYGYCSSGVLAYTLPSQNQIVNCPIFFSDLPALSNRCHAQDQATTTLHEMTHAP 309 (359)
T ss_dssp S-EEESS-SSS---TT--EEEEGGGTEEEE-HHHHHH--SS--STT---HHHHHHHHHHT-T
T ss_pred ceEEEEECCCCccCCCeEEEEEcCCCeEEECchhhccCCCccccccCCCccchhhhhhhccc
Confidence 44555643 44333333356666 999965331 1 2234579999999993
No 72
>KOG2983 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.33 E-value=17 Score=33.36 Aligned_cols=18 Identities=33% Similarity=0.800 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHhhhcccc
Q 029293 92 NQVIIHELIHAYDECRAA 109 (195)
Q Consensus 92 ~~tL~HELIHayD~cR~k 109 (195)
.+.++|+|-||||+|.-+
T Consensus 138 SdfithDl~~af~~C~D~ 155 (334)
T KOG2983|consen 138 SDFITHDLFNAFDSCSDK 155 (334)
T ss_pred chHHHHHHhhhhcccccC
Confidence 478999999999999976
No 73
>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=39.30 E-value=15 Score=28.20 Aligned_cols=11 Identities=55% Similarity=0.555 Sum_probs=9.9
Q ss_pred HHHHHHHHHHh
Q 029293 93 QVIIHELIHAY 103 (195)
Q Consensus 93 ~tL~HELIHay 103 (195)
.|++|||-||-
T Consensus 88 ~~~~HEigHaL 98 (140)
T smart00235 88 GVAAHELGHAL 98 (140)
T ss_pred ccHHHHHHHHh
Confidence 49999999995
No 74
>PHA00527 hypothetical protein
Probab=39.07 E-value=18 Score=28.97 Aligned_cols=20 Identities=30% Similarity=0.667 Sum_probs=16.8
Q ss_pred HHHHHHHHH-HhhhcccccCC
Q 029293 93 QVIIHELIH-AYDECRAANLD 112 (195)
Q Consensus 93 ~tL~HELIH-ayD~cR~knvD 112 (195)
.||+||-.| |||-||.--||
T Consensus 75 ~T~~HECAH~AF~vC~~VGV~ 95 (129)
T PHA00527 75 ATLVHECAHVAFYVCRDVGVT 95 (129)
T ss_pred HHHHHHHHHHHHHHHHhcCcc
Confidence 799999999 69999864477
No 75
>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=38.25 E-value=29 Score=26.96 Aligned_cols=30 Identities=33% Similarity=0.254 Sum_probs=19.4
Q ss_pred CCCC-eEEecCcCCCHHHHHHHHHHHHHHHhh
Q 029293 74 RGEG-ILVCSNHMNIQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 74 p~~g-IvlC~N~~~~~~~~~~tL~HELIHayD 104 (195)
|..+ |++-.+.. .......|++|||-|+.-
T Consensus 79 ~~~~~~~~~~~~~-~~~~~~~~~~HElGH~LG 109 (167)
T cd00203 79 SLRGVGVLQDNQS-GTKEGAQTIAHELGHALG 109 (167)
T ss_pred CCCCcEEEecCCc-ccccchhhHHHHHHHHhC
Confidence 3334 55533322 234688999999999974
No 76
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 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 family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=36.93 E-value=25 Score=32.98 Aligned_cols=21 Identities=24% Similarity=0.344 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHhhhccc
Q 029293 88 QDEVNQVIIHELIHAYDECRA 108 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD~cR~ 108 (195)
...+-.||+||+-|+--+-+.
T Consensus 136 ~~~~~sTlAHEfQHmInfy~~ 156 (366)
T PF10460_consen 136 PDTVYSTLAHEFQHMINFYQR 156 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 577999999999999877653
No 77
>PF05299 Peptidase_M61: M61 glycyl aminopeptidase; InterPro: IPR007963 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 M61 (glycyl aminopeptidase family, clan MA(E)).The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example is glycyl aminopeptidase from Sphingomonas capsulata.
Probab=36.65 E-value=11 Score=29.93 Aligned_cols=20 Identities=20% Similarity=0.399 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHhhhcccc
Q 029293 90 EVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 90 ~~~~tL~HELIHayD~cR~k 109 (195)
.+.++++||..|.+.-.|-.
T Consensus 3 ~~l~l~sHEffH~Wnvkrir 22 (122)
T PF05299_consen 3 RFLGLLSHEFFHSWNVKRIR 22 (122)
T ss_pred chhhhhhhhccccccceEec
Confidence 46789999999999977754
No 78
>PF08014 DUF1704: Domain of unknown function (DUF1704); InterPro: IPR012548 This family contains many hypothetical proteins.
