Query 020890
Match_columns 320
No_of_seqs 229 out of 550
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 05:58:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020890.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020890hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06160 S2P-M50_like_2 Unchara 99.8 9.2E-21 2E-25 170.0 13.4 128 162-318 2-131 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.6 2E-14 4.4E-19 132.6 14.2 111 188-318 41-151 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.5 2.6E-13 5.7E-18 123.2 10.9 109 188-318 26-134 (208)
4 cd05709 S2P-M50 Site-2 proteas 99.3 4.1E-12 9E-17 111.4 9.6 114 194-319 2-137 (180)
5 cd06163 S2P-M50_PDZ_RseP-like 99.2 1.7E-10 3.6E-15 103.8 10.2 78 194-272 3-111 (182)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.2 3.1E-10 6.8E-15 107.5 12.1 83 189-273 107-192 (263)
7 PF02163 Peptidase_M50: Peptid 99.1 1.3E-10 2.8E-15 102.4 7.3 112 195-318 2-142 (192)
8 cd06162 S2P-M50_PDZ_SREBP Ster 98.7 2.4E-08 5.2E-13 95.6 7.9 76 191-272 126-208 (277)
9 TIGR00054 RIP metalloprotease 98.5 3.4E-07 7.4E-12 91.4 8.1 82 193-274 7-119 (420)
10 cd06158 S2P-M50_like_1 Unchara 98.4 9.1E-07 2E-11 79.4 8.7 81 195-275 4-105 (181)
11 PRK10779 zinc metallopeptidase 98.4 6.6E-07 1.4E-11 89.9 8.2 82 192-274 7-119 (449)
12 COG1994 SpoIVFB Zn-dependent p 97.3 0.0012 2.7E-08 61.0 8.6 70 189-264 41-110 (230)
13 PF13398 Peptidase_M50B: Pepti 97.0 0.0015 3.2E-08 59.5 6.2 66 201-273 23-88 (200)
14 COG0750 Predicted membrane-ass 96.8 0.0012 2.5E-08 63.8 3.7 119 199-319 181-320 (375)
15 COG0750 Predicted membrane-ass 95.2 0.059 1.3E-06 52.1 7.3 80 192-274 5-120 (375)
16 KOG2921 Intramembrane metallop 93.1 0.15 3.3E-06 51.9 5.3 121 191-316 121-268 (484)
17 PF05572 Peptidase_M43: Pregna 69.6 2.3 4.9E-05 37.5 1.1 16 200-215 69-84 (154)
18 PF11667 DUF3267: Protein of u 68.5 5.4 0.00012 32.7 3.1 72 199-277 3-74 (111)
19 PF00413 Peptidase_M10: Matrix 67.8 3.2 6.9E-05 34.8 1.6 20 200-219 105-124 (154)
20 PF13688 Reprolysin_5: Metallo 66.4 2.8 6.2E-05 36.9 1.1 22 198-219 140-161 (196)
21 cd04279 ZnMc_MMP_like_1 Zinc-d 64.5 4.2 9E-05 34.9 1.7 22 200-221 104-125 (156)
22 PF01435 Peptidase_M48: Peptid 64.1 4.9 0.00011 35.5 2.2 20 200-221 89-108 (226)
23 PF13485 Peptidase_MA_2: Pepti 63.3 6.2 0.00013 31.0 2.4 18 201-218 26-43 (128)
24 PF06114 DUF955: Domain of unk 62.4 5.2 0.00011 31.2 1.8 17 202-218 44-60 (122)
25 PF13574 Reprolysin_2: Metallo 61.0 4.4 9.5E-05 35.9 1.3 20 200-219 111-130 (173)
26 cd04268 ZnMc_MMP_like Zinc-dep 58.5 9.4 0.0002 32.4 2.9 25 195-219 89-113 (165)
27 KOG2264 Exostosin EXT1L [Signa 55.4 17 0.00037 39.2 4.6 102 8-126 131-235 (907)
28 cd04270 ZnMc_TACE_like Zinc-de 54.9 7.7 0.00017 36.4 1.9 22 197-218 164-185 (244)
29 cd04269 ZnMc_adamalysin_II_lik 53.7 9 0.00019 33.9 2.0 21 199-219 130-150 (194)
30 PF13582 Reprolysin_3: Metallo 53.0 6.1 0.00013 32.1 0.8 14 202-215 109-122 (124)
31 COG2856 Predicted Zn peptidase 50.8 8 0.00017 36.2 1.3 15 203-217 75-89 (213)
32 cd04278 ZnMc_MMP Zinc-dependen 50.8 7 0.00015 33.6 0.8 19 200-218 107-125 (157)
33 cd00203 ZnMc Zinc-dependent me 50.4 8.2 0.00018 32.7 1.2 21 198-218 94-114 (167)
34 cd04267 ZnMc_ADAM_like Zinc-de 50.0 7.4 0.00016 34.3 0.9 20 200-219 133-152 (192)
35 PF14891 Peptidase_M91: Effect 48.4 12 0.00026 33.3 1.9 19 200-218 103-121 (174)
36 PHA02456 zinc metallopeptidase 47.7 11 0.00024 32.7 1.5 17 204-220 83-99 (141)
37 PRK03001 M48 family peptidase; 47.6 12 0.00026 35.7 1.9 13 200-212 124-136 (283)
38 PF13699 DUF4157: Domain of un 47.1 12 0.00026 29.6 1.6 13 202-214 63-75 (79)
39 cd04277 ZnMc_serralysin_like Z 46.8 11 0.00024 33.2 1.4 19 200-218 113-131 (186)
40 smart00235 ZnMc Zinc-dependent 46.7 10 0.00022 31.6 1.2 16 203-218 89-104 (140)
41 PF12315 DUF3633: Protein of u 45.8 14 0.00031 34.8 2.1 30 188-220 83-112 (212)