Probab=35.64 E-value=1.3e+02 Score=27.89 Aligned_cols=70 Identities=20% Similarity=0.239 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCCCCeEEecCcCCCHHHHHHHHHHHH-HHHhhhcccc
Q 029293 39 TVKFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEGILVCSNHMNIQDEVNQVIIHEL-IHAYDECRAA 109 (195)
Q Consensus 39 ~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~gIvlC~N~~~~~~~~~~tL~HEL-IHayD~cR~k 109 (195)
.+..|.+.+++....- .-.++.+.=++-.++.=.....|.|=.|...++..++..+.||. +|+-=..-..
T Consensus 114 ~~~~~~~~~~~y~~~~-~~~~~V~~sddl~a~A~v~~~~l~I~~~~~fs~~~l~~L~~HEigvH~lt~~Ng~ 184 (349)
T PF08014_consen 114 AVSRLQERLKKYFGKE-GFEVKVELSDDLLARAMVSGDRLKINKNAMFSERDLEALLHHEIGVHLLTTLNGR 184 (349)
T ss_pred HHHHHHHHHHHHhccc-CceEEEEEcCCcchhhcccCCeeEEcCCCCcCHHHHHHHHHHhhhhhhccccccc
Confidence 4566777777762211 11244444444333322222239999999999999999999999 9986544433
No 79
>PF13574 Reprolysin_2: Metallo-peptidase family M12B Reprolysin-like; PDB: 1KAP_P 1JIW_P 1AKL_A 1OM7_A 1OM8_A 1O0T_A 1OM6_A 1H71_P 1O0Q_A 1OMJ_A ....
Probab=33.74 E-value=26 Score=28.60 Aligned_cols=16 Identities=25% Similarity=0.146 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHhhhc
Q 029293 91 VNQVIIHELIHAYDEC 106 (195)
Q Consensus 91 ~~~tL~HELIHayD~c 106 (195)
--+|++|||=|.+---
T Consensus 111 ~~~~~aHElGH~lGa~ 126 (173)
T PF13574_consen 111 GIDTFAHELGHQLGAP 126 (173)
T ss_dssp HHHHHHHHHHHHHT--
T ss_pred eeeeehhhhHhhcCCC
Confidence 4578999999998643
No 80
>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=31.88 E-value=31 Score=28.60 Aligned_cols=16 Identities=38% Similarity=0.565 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHhhh
Q 029293 90 EVNQVIIHELIHAYDE 105 (195)
Q Consensus 90 ~~~~tL~HELIHayD~ 105 (195)
....|+.|||-||.=+
T Consensus 91 ~~~~~i~HElgHaLG~ 106 (198)
T cd04327 91 EFSRVVLHEFGHALGF 106 (198)
T ss_pred hHHHHHHHHHHHHhcC
Confidence 4568999999999754
No 81
>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=31.69 E-value=24 Score=27.92 Aligned_cols=17 Identities=29% Similarity=0.370 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHhh
Q 029293 88 QDEVNQVIIHELIHAYD 104 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD 104 (195)
...+..|++|||=||.=
T Consensus 104 ~~~~~~~~~HEiGHaLG 120 (157)
T cd04278 104 GTDLFSVAAHEIGHALG 120 (157)
T ss_pred cchHHHHHHHHhccccc
Confidence 45799999999999953
No 82
>PF06505 XylR_N: Activator of aromatic catabolism; InterPro: IPR010523 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators in several proteobacteria, including activators of phenol degradation such as XylR. It is found adjacent to IPR004096 from INTERPRO.
Probab=31.69 E-value=33 Score=26.54 Aligned_cols=37 Identities=24% Similarity=0.349 Sum_probs=30.0
Q ss_pred ccCCCC-eEEecCcC--CCHHHHHHHHHHHHHHHhhhcccc
Q 029293 72 YVRGEG-ILVCSNHM--NIQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 72 f~p~~g-IvlC~N~~--~~~~~~~~tL~HELIHayD~cR~k 109 (195)
|+|+.| |+|..++| .....+ .+|-+|||.....-+++
T Consensus 8 F~p~~G~Iwl~~~RmlL~~~~al-g~LRkELi~~lG~~~AR 47 (103)
T PF06505_consen 8 FSPEDGRIWLNGQRMLLMHASAL-GALRKELIETLGEERAR 47 (103)
T ss_pred EeCCCCeEEECCEEEEEEchhHH-HHHHHHHHHHhCHHHHH
Confidence 889999 99999987 334444 57999999999888877
No 83
>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=30.29 E-value=27 Score=29.82 Aligned_cols=25 Identities=24% Similarity=0.319 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhhh----cccc-----cCCccCch
Q 029293 93 QVIIHELIHAYDE----CRAA-----NLDWSNCA 117 (195)
Q Consensus 93 ~tL~HELIHayD~----cR~k-----nvDw~nc~ 117 (195)
.|++|||.||-=+ .|.+ +|+|.|..
T Consensus 89 Gti~HEl~HaLGf~HEhsRpDRD~yV~I~~~nI~ 122 (200)
T cd04281 89 GIVVHELGHVIGFWHEHTRPDRDDHVTIIRENIQ 122 (200)
T ss_pred chHHHHHHHHhcCcchhccccccceEEEeecccC
Confidence 6999999999643 3322 26777763
No 84
>PF15641 Tox-MPTase5: Metallopeptidase toxin 5
Probab=30.26 E-value=46 Score=25.93 Aligned_cols=36 Identities=28% Similarity=0.226 Sum_probs=27.0
Q ss_pred ccCCCCeEEecCcCCCHHHHHHHHHHHHHHHhhhcc
Q 029293 72 YVRGEGILVCSNHMNIQDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 72 f~p~~gIvlC~N~~~~~~~~~~tL~HELIHayD~cR 107 (195)
=.|..|--+=-|++.++..|++|++||=.|--=..|
T Consensus 45 ak~~~gt~~g~~~f~sra~lr~~iiheelhhrw~~r 80 (109)
T PF15641_consen 45 AKPNEGTQFGFNSFSSRAELRNTIIHEELHHRWWKR 80 (109)
T ss_pred ccCCcccchhhhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 345666667779999999999999999777433333
No 85
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=29.65 E-value=31 Score=25.66 Aligned_cols=12 Identities=25% Similarity=0.412 Sum_probs=10.9
Q ss_pred HHHHHHHHHHhh
Q 029293 93 QVIIHELIHAYD 104 (195)
Q Consensus 93 ~tL~HELIHayD 104 (195)
.|++|||=|.+.
T Consensus 109 ~~~~HEiGH~lG 120 (124)
T PF13582_consen 109 DTFAHEIGHNLG 120 (124)
T ss_dssp THHHHHHHHHTT
T ss_pred eEeeehhhHhcC
Confidence 999999999874
No 86
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 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 M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=29.09 E-value=34 Score=27.83 Aligned_cols=18 Identities=22% Similarity=0.235 Sum_probs=13.6
Q ss_pred CHHHHHHHHHHHHHHHhh
Q 029293 87 IQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 87 ~~~~~~~tL~HELIHayD 104 (195)
.+...-.||+||+=|.+-
T Consensus 65 ~~~~~g~TltHEvGH~LG 82 (154)
T PF05572_consen 65 SQYNFGKTLTHEVGHWLG 82 (154)
T ss_dssp TTS-SSHHHHHHHHHHTT
T ss_pred Cccccccchhhhhhhhhc
Confidence 456678999999988764
No 87
>PF13688 Reprolysin_5: Metallo-peptidase family M12; PDB: 2FV5_B 3EWJ_A 3KME_A 3L0T_B 1BKC_E 3G42_D 2I47_D 2FV9_B 3LEA_A 1ZXC_B ....