42 PRK03982 heat shock protein Ht 45.0 14 0.0003 35.4 1.9 13 200-212 125-137 (288)
43 PF12388 Peptidase_M57: Dual-a 44.9 11 0.00024 35.4 1.3 26 193-218 126-151 (211)
44 PF01421 Reprolysin: Reprolysi 43.1 17 0.00038 32.2 2.2 22 198-219 129-150 (199)
45 COG5309 Exo-beta-1,3-glucanase 42.4 44 0.00095 33.1 4.9 67 58-127 215-284 (305)
46 PRK04897 heat shock protein Ht 42.1 16 0.00035 35.3 1.9 13 200-212 137-149 (298)
47 PRK02870 heat shock protein Ht 41.7 14 0.0003 36.8 1.4 19 200-221 173-191 (336)
48 PF13583 Reprolysin_4: Metallo 41.0 8.8 0.00019 35.1 -0.1 16 204-219 141-156 (206)
49 PF02031 Peptidase_M7: Strepto 39.4 18 0.0004 31.8 1.6 11 203-213 80-90 (132)
50 COG3824 Predicted Zn-dependent 39.1 14 0.0003 32.5 0.8 16 197-212 106-121 (136)
51 PRK01345 heat shock protein Ht 38.9 19 0.00042 35.2 1.9 13 200-212 124-136 (317)
52 COG0501 HtpX Zn-dependent prot 38.8 20 0.00043 33.4 1.9 13 200-212 157-169 (302)
53 cd04272 ZnMc_salivary_gland_MP 37.4 21 0.00045 32.5 1.8 20 201-220 146-165 (220)
54 smart00731 SprT SprT homologue 37.1 21 0.00046 30.7 1.7 18 199-216 58-75 (146)
55 PF13721 SecD-TM1: SecD export 37.0 43 0.00094 27.6 3.4 52 65-120 49-100 (101)
56 PRK02391 heat shock protein Ht 36.9 22 0.00047 34.5 1.9 12 200-211 133-144 (296)
57 PRK03072 heat shock protein Ht 36.6 22 0.00048 34.2 1.9 13 200-212 127-139 (288)
58 TIGR02500 type_III_yscD type I 36.4 83 0.0018 31.8 6.0 44 83-126 302-345 (410)
59 PRK05457 heat shock protein Ht 36.3 23 0.00049 34.2 1.9 12 200-211 134-145 (284)
60 PF10263 SprT-like: SprT-like 36.2 27 0.00058 29.7 2.2 18 199-216 59-76 (157)
61 PF14247 DUF4344: Domain of un 36.2 38 0.00082 31.9 3.3 25 196-221 88-112 (220)
62 cd03513 CrtW_beta-carotene-ket 36.0 60 0.0013 30.4 4.6 18 202-219 47-65 (225)
63 PRK01265 heat shock protein Ht 35.7 23 0.0005 35.1 1.9 20 200-222 140-159 (324)
64 cd04327 ZnMc_MMP_like_3 Zinc-d 35.3 21 0.00046 32.1 1.5 15 202-216 94-108 (198)
65 PF09585 Lin0512_fam: Conserve 34.4 19 0.0004 30.9 0.9 59 31-93 33-91 (113)
66 cd03512 Alkane-hydroxylase Alk 34.1 99 0.0021 30.3 6.0 16 195-210 81-96 (314)
67 PF13796 Sensor: Putative sens 33.9 3.2E+02 0.007 23.9 9.3 74 190-263 30-104 (181)
68 PF09471 Peptidase_M64: IgA Pe 33.1 25 0.00054 33.8 1.6 16 199-214 215-230 (264)
69 PF01434 Peptidase_M41: Peptid 32.4 32 0.00069 31.5 2.2 19 200-218 28-46 (213)
70 KOG2719 Metalloprotease [Gener 31.8 27 0.00057 36.2 1.7 41 200-241 280-320 (428)
71 cd04275 ZnMc_pappalysin_like Z 29.8 8.4 0.00018 36.1 -2.1 16 200-215 137-152 (225)
72 PRK09966 putative inner membra 29.7 1.7E+02 0.0036 28.3 6.7 98 17-136 237-334 (407)
73 cd06459 M3B_Oligoendopeptidase 29.0 32 0.0007 33.7 1.7 13 202-214 224-236 (427)
74 TIGR00275 flavoprotein, HI0933 28.8 52 0.0011 32.7 3.1 66 30-95 283-353 (400)
75 PF01431 Peptidase_M13: Peptid 28.8 43 0.00093 29.8 2.3 22 193-214 29-50 (206)
76 PF04228 Zn_peptidase: Putativ 28.2 46 0.00099 32.6 2.5 15 201-215 171-185 (292)
77 PF06262 DUF1025: Possibl zinc 27.6 41 0.00089 27.8 1.8 16 197-212 70-85 (97)
78 PF01432 Peptidase_M3: Peptida 27.5 39 0.00084 34.0 2.0 20 201-220 243-262 (458)
79 COG0819 TenA Putative transcri 27.2 72 0.0016 30.0 3.6 55 19-73 144-202 (218)
80 PRK10733 hflB ATP-dependent me 27.1 66 0.0014 34.5 3.7 38 201-241 409-448 (644)
81 TIGR02289 M3_not_pepF oligoend 26.6 38 0.00081 35.3 1.8 13 201-213 338-350 (549)
82 COG4783 Putative Zn-dependent 26.5 38 0.00082 35.6 1.7 18 200-219 130-147 (484)
83 PF01447 Peptidase_M4: Thermol 25.7 45 0.00097 29.4 1.8 11 203-213 138-148 (150)
84 PRK07650 4-amino-4-deoxychoris 25.3 79 0.0017 29.8 3.5 78 35-117 199-279 (283)
85 cd06258 Peptidase_M3_like The 24.7 37 0.00081 32.9 1.3 13 203-215 157-169 (365)
86 cd04271 ZnMc_ADAM_fungal Zinc- 24.5 28 0.00061 32.4 0.3 16 202-217 147-162 (228)