Probab=28.98 E-value=56 Score=26.37 Aligned_cols=20 Identities=15% Similarity=0.052 Sum_probs=14.6
Q ss_pred CCHHHHHHHHHHHHHHHhhh
Q 029293 86 NIQDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 86 ~~~~~~~~tL~HELIHayD~ 105 (195)
.....--.|++|||=|.+--
T Consensus 137 ~~~~~~~~~~AHEiGH~lGa 156 (196)
T PF13688_consen 137 PPTYNGAITFAHEIGHNLGA 156 (196)
T ss_dssp --HHHHHHHHHHHHHHHTT-
T ss_pred CCCCceehhhHHhHHHhcCC
Confidence 34567779999999999853
No 88
>KOG1047 consensus Bifunctional leukotriene A4 hydrolase/aminopeptidase LTA4H [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones; Defense mechanisms; Amino acid transport and metabolism]
Probab=28.44 E-value=1.4e+02 Score=30.06 Aligned_cols=75 Identities=19% Similarity=0.163 Sum_probs=45.0
Q ss_pred cHHHHHHHHHHHhCCCCC-CCCeEEEeCCCCCcccccCCCCeEEecCcCCCHHHHHHHHHHHHHHHhhhcccccCCc
Q 029293 38 PTVKFLRQHLEKAGCGFG-DKFIKAVHCDKKIAGGYVRGEGILVCSNHMNIQDEVNQVIIHELIHAYDECRAANLDW 113 (195)
Q Consensus 38 P~Vkfm~~~l~~~Gc~~~-~~~i~c~~C~~~~~GGf~p~~gIvlC~N~~~~~~~~~~tL~HELIHayD~cR~knvDw 113 (195)
-+=.||..+=+-.|--+. +=.+.+.| ++.-.||-..+-=.+|=.--|..-..+-++++||+.|.|=-.--.|.+|
T Consensus 235 ~~e~~L~~Ae~l~GpY~WgryDllvlP-pSFP~gGMENPcltF~TpTllaGDrsl~~vIaHEIAHSWtGNlVTN~sW 310 (613)
T KOG1047|consen 235 ETEDFLKAAEKLFGPYVWGRYDLLVLP-PSFPFGGMENPCLTFVTPTLLAGDRSLVDVIAHEIAHSWTGNLVTNASW 310 (613)
T ss_pred hhHHHHHHHHHHcCCcccccceEEEec-CCCCcccccCcceeeecchhhcCCcchhhHHHHHhhhhhcccccccCcc
Confidence 333444444444444344 44555554 3345677755443555566677778889999999999885433333565
No 89
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=27.56 E-value=55 Score=25.04 Aligned_cols=17 Identities=18% Similarity=0.626 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 029293 88 QDEVNQVIIHELIHAYD 104 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD 104 (195)
...+..||.||+-|.|-
T Consensus 70 ~~~I~~tlvhEiah~fG 86 (97)
T PF06262_consen 70 AELIRDTLVHEIAHHFG 86 (97)
T ss_dssp HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 45677889999999874
No 90
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=27.10 E-value=40 Score=31.38 Aligned_cols=24 Identities=25% Similarity=0.325 Sum_probs=18.3
Q ss_pred CCHHHHHHHHHHHHHHHhhhcccc
Q 029293 86 NIQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 86 ~~~~~~~~tL~HELIHayD~cR~k 109 (195)
.+..+|-++|.|||.|.==+.+.+
T Consensus 160 ~~~~~LA~LIfHELaHq~~Yv~~d 183 (337)
T PF10023_consen 160 YPDGELARLIFHELAHQTLYVKGD 183 (337)
T ss_pred CCchHHHHHHHHHHhhceeecCCC
Confidence 567889999999999975444433
No 91
>cd06258 Peptidase_M3_like The peptidase M3-like family, also called neurolysin-like family, is part of the "zincins" metallopeptidases, and includes M3, M2 and M32 families of metallopeptidases. The M3 family is subdivided into two subfamilies: the widespread M3A, which comprises a number of high-molecular mass endo- and exopeptidases from bacteria, archaea, protozoa, fungi, plants and animals, and the small M3B, whose members are enzymes primarily from bacteria. Well-known mammalian/eukaryotic M3A endopeptidases are the thimet oligopeptidase (TOP; endopeptidase 3.4.24.15), neurolysin (alias endopeptidase 3.4.24.16), and the mitochondrial intermediate peptidase. The first two are intracellular oligopeptidases, which act only on relatively short substrates of less than 20 amino acid residues, while the latter cleaves N-terminal octapeptides from proteins during their import into the mitochondria. The M3A subfamily also contains several bacterial endopeptidases, collectively called olig
Probab=26.27 E-value=1.1e+02 Score=27.39 Aligned_cols=27 Identities=19% Similarity=0.341 Sum_probs=19.2
Q ss_pred ChhhHHHHHHhHhc--CcHHHHHHHHHHH
Q 029293 23 TIEECQDMIQRSLR--NPTVKFLRQHLEK 49 (195)
Q Consensus 23 ~~~~Ce~~~~~~l~--sP~Vkfm~~~l~~ 49 (195)
+.+.+++..+.+-+ .|.+...++.+++
T Consensus 35 ~~e~v~~f~~~l~~~~~p~~~~~~~~l~~ 63 (365)
T cd06258 35 SPETVEGFFEELKRKLRPLLAKLREEISA 63 (365)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677777777666 6877777776655
No 92
>KOG3714 consensus Meprin A metalloprotease [Posttranslational modification, protein turnover, chaperones]
Probab=25.98 E-value=32 Score=32.26 Aligned_cols=26 Identities=35% Similarity=0.716 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHhh----hcccc-----cCCccCch
Q 029293 92 NQVIIHELIHAYD----ECRAA-----NLDWSNCA 117 (195)
Q Consensus 92 ~~tL~HELIHayD----~cR~k-----nvDw~nc~ 117 (195)
..|++|||.||-= |.|.+ .|+|+|..
T Consensus 160 ~G~i~HEl~HaLGf~HehsR~DRD~yV~I~~~ni~ 194 (411)
T KOG3714|consen 160 FGTIVHELMHALGFWHEHSRPDRDNYVSINWDNID 194 (411)
T ss_pred CchhHHHHHHHhhhhhccCcccccCceEEeeccCC
Confidence 6899999999964 34433 15677654
No 93
>PTZ00046 rifin; Provisional
Probab=25.89 E-value=65 Score=30.33 Aligned_cols=57 Identities=23% Similarity=0.363 Sum_probs=42.3
Q ss_pred ChhhHHHHHHhH-hcCcHHHHHHHHHHHhCCCCCCCCeEEEeCCCC--------------CcccccCCCCeE
Q 029293 23 TIEECQDMIQRS-LRNPTVKFLRQHLEKAGCGFGDKFIKAVHCDKK--------------IAGGYVRGEGIL 79 (195)
Q Consensus 23 ~~~~Ce~~~~~~-l~sP~Vkfm~~~l~~~Gc~~~~~~i~c~~C~~~--------------~~GGf~p~~gIv 79 (195)
--++|++.+++. |++-+=|-|.+++..+.-+++.+.|-==.|..+ ..||-.|.-|++
T Consensus 86 cKeqCDKeIQKIILKDKlEKeL~ekf~tL~TdI~tddIPTCVCEKSlADKvEK~CLkCG~~LGgVaP~~Gli 157 (358)
T PTZ00046 86 CKEQCDKEIQKIILKDKLEKELMEKFATLQTDIQSDAIPTCVCEKSLADKVEKGCLRCGCGLGGVAPSWGLI 157 (358)
T ss_pred HHHhhchHHHHHHHHHHHHHHHHhhhhhcccCCccccCccccccchHHHHHHHHHHhcCCcccccccccccc
Confidence 346799999994 559999999999999999998555532234432 357888988753
No 94
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=25.33 E-value=41 Score=34.49 Aligned_cols=63 Identities=22% Similarity=0.152 Sum_probs=34.8
Q ss_pred HhCCCCC-CCCeEEEeCCCCCcccccCCCCeEEecC-------cC--CCHHHHHHHHHHHHHHHhhhcccccCCc
Q 029293 49 KAGCGFG-DKFIKAVHCDKKIAGGYVRGEGILVCSN-------HM--NIQDEVNQVIIHELIHAYDECRAANLDW 113 (195)
Q Consensus 49 ~~Gc~~~-~~~i~c~~C~~~~~GGf~p~~gIvlC~N-------~~--~~~~~~~~tL~HELIHayD~cR~knvDw 113 (195)
..|.+.+ +..+++.+ ....||..-..-|++=.+ .. .+...++.+++|||.|.|=--+..+=+|
T Consensus 257 ~fg~~y~l~~~~V~v~--~f~~GaMEN~Gl~tf~~~~ll~~~~~at~~~~~~~~~viaHElaHqWfGnlVT~~~W 329 (859)
T COG0308 257 YFGLPYALPIDIVAVP--DFSAGAMENWGLVTFREKYLLADPETATDSDYENVEEVIAHELAHQWFGNLVTMKWW 329 (859)
T ss_pred hcCCCCCCcccEEecc--CCCCccccccceeEEeeeEEeeCcccchhHHHHHHHHHHHHHHhhhcccceeeccCH
Confidence 3566666 33455443 345677643211222222 22 2347788899999999985555442355
No 95
>cd04270 ZnMc_TACE_like Zinc-dependent metalloprotease; TACE_like subfamily. TACE, the tumor-necrosis factor-alpha converting enzyme, releases soluble TNF-alpha from transmembrane pro-TNF-alpha.
Probab=25.13 E-value=76 Score=27.43 Aligned_cols=28 Identities=29% Similarity=0.342 Sum_probs=18.6
Q ss_pred CeEEecCcCC--CHHHHHHHHHHHHHHHhh
Q 029293 77 GILVCSNHMN--IQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 77 gIvlC~N~~~--~~~~~~~tL~HELIHayD 104 (195)
||+.-+|+-. ....+.-||||||=|.+=
T Consensus 151 gl~t~~~~~~~~~~~~~a~t~AHElGHnlG 180 (244)
T cd04270 151 GLTTTVNYGKRVPTKESDLVTAHELGHNFG 180 (244)
T ss_pred ceEeeeccCCccchhHHHHHHHHHHHHhcC
Confidence 4555554432 234477899999999874
No 96
>PLN02887 hydrolase family protein
Probab=24.90 E-value=35 Score=33.70 Aligned_cols=32 Identities=25% Similarity=0.488 Sum_probs=26.0
Q ss_pred CC-eEEecCcCCC---------HHHHHHHHHHHHHHH--hhhcc
Q 029293 76 EG-ILVCSNHMNI---------QDEVNQVIIHELIHA--YDECR 107 (195)
Q Consensus 76 ~g-IvlC~N~~~~---------~~~~~~tL~HELIHa--yD~cR 107 (195)
.| |+||-+.+.. ..++..+|+|-+.|. |||-.