87 PF04315 DUF462: Protein of un 24.4 48 0.001 30.2 1.8 16 204-219 45-62 (164)
88 TIGR00181 pepF oligoendopeptid 24.4 41 0.00089 35.1 1.5 12 201-212 379-390 (591)
89 PRK04860 hypothetical protein; 23.3 78 0.0017 28.4 2.9 22 197-218 60-81 (160)
90 PRK10629 EnvZ/OmpR regulon mod 23.3 1.3E+02 0.0029 25.9 4.2 60 62-125 50-109 (127)
91 cd04276 ZnMc_MMP_like_2 Zinc-d 23.1 57 0.0012 30.0 2.1 19 198-216 114-132 (197)
92 PRK10245 adrA diguanylate cycl 22.2 2.3E+02 0.0051 27.9 6.3 80 23-119 200-280 (366)
93 TIGR03296 M6dom_TIGR03296 M6 f 22.1 21 0.00046 34.2 -1.0 12 201-212 166-177 (286)
94 PLN02259 branched-chain-amino- 22.0 99 0.0021 31.3 3.7 73 36-112 294-372 (388)
95 PF04155 Ground-like: Ground-l 22.0 1.5E+02 0.0032 22.8 3.9 29 96-124 22-50 (76)
96 cd04273 ZnMc_ADAMTS_like Zinc- 21.9 13 0.00028 33.6 -2.4 20 200-219 140-159 (207)
97 TIGR02290 M3_fam_3 oligoendope 21.8 52 0.0011 34.5 1.7 12 202-213 377-388 (587)
98 PF04298 Zn_peptidase_2: Putat 21.5 58 0.0013 30.9 1.8 14 202-215 91-104 (222)
99 PLN02782 Branched-chain amino 21.2 1.3E+02 0.0029 30.5 4.4 75 36-112 308-387 (403)
100 cd06455 M3A_TOP Peptidase M3 T 20.9 60 0.0013 33.2 1.9 25 97-121 157-181 (472)
101 PF12301 CD99L2: CD99 antigen 20.7 70 0.0015 29.1 2.1 26 252-277 109-134 (169)
102 KOG1047 Bifunctional leukotrie 20.6 48 0.001 35.7 1.1 16 200-215 288-303 (613)
103 PF10692 DUF2498: Protein of u 20.6 3.8E+02 0.0082 21.9 5.9 44 75-119 29-80 (82)
104 PRK13267 archaemetzincin-like 20.5 52 0.0011 29.9 1.2 16 202-217 127-142 (179)
105 KOG2661 Peptidase family M48 [ 20.5 70 0.0015 32.7 2.2 18 69-86 156-173 (424)
106 PF12046 DUF3529: Protein of u 20.4 32 0.0007 31.5 -0.1 48 60-107 42-90 (173)
107 cd04280 ZnMc_astacin_like Zinc 20.3 53 0.0012 29.3 1.2 16 202-217 76-91 (180)
108 PF14552 Tautomerase_2: Tautom 20.0 1.1E+02 0.0023 24.4 2.8 34 92-125 39-75 (82)
No 1
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=99.85 E-value=9.2e-21 Score=170.01 Aligned_cols=128 Identities=31% Similarity=0.428 Sum_probs=107.8
Q ss_pred HHHHHHHHHHHHHhhhccCCC--CchhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceee
Q 020890 162 VLCVATFGTIAIMSGLFLKPD--ATFDDYLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMN 239 (320)
Q Consensus 162 ~L~~~Tl~Tt~~~g~~~~~~~--~~~~~~~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~ 239 (320)
+++++|++|....+.+..+.+ ..+. .+..+++++++++.++.+||+||+++||++|+|++.|+++|+..+|++|+++
T Consensus 2 ~~~~~s~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~l~~~l~iHElgH~~~A~~~G~~~~~~~l~P~~~~G~~G~~~ 80 (183)
T cd06160 2 LLLVLTLLTTLLVGAWLSGNDVPGNPL-LLLQGLPFALALLAILGIHEMGHYLAARRHGVKASLPYFIPFPFIGTFGAFI 80 (183)
T ss_pred HHHHHHHHHHHHHHHHHhcccccccHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCccceeeeehHhcCcEEEEE
Confidence 577889888887765543322 1122 4678999999999999999999999999999999999999998899999999
Q ss_pred ecCCCCCCchhhhhhhhhhhHHHHHHHHHHHHHHHhhCCCCCCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhh
Q 020890 240 NYESLLPNKKALFDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLL 318 (320)
Q Consensus 240 ~~~s~~p~r~alfdIaiAGPlag~~~al~~~~~Gl~ls~~~~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~ 318 (320)
++++..++|+++++|++|||++|+++++++++++ +...+|+++.++++||+
T Consensus 81 ~~~~~~~~~~~~~~IalAGPl~nl~lali~~~~~----------------------------~~~~~~~nl~l~~fNLL 131 (183)
T cd06160 81 RMRSPIPNRKALFDIALAGPLAGLLLALPVLIIG----------------------------LAVAGWVGLLVTALNLL 131 (183)
T ss_pred EecCCCCChhHhehhhhhHHHHHHHHHHHHHHHH----------------------------HHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999887765 23456777777777775
No 2
>cd06164 S2P-M50_SpoIVFB_CBS SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. It has been proposed tha
Probab=99.59 E-value=2e-14 Score=132.61 Aligned_cols=111 Identities=18% Similarity=0.072 Sum_probs=91.6
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHHHHHH
Q 020890 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSL 267 (320)
Q Consensus 188 ~~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~~~al 267 (320)
.+..|+.++++++.++++||+||+++||++|+++. .+.+..||+++++++.++++++++.|++|||++++++++
T Consensus 41 ~~~~g~~~~~~l~~~v~iHElgH~~~A~~~G~~v~------~i~l~p~Gg~~~~~~~~~~~~~~~~IalAGPl~Nllla~ 114 (227)
T cd06164 41 AWLLGLAAALLLFASVLLHELGHSLVARRYGIPVR------SITLFLFGGVARLEREPETPGQEFVIAIAGPLVSLVLAL 114 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCeEC------eEEEEeeeEEEEecCCCCCHHHHhhhhhhHHHHHHHHHH
Confidence 57889999999999999999999999999999985 566777899999999999999999999999999999999
Q ss_pred HHHHHHHhhCCCCCCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhh
Q 020890 268 ALAVAAFVADGSFNGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLL 318 (320)
Q Consensus 268 ~~~~~Gl~ls~~~~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~ 318 (320)
+++++....+.+. .+....-+...+|+-++....||+
T Consensus 115 i~~~l~~~~~~~~--------------~~~~~~~~~~~~~~Nl~l~~fNLl 151 (227)
T cd06164 115 LFLLLSLALPGSG--------------AGPLGVLLGYLALINLLLAVFNLL 151 (227)
T ss_pred HHHHHHHHhcccc--------------chHHHHHHHHHHHHHHHHHHHhCc
Confidence 9888776554321 011112245567888888888987
No 3
>cd06161 S2P-M50_SpoIVFB SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB.
Probab=99.47 E-value=2.6e-13 Score=123.23 Aligned_cols=109 Identities=17% Similarity=0.073 Sum_probs=90.5
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHHHHHH
Q 020890 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSL 267 (320)
Q Consensus 188 ~~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~~~al 267 (320)
.|..++.+++.++.++++||+||+++||++|+++ +.+.+..||+++++++.+.+|++.+.|++|||++++++++
T Consensus 26 ~~~~~~~~~l~l~~~v~iHElgH~~~A~~~G~~v------~~i~l~p~Gg~~~~~~~~~~~~~~~lIalAGPl~n~~la~ 99 (208)
T cd06161 26 AWLLGLLEALLLFLSVLLHELGHALVARRYGIRV------RSITLLPFGGVAELEEEPETPKEEFVIALAGPLVSLLLAG 99 (208)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc------cceEEEeeeeeeeeccCCCChhHheeeeeehHHHHHHHHH
Confidence 5778999999999999999999999999999997 4677788899999998888999999999999999999999
Q ss_pred HHHHHHHhhCCCCCCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhh
Q 020890 268 ALAVAAFVADGSFNGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLL 318 (320)
Q Consensus 268 ~~~~~Gl~ls~~~~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~ 318 (320)
+++++....++. ....+.+...+|+.++..+.||+
T Consensus 100 ~~~~l~~~~~~~----------------~~~~~~~~~~~~~N~~l~lfNLl 134 (208)
T cd06161 100 LFYLLYLLLPGG----------------GPLSSLLEFLAQVNLILGLFNLL 134 (208)
T ss_pred HHHHHHHHcccc----------------hHHHHHHHHHHHHHHHHHHHHcc
Confidence 887766544321 11233455667888888888886
No 4
>cd05709 S2P-M50 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. The domain core structure appears to contain at least three transmembrane helices with a catalytic zinc atom coordinated by three conserved residues contained within the consensus sequence HExxH, together with a conserved aspartate residue. The S2P/M50 family of RIP proteases is widely distributed; in eukaryotic cells, they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum (ER) stress responses. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of sterol regulatory element-bindin
Probab=99.35 E-value=4.1e-12 Score=111.38 Aligned_cols=114 Identities=18% Similarity=0.126 Sum_probs=84.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccc-----------------ccccccccccccccceeeecCCCCCC-----chhh
Q 020890 194 PLFGGLITILGVSEISTRLTAARYGVKL-----------------SPSFLVPSNWTGCLGVMNNYESLLPN-----KKAL 251 (320)
Q Consensus 194 p~al~ll~iL~~HElGH~~~Ar~~gv~~-----------------slPyFIP~~~lGtfGav~~~~s~~p~-----r~al 251 (320)
.+.++++.++.+||+||+++||++|+++ ...+++|. |++.++.+..++ |++.