T Consensus 205 lGDIvIs~~~~~~qA~e~~~s~~~el~~l~vHG~LHLlGyDH~~ 248 (580)
T PLN02887 205 LGDIVISVETAARQAEERGHTLLDEIRILVVHGLLHLLGFDHEI 248 (580)
T ss_pred ceEEEEeHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhcCCCCCC
Confidence 57 9999877753 568889999999998 88864
No 97
>PRK15410 DgsA anti-repressor MtfA; Provisional
Probab=24.58 E-value=34 Score=30.65 Aligned_cols=37 Identities=24% Similarity=0.279 Sum_probs=23.4
Q ss_pred cccCCCC-eEEecCcCCC--HHHHHHHHHHHHHHHhhhcc
Q 029293 71 GYVRGEG-ILVCSNHMNI--QDEVNQVIIHELIHAYDECR 107 (195)
Q Consensus 71 Gf~p~~g-IvlC~N~~~~--~~~~~~tL~HELIHayD~cR 107 (195)
|-++..| |||-=..+.. ...=.+++.||+.|..|..-
T Consensus 119 GEaw~~GpVVLSW~d~~~~~~~dg~NVvIHEFAH~LDm~~ 158 (260)
T PRK15410 119 GQSWQQGPIVLNWLDIQDSFDASGFNLIIHEVAHKLDMRN 158 (260)
T ss_pred ccCcCCCcEEEEHHHhhcccCCCCcchhHhHHHhHhhhhc
Confidence 4455666 6665333211 01135899999999999976
No 98
>PF07607 DUF1570: Protein of unknown function (DUF1570); InterPro: IPR011464 This entry represents hypothetical proteins confined to bacteria.
Probab=24.03 E-value=43 Score=26.85 Aligned_cols=15 Identities=27% Similarity=0.233 Sum_probs=11.3
Q ss_pred HHHHHHHHHHhhhcc
Q 029293 93 QVIIHELIHAYDECR 107 (195)
Q Consensus 93 ~tL~HELIHayD~cR 107 (195)
.||+||-||--=+..
T Consensus 3 ~T~~HEa~HQl~~N~ 17 (128)
T PF07607_consen 3 ATIAHEATHQLAFNT 17 (128)
T ss_pred hHHHHHHHHHHHHHc
Confidence 589999999755443
No 99
>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=24.02 E-value=47 Score=27.61 Aligned_cols=21 Identities=33% Similarity=0.352 Sum_probs=13.9
Q ss_pred eEEecCcCCCHHHHHHHHHHHHHHHh
Q 029293 78 ILVCSNHMNIQDEVNQVIIHELIHAY 103 (195)
Q Consensus 78 IvlC~N~~~~~~~~~~tL~HELIHay 103 (195)
|.|...-+ -..|+.|||.||-
T Consensus 71 i~l~~~c~-----~~~~i~HEl~HaL 91 (191)
T PF01400_consen 71 INLGDGCF-----SVGTILHELGHAL 91 (191)
T ss_dssp EEE-TTC------SHHHHHHHHHHHH
T ss_pred EEecceeC-----CccchHHHHHHHH
Confidence 67764333 2469999999995
No 100
>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=23.87 E-value=42 Score=28.25 Aligned_cols=26 Identities=35% Similarity=0.638 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHhhh----cc-----cccCCccCch
Q 029293 92 NQVIIHELIHAYDE----CR-----AANLDWSNCA 117 (195)
Q Consensus 92 ~~tL~HELIHayD~----cR-----~knvDw~nc~ 117 (195)
..|++|||.||-=. .| .=.|+|.|..