T Consensus 2 ~~~~~~~i~i~iHE~gH~~~A~~~G~~~~~~~~~~~~~~~~~~~~~~~~~ip~------gG~~~~~~~~~~~~~~~~~~~ 75 (180)
T cd05709 2 AFILALLISVTVHELGHALVARRLGVKVARFSGGFTLNPLKHGDPYGIILIPL------GGYAKPVGENPRAFKKPRWQR 75 (180)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHcCCCchheeeeEEECCcCCCCEehHHHHhc------cCeeccCCCChhhhccchhhh
Confidence 4678889999999999999999999954 33444444 999999887765 8899
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHhhCCCCCCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhhc
Q 020890 252 FDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLLV 319 (320)
Q Consensus 252 fdIaiAGPlag~~~al~~~~~Gl~ls~~~~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~~ 319 (320)
+.|++|||+++++++++++.+....+....... . ........+.+.+.+|+.+...++||+-
T Consensus 76 ~~i~laGPl~nllla~i~~~~~~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~n~~l~~fNLlP 137 (180)
T cd05709 76 LLVALAGPLANLLLALLLLLLLLLLGGLPPAPV-----G-QAASSGLANLLAFLALINLNLAVFNLLP 137 (180)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHccCCccch-----h-hhHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 999999999999999999877765553211000 0 0011234556788899999999999873
No 5
>cd06163 S2P-M50_PDZ_RseP-like RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog RseP is involved in the sigmaE pathway of extracytoplasmic stress responses. Also included in this group are such homologs as Bacillus subtilis YluC, Mycobacterium tuberculosis Rv2869c S2P, and Bordetella bronchiseptica HurP. Rv2869c S2P appears to have a role in the regulation of prokaryotic lipid biosynthesis and membrane composition and YluC of Bacillus has a role in transducing membrane stress. This group includes bacterial and eukaryotic S2P/M50s homologs with either one or two PDZ domains present. PDZ domains are believed to have a regulatory role. The RseP PDZ domain is required for the inhibitory reaction that prevents cleavage of its substrate, RseA.
Probab=99.16 E-value=1.7e-10 Score=103.84 Aligned_cols=78 Identities=22% Similarity=0.160 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccccccccc---cc------------ccccccceeeecCCCCC------------
Q 020890 194 PLFGGLITILGVSEISTRLTAARYGVKLSPSFLV---PS------------NWTGCLGVMNNYESLLP------------ 246 (320)
Q Consensus 194 p~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFI---P~------------~~lGtfGav~~~~s~~p------------ 246 (320)
.+.+++..++.+||+||+++||++|+++.- |.| |. +.+-.+|++.++++..+
T Consensus 3 ~~~i~l~~~v~iHElGH~~~Ar~~Gv~v~~-f~iGfGp~l~~~~~~~t~~~i~~iPlGGyv~~~~~~~~~~~~~~~~~~~ 81 (182)
T cd06163 3 AFILVLGILIFVHELGHFLVAKLFGVKVEE-FSIGFGPKLFSFKKGETEYSISAIPLGGYVKMLGEDPEEEADPEDDPRS 81 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeeeE-eeeecCceeeeeecCCeEEEEEEEEeccEEEecCCCcccccccccchHH
Confidence 466788899999999999999999999752 111 10 11334799999886433
Q ss_pred ----CchhhhhhhhhhhHHHHHHHHHHHHH
Q 020890 247 ----NKKALFDIPVARTASAYLTSLALAVA 272 (320)
Q Consensus 247 ----~r~alfdIaiAGPlag~~~al~~~~~ 272 (320)
++++.+-|++|||+++++++++++.+
T Consensus 82 f~~~~~~~ri~V~lAGP~~NlilA~i~~~~ 111 (182)
T cd06163 82 FNSKPVWQRILIVFAGPLANFLLAIVLFAV 111 (182)
T ss_pred HccCCcchhhhhhhhHHHHHHHHHHHHHHH
Confidence 35677889999999999999887654
No 6
>cd06159 S2P-M50_PDZ_Arch Uncharacterized Archaeal homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group appears to be limited to Archaeal S2P/M50s homologs with additional putative N-terminal transmembrane spanning regions, relative to the core protein, and either one or two PDZ domains present.
Probab=99.15 E-value=3.1e-10 Score=107.45 Aligned_cols=83 Identities=14% Similarity=0.071 Sum_probs=65.6
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCC---CCchhhhhhhhhhhHHHHHH
Q 020890 189 LANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLL---PNKKALFDIPVARTASAYLT 265 (320)
Q Consensus 189 ~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~---p~r~alfdIaiAGPlag~~~ 265 (320)
+...+.+.++++.++.+||+||+++||++|+++..--+. ..+-.+||+.++.+.. .++++.+.|+.|||++++++
T Consensus 107 ~i~~~~~~iaL~isv~iHElgHa~~Ar~~G~~V~~iGl~--l~~ip~Gg~v~~~~~~~~~~~~~~~~~Ia~AGP~~Nlvl 184 (263)
T cd06159 107 FIPLPYGIIALVVGVVVHELSHGILARVEGIKVKSGGLL--LLIIPPGAFVEPDEEELNKADRRIRLRIFAAGVTANFVV 184 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCEECchhHH--HHhhhcEEEEEecchhhccCChhheeeeeeehHHHHHHH
Confidence 456777888999999999999999999999998631110 1112378999987765 56788999999999999999
Q ss_pred HHHHHHHH
Q 020890 266 SLALAVAA 273 (320)
Q Consensus 266 al~~~~~G 273 (320)
+++++++-
T Consensus 185 a~i~~~l~ 192 (263)
T cd06159 185 ALIAFALF 192 (263)
T ss_pred HHHHHHHH
Confidence 98887653
No 7
>PF02163 Peptidase_M50: Peptidase family M50; InterPro: IPR008915 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 entry contains metallopeptidases belonging to MEROPS peptidase family M50 (S2P protease family, clan MM). Members of the M50 metallopeptidase family include: mammalian sterol-regulatory element binding protein (SREBP) site 2 protease, Escherichia coli protease EcfE, stage IV sporulation protein FB and various hypothetical bacterial and eukaryotic homologues. A number of proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity.; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3B4R_A 3ID4_A 3ID2_A 2ZPL_B 3ID1_A 2ZPM_A 3ID3_B 2HGA_A.
Probab=99.12 E-value=1.3e-10 Score=102.42 Aligned_cols=112 Identities=15% Similarity=0.108 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCcccccccccc--ccc---------------c-------c-----ccceeeecCCCC
Q 020890 195 LFGGLITILGVSEISTRLTAARYGVKLSPSFLVP--SNW---------------T-------G-----CLGVMNNYESLL 245 (320)
Q Consensus 195 ~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP--~~~---------------l-------G-----tfGav~~~~s~~ 245 (320)
+.++++.++.+||+||.++|+++|.++.-...-+ .+. + | ..++..+.+...
T Consensus 2 ~~~~~~i~i~~HE~gH~~~a~~~G~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~G~~~~~~~~~~~~~~~~~ 81 (192)
T PF02163_consen 2 FILALLISIVLHELGHALAARLYGDKVPRFEGGFGLNIFSHRDGFTIWSIRLIPLGGYVGGFGWSNVNPFPAPISESFRK 81 (192)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTT--B--EEE------------------------------------------------
T ss_pred CcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCC
Confidence 4678899999999999999999999986552111 100 0 1 133455555567
Q ss_pred CCchhhhhhhhhhhHHHHHHHHHHHHHHHhhCCCCCCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhh
Q 020890 246 PNKKALFDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLL 318 (320)
Q Consensus 246 p~r~alfdIaiAGPlag~~~al~~~~~Gl~ls~~~~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~ 318 (320)
.+|+..+.+++|||+++++++++++.+....+.... ......+.+.+.+|+.+...++||+
T Consensus 82 ~~~~~~~~i~laGp~~nllla~i~~~l~~~~~~~~~------------~~~~~~~~~~~~~~~n~~l~~~Nll 142 (192)
T PF02163_consen 82 RSRWKRILIALAGPLANLLLAIIALLLLYLLSGSVG------------WSSFFAEFLFFFAWLNFILALFNLL 142 (192)
T ss_dssp --TTCHHHHHHHHHHHHHHHHHHHHHHTTS-------------------EETTEEHHHHHHHHHHHHHHHTTS
T ss_pred CCccceEEEEEEcHHHHHHHHHHHHHHHHHHhcccc------------ccHHHHHHHHHHHHHHHHHhhhhcc
Confidence 778889999999999999999888776654443111 2235677888899999999999986
No 8
>cd06162 S2P-M50_PDZ_SREBP Sterol regulatory element-binding protein (SREBP) Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50A), regulates intramembrane proteolysis (RIP) of SREBP and is part of a signal transduction mechanism involved in sterol and lipid metabolism. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of SREBPs from membranes of the endoplasmic reticulum (ER). These domains translocate into the nucleus, where they activate genes of cholesterol and fatty acid biosynthesis. The first cleavage occurs at Site-1 within the ER lumen to generate an intermediate that is subsequently released from the membrane by cleavage at Site-2, which lies within the first transmembrane domain. It is the second proteolytic step that is carried out by the SREBP Site-2 protease (S2P) which is present in this CD family. This group appears to be limited to eumetazoan proteins and contains one PDZ domain.
Probab=98.74 E-value=2.4e-08 Score=95.55 Aligned_cols=76 Identities=16% Similarity=0.058 Sum_probs=60.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccccccccccc----ceeeecCCC---CCCchhhhhhhhhhhHHHH
Q 020890 191 NVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCL----GVMNNYESL---LPNKKALFDIPVARTASAY 263 (320)
Q Consensus 191 ~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtf----Gav~~~~s~---~p~r~alfdIaiAGPlag~ 263 (320)
....+.++++.++.+||+||.++|+++|+++. .+.+..| ||+.+..+. ..++++.+-|+.|||++++
T Consensus 126 ~~~~~l~al~isvvvHElgHal~A~~~gi~V~------~iGl~l~~~~pGa~ve~~~e~~~~~~~~~~l~Ia~AGp~~Nl 199 (277)
T cd06162 126 QLGYYFTALLISGVVHEMGHGVAAVREQVRVN------GFGIFFFIIYPGAYVDLFTDHLNLISPVQQLRIFCAGVWHNF 199 (277)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCeec------eEEEeeeeccCeeEEeecccccccCChhhhhheehhhHHHHH
Confidence 44445678899999999999999999999986 4333334 999998543 3566778999999999999
Q ss_pred HHHHHHHHH
Q 020890 264 LTSLALAVA 272 (320)
Q Consensus 264 ~~al~~~~~ 272 (320)
+++++++++
T Consensus 200 vLa~i~~~l 208 (277)
T cd06162 200 VLGLVGYLL 208 (277)
T ss_pred HHHHHHHHH
Confidence 999887653
No 9
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.48 E-value=3.4e-07 Score=91.35 Aligned_cols=82 Identities=17% Similarity=0.090 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCcccc-------cccccc-------cccccccceeeecCCC--------C-----
Q 020890 193 VPLFGGLITILGVSEISTRLTAARYGVKLS-------PSFLVP-------SNWTGCLGVMNNYESL--------L----- 245 (320)
Q Consensus 193 lp~al~ll~iL~~HElGH~~~Ar~~gv~~s-------lPyFIP-------~~~lGtfGav~~~~s~--------~----- 245 (320)
+.+.+.+..++++||+|||++||++|+++. +|.|== .+-+--+|++.+|... +
T Consensus 7 i~~~~~~~~~v~~HE~gH~~~a~~~g~~v~~FsiGfGp~l~~~~~~~tey~i~~~plGg~v~~~g~~~~~~~~~~~~~~~ 86 (420)
T TIGR00054 7 LASILALAVLIFVHELGHFLAARLCGIKVERFSIGFGPKILKFKKNGTEYAISLIPLGGYVKMKGLDKEMEVKPPETDGD 86 (420)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHcCCEEEEEEEccCchheEEecCCeEEEEEEecCcceEeeccCCcccccCCcchhhh
Confidence 334677788999999999999999999975 111100 0113446999999411 1
Q ss_pred ----CCchhhhhhhhhhhHHHHHHHHHHHHHHH
Q 020890 246 ----PNKKALFDIPVARTASAYLTSLALAVAAF 274 (320)
Q Consensus 246 ----p~r~alfdIaiAGPlag~~~al~~~~~Gl 274 (320)
.++...+-|.+|||++.++++++++.+-+
T Consensus 87 ~f~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 87 LFNNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred hhccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 24455677999999999999998877544
No 10
>cd06158 S2P-M50_like_1 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with a minimal core protein and no PDZ domains.