T Consensus 78 ~G~i~HEl~HaLG~~HEhsRpDRD~yV~I~~~nI~ 112 (182)
T cd04283 78 KGIIQHELLHALGFYHEQTRSDRDKYVRINWENII 112 (182)
T ss_pred cchHHHHHHHHhCCcccccccccCceEEEehhhcC
Confidence 46999999999632 22 2127787754
No 101
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=23.56 E-value=65 Score=27.07 Aligned_cols=24 Identities=33% Similarity=0.242 Sum_probs=18.8
Q ss_pred CCHHHHHHHHHHHHHHHhhhcccc
Q 029293 86 NIQDEVNQVIIHELIHAYDECRAA 109 (195)
Q Consensus 86 ~~~~~~~~tL~HELIHayD~cR~k 109 (195)
.....++.|+.|||.|.-=|--++
T Consensus 56 n~~~f~~~vV~HELaHl~ly~~~g 79 (156)
T COG3091 56 NGEDFIEQVVPHELAHLHLYQEFG 79 (156)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHcC
Confidence 346779999999999987666554
No 102
>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=23.51 E-value=40 Score=27.72 Aligned_cols=25 Identities=36% Similarity=0.760 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHhh----hccc------ccCCccCch
Q 029293 92 NQVIIHELIHAYD----ECRA------ANLDWSNCA 117 (195)
Q Consensus 92 ~~tL~HELIHayD----~cR~------knvDw~nc~ 117 (195)
..|+.|||.||-= |.|. . |+|.|..
T Consensus 75 ~g~v~HE~~HalG~~HEh~R~DRD~yv~-i~~~ni~ 109 (180)
T cd04280 75 LGTIVHELMHALGFYHEQSRPDRDDYVT-INWENIQ 109 (180)
T ss_pred CchhHHHHHHHhcCcchhcccccCCeEE-EeecccC
Confidence 5899999999964 3343 3 7888754
No 103
>cd04267 ZnMc_ADAM_like Zinc-dependent metalloprotease, ADAM_like or reprolysin_like subgroup. The adamalysin_like or ADAM family of metalloproteases contains proteolytic domains from snake venoms, proteases from the mammalian reproductive tract, and the tumor necrosis factor alpha convertase, TACE. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=23.24 E-value=38 Score=27.39 Aligned_cols=17 Identities=24% Similarity=0.157 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 029293 88 QDEVNQVIIHELIHAYD 104 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD 104 (195)
....-.|++|||-|.+-
T Consensus 130 ~~~~~~~~aHElGH~lG 146 (192)
T cd04267 130 TLLTALTMAHELGHNLG 146 (192)
T ss_pred ceeehhhhhhhHHhhcC
Confidence 44567799999999973
No 104
>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=23.20 E-value=52 Score=26.67 Aligned_cols=18 Identities=39% Similarity=0.305 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 029293 88 QDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 88 ~~~~~~tL~HELIHayD~ 105 (195)
......|++|||=||.=-
T Consensus 110 g~~~~~t~~HEiGHaLGL 127 (186)
T cd04277 110 GSYGYQTIIHEIGHALGL 127 (186)
T ss_pred ChhhHHHHHHHHHHHhcC
Confidence 456799999999998743
No 105
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=22.80 E-value=73 Score=30.68 Aligned_cols=37 Identities=22% Similarity=0.225 Sum_probs=28.4
Q ss_pred CCCCeEEecCcC-----CCHHHHHHHHHHHHHHHhhhccccc
Q 029293 74 RGEGILVCSNHM-----NIQDEVNQVIIHELIHAYDECRAAN 110 (195)
Q Consensus 74 p~~gIvlC~N~~-----~~~~~~~~tL~HELIHayD~cR~kn 110 (195)
..+.|+|=-+-+ -+-+++..+|+|||-|+.+.--.||
T Consensus 258 ~~KRIvIyDtLl~~~~~~~~eel~AVl~HELGHW~~~H~~K~ 299 (428)
T KOG2719|consen 258 KNKRIVIYDTLLLEEEHLNNEELVAVLAHELGHWKLNHVLKN 299 (428)
T ss_pred ccceEEEehhhhhhhhccccHHHHHHHHHHhhHHHHhhHHHH
Confidence 344587766655 4678899999999999988776663
No 106
>cd04269 ZnMc_adamalysin_II_like Zinc-dependent metalloprotease; adamalysin_II_like subfamily. Adamalysin II is a snake venom zinc endopeptidase. This subfamily contains other snake venom metalloproteinases, as well as membrane-anchored metalloproteases belonging to the ADAM family. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=22.66 E-value=1.3e+02 Score=24.30 Aligned_cols=31 Identities=19% Similarity=0.015 Sum_probs=18.7
Q ss_pred CCCCeEEecCcCCCHHHHHHHHHHHHHHHhh
Q 029293 74 RGEGILVCSNHMNIQDEVNQVIIHELIHAYD 104 (195)
Q Consensus 74 p~~gIvlC~N~~~~~~~~~~tL~HELIHayD 104 (195)
|..++.|-+..-......--+++|||-|.+-
T Consensus 114 ~~~~~~v~~~~~~~~~~~a~~~AHElGH~lG 144 (194)
T cd04269 114 PKYSGGVVQDHSRNLLLFAVTMAHELGHNLG 144 (194)
T ss_pred CCcceEEEEeCCcchHHHHHHHHHHHHhhcC
Confidence 3444333333322244567899999999884
No 107
>COG0759 Uncharacterized conserved protein [Function unknown]
Probab=22.38 E-value=17 Score=28.03 Aligned_cols=36 Identities=22% Similarity=0.319 Sum_probs=21.3
Q ss_pred HHHHHHHHHhCCCCC--CCCeEEEeCCCCCcccccCCC
Q 029293 41 KFLRQHLEKAGCGFG--DKFIKAVHCDKKIAGGYVRGE 76 (195)
Q Consensus 41 kfm~~~l~~~Gc~~~--~~~i~c~~C~~~~~GGf~p~~ 76 (195)
.|.+++|++.|.-.. -..+....|.....|||||..