Probab=98.43 E-value=9.1e-07 Score=79.35 Aligned_cols=81 Identities=16% Similarity=0.160 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCccccc----cccccc---ccccc---------cceeee-c----CCCCCCchhhhh
Q 020890 195 LFGGLITILGVSEISTRLTAARYGVKLSP----SFLVPS---NWTGC---------LGVMNN-Y----ESLLPNKKALFD 253 (320)
Q Consensus 195 ~al~ll~iL~~HElGH~~~Ar~~gv~~sl----PyFIP~---~~lGt---------fGav~~-~----~s~~p~r~alfd 253 (320)
..++++.++..||+||.++|+++|-++.- -.+=|. -.+|+ .++..+ . +...++|++.+-
T Consensus 4 ~~~~~~~~i~~HE~aHa~~A~~~Gd~t~~~~Grltlnp~~hid~~g~l~~~~~~~~~~G~a~p~~~~~~~~~~~r~~~~~ 83 (181)
T cd06158 4 VIIAVLLAITLHEFAHAYVAYRLGDPTARRAGRLTLNPLAHIDPIGTIILPLLLPFLFGWAKPVPVNPRNFKNPRRGMLL 83 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcHHHHcCceecCcHHhcCcchHHHHHHHHHhCeEEecccccChHhhcccHhhHhh
Confidence 45678889999999999999999998631 111121 00110 133322 1 112245678999
Q ss_pred hhhhhhHHHHHHHHHHHHHHHh
Q 020890 254 IPVARTASAYLTSLALAVAAFV 275 (320)
Q Consensus 254 IaiAGPlag~~~al~~~~~Gl~ 275 (320)
|++|||+++++++++++++...
T Consensus 84 valAGP~~n~~la~i~~~~~~~ 105 (181)
T cd06158 84 VSLAGPLSNLLLALLFALLLRL 105 (181)
T ss_pred hhhhhHHHHHHHHHHHHHHHHH
Confidence 9999999999999887655443
No 11
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.41 E-value=6.6e-07 Score=89.85 Aligned_cols=82 Identities=16% Similarity=0.075 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccccc----------------ccccccceeeecCCCCC---------
Q 020890 192 VVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPS----------------NWTGCLGVMNNYESLLP--------- 246 (320)
Q Consensus 192 glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~----------------~~lGtfGav~~~~s~~p--------- 246 (320)
-+.+.+++..++.+||+|||++||..||++.- |.|-+ +-+--+|++.+|...-+
T Consensus 7 i~~fil~l~~li~vHElGHfl~Ar~~gv~V~~-FsiGfGp~l~~~~~~~~Tey~i~~iPlGGyVk~~~e~~~~~~~~~~~ 85 (449)
T PRK10779 7 LAAFIVALGVLITVHEFGHFWVARRCGVRVER-FSIGFGKALWRRTDRQGTEYVIALIPLGGYVKMLDERVEPVAPELRH 85 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCeeeE-EEeecChhHeeEecCCCcEEEEEEEcCCCeeecCCCCCCcCChhhhh
Confidence 44566777788899999999999999999862 11111 11223688888865421
Q ss_pred ------CchhhhhhhhhhhHHHHHHHHHHHHHHH
Q 020890 247 ------NKKALFDIPVARTASAYLTSLALAVAAF 274 (320)
Q Consensus 247 ------~r~alfdIaiAGPlag~~~al~~~~~Gl 274 (320)
++.+-+-|.+|||++.+++|++++.+-+
T Consensus 86 ~~f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~ 119 (449)
T PRK10779 86 HAFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVF 119 (449)
T ss_pred hhhccCCHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 1223455999999999999988765544
No 12
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=97.27 E-value=0.0012 Score=61.02 Aligned_cols=70 Identities=21% Similarity=0.180 Sum_probs=58.8
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHHH
Q 020890 189 LANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYL 264 (320)
Q Consensus 189 ~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~~ 264 (320)
+.++....++++..+..||+||+..++++++++. .+.++.+|++..++..+.+++..++++.+||+++..