T Consensus 37 ~Ya~eAi~~hG~lkG~~l~~~RIlrC~Pf~~GG~DpvP 74 (92)
T COG0759 37 EYAIEALKKHGLLKGLWLTLKRILRCHPFHKGGYDPVP 74 (92)
T ss_pred HHHHHHHHHhchHHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence 456666666663221 222334456677789999865
No 108
>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=21.26 E-value=49 Score=29.01 Aligned_cols=25 Identities=24% Similarity=0.470 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHhhh----cc------cccCCccCch
Q 029293 92 NQVIIHELIHAYDE----CR------AANLDWSNCA 117 (195)
Q Consensus 92 ~~tL~HELIHayD~----cR------~knvDw~nc~ 117 (195)
..|++|||-||-=+ .| -+ |+|.|..
T Consensus 121 ~Gti~HEl~HalGf~HEqsRpDRD~yV~-I~~~nI~ 155 (230)
T cd04282 121 KATVEHEFLHALGFYHEQSRSDRDDYVK-IWWDQIL 155 (230)
T ss_pred CchHHHHHHHHhCCcccccccccccceE-EeecccC
Confidence 47999999999743 23 23 7787764
No 109
>cd06460 M32_Taq Peptidase family M32 is a subclass of metallocarboxypeptidases which are distributed mainly in bacteria and archaea, and contain a HEXXH motif that coordinates a divalent cation such as Zn2+ or Co2+, so far only observed in the active site of neutral metallopeptidases but not in carboxypeptidases. M32 includes the thermostable carboxypeptidases (E.C. 3.4.17.19) from Thermus aquaticus (TaqCP) and Pyrococcus furiosus (PfuCP), which have broad specificities toward a wide range of C-terminal substrates that include basic, aromatic, neutral and polar amino acids. These enzymes have a similar fold to the M3 peptidases such as neurolysin and the M2 angiotensin converting enzyme (ACE). Novel peptidases from protozoa Trypanosoma cruzi, a causative agent of Chagas' disease, and Leishmania major, a parasite that causes leishmaniasis, are the first eukaryotic M32 enzymes identified so far, thus making these enzymes an attractive potential target for drug development against these o
Probab=20.58 E-value=2.9e+02 Score=26.09 Aligned_cols=62 Identities=23% Similarity=0.219 Sum_probs=36.6
Q ss_pred HHHHHHHHHhCCCCCCCCeEEEeCCCCCcccccCCCCeEEecCcCCC-HHHHHHHHHHHHHHHhhh
Q 029293 41 KFLRQHLEKAGCGFGDKFIKAVHCDKKIAGGYVRGEGILVCSNHMNI-QDEVNQVIIHELIHAYDE 105 (195)
Q Consensus 41 kfm~~~l~~~Gc~~~~~~i~c~~C~~~~~GGf~p~~gIvlC~N~~~~-~~~~~~tL~HELIHayD~ 105 (195)
+|..+-++.+|-+++...|.-.+ .+-.+|+.|. -+-|.-|+-.+ -..---+++||+=||.=.
T Consensus 111 ~~~~~~~~~~g~df~~griD~s~--hpF~~~~~~~-dvRItt~y~~~d~~~~l~t~iHE~GHalye 173 (396)
T cd06460 111 ALGRELLEALGFDFDRGRLDVSA--HPFTGGLGPG-DVRITTRYDENDFRSALFSTIHETGHALYE 173 (396)
T ss_pred HHHHHHHHHhCCcccCCeeecCC--CCCCCCCCCC-CceEEeeeCCcchHHHHHHHHHHhhHHHHH
Confidence 45556667788777665555443 2234566554 45565555443 222225899999998643
Done!