T Consensus 41 ~~~~~~~~~~l~~rl~l~~~gh~~~~~~~~~~l~------~~~i~~~~g~~~~~~~~v~~~~~~~~~~~g~lvs~a 110 (230)
T COG1994 41 LGDGTAAFVGLAHRLVLHPLGHSDEAGRLGLKLL------LALLFGFGGFGFLKPVPVNPRGEFLIRLAGPLVSLA 110 (230)
T ss_pred HhhhHHHHHHHhHHHhhhHhhHHHHHHHHHHHHH------HHHHHhccceeeecCcCcCHHHHhhhhccchhHHHH
Confidence 6667777777889999999999999999999873 544545888999999999999999988777766665
No 13
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=97.01 E-value=0.0015 Score=59.49 Aligned_cols=66 Identities=21% Similarity=0.136 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHHHHHHHHHHHH
Q 020890 201 TILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSLALAVAA 273 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~~~al~~~~~G 273 (320)
....+||+||.++|.-.|-+++--..-|. -++.+..+. +++-..+-++.|||++..+.+..++..+
T Consensus 23 l~t~~HE~gHal~a~l~G~~v~~i~l~~~-----~~G~~~~~~--~~~~~~~~i~~aGyl~~~l~g~~~~~~~ 88 (200)
T PF13398_consen 23 LVTFVHELGHALAALLTGGRVKGIVLFPD-----GSGVTVSSG--PSGIGRFLIALAGYLGPALFGLLLLWLL 88 (200)
T ss_pred HHHHHHHHHHHHHHHHhCCCcceEEEEeC-----CCceEEEec--CCCcchhHHhcccchHHHHHHHHHHHHH
Confidence 34889999999999999998863333343 577887777 6666678899999999999987776666
No 14
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=96.77 E-value=0.0012 Score=63.83 Aligned_cols=119 Identities=15% Similarity=0.006 Sum_probs=88.7
Q ss_pred HHHHHHHH--HHHHHHHHHHhCcccccccccccccccccceeee--cCCCCCC-----chhhhhhhhhhhHHHHHHHHHH
Q 020890 199 LITILGVS--EISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNN--YESLLPN-----KKALFDIPVARTASAYLTSLAL 269 (320)
Q Consensus 199 ll~iL~~H--ElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~--~~s~~p~-----r~alfdIaiAGPlag~~~al~~ 269 (320)
.+.+.+.| +..|+.+++.++..-..|+++| ...|..++.++ ..+..|+ ++.++++..+++++ ..+.-..
T Consensus 181 ~~~i~~~~~~~~~~~~~~~~~~~~~~~P~~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~-~~v~~~~ 258 (375)
T COG0750 181 LLTILVIRLDGEAHAVAAEIIKSLGLTPVVIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVG-LAVEKTG 258 (375)
T ss_pred ceEEEEEeccceeeeccccceeeEeeecceec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHH-HHHHHHH
Confidence 57888899 9999999999999999999998 77888888775 6667777 89999999999998 4455455
Q ss_pred HHHHHhhCC-----------CC-CCCchhHHhHHhhhcccchhHHHHHHHHHHHHHHHhhhc
Q 020890 270 AVAAFVADG-----------SF-NGGDNALMLLDLIRMTLEMYCLMLWKESEFLVIRLLLLV 319 (320)
Q Consensus 270 ~~~Gl~ls~-----------~~-~gg~~~l~lg~~l~~g~~~~Pl~~~gWvGl~vt~l~l~~ 319 (320)
.++++.++. +. .|..+....+.........||+.+.+|+++.++++||+-
T Consensus 259 ~~~~~~~~~l~~~~~~~~~~~~l~Gpi~i~~~~~~~~~~~~~~~l~~~~~lsi~lg~lNllP 320 (375)
T COG0750 259 RLVKLTLKMLKKLITGDLSLKNLSGPIGIAKIAGAAASLGLINLLFFLALLSINLGILNLLP 320 (375)
T ss_pred HHHHHHHHHHHHheecccccccccCceehhhhhhHHHhhHHHHHHHHHHHHHHHHHHHhccC
Confidence 555554441 11 122222333332223568999999999999999999973
No 15
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=95.21 E-value=0.059 Score=52.07 Aligned_cols=80 Identities=19% Similarity=0.225 Sum_probs=51.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhCccccc------------------ccccccccccccceeeecCCCCCC------
Q 020890 192 VVPLFGGLITILGVSEISTRLTAARYGVKLSP------------------SFLVPSNWTGCLGVMNNYESLLPN------ 247 (320)
Q Consensus 192 glp~al~ll~iL~~HElGH~~~Ar~~gv~~sl------------------PyFIP~~~lGtfGav~~~~s~~p~------ 247 (320)
-..+.+.+......||+||+|.||+.++++.. +|.+..+ .+|++.+|......
T Consensus 5 ~i~~i~~~~~lv~~he~gh~~~a~~~~~~v~~f~ig~g~~l~~~~~~~~~~~~i~~~---plggyv~~~~~~~~~~~~~~ 81 (375)
T COG0750 5 IIAFIIALGVLVFVHELGHFWVARRCGVKVERFSIGFGPKLFSRKDKGGTEYVLSAI---PLGGYVKMLGEDAEEVVLKG 81 (375)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHhcCceeEEEEeccCcceEEEEcCCceEEEEeec---CccceEEEecCccccccccc
Confidence 34566777788999999999999999998752 1222222 23444444333222
Q ss_pred ---chh---------hhhhhhhhhHHHHHHHHHHHHHHH
Q 020890 248 ---KKA---------LFDIPVARTASAYLTSLALAVAAF 274 (320)
Q Consensus 248 ---r~a---------lfdIaiAGPlag~~~al~~~~~Gl 274 (320)
+.. -+-+-++||+..++.++.+.+...
T Consensus 82 ~~~~~~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 82 PEPRPRAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred cCcchhhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 112 234778999999998777665554
No 16
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=93.08 E-value=0.15 Score=51.87 Aligned_cols=121 Identities=19% Similarity=0.149 Sum_probs=71.1
Q ss_pred hhHHH-HHHHHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCC----CCCchhhhhhhhhhhHHHHHH
Q 020890 191 NVVPL-FGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESL----LPNKKALFDIPVARTASAYLT 265 (320)
Q Consensus 191 ~glp~-al~ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~----~p~r~alfdIaiAGPlag~~~ 265 (320)
.+++| ...++..+.+|||||.|+|.+.||++. +|==.+..=.=||++.++.. .++=++ ..|--||-.=.++.
T Consensus 121 ~~I~yf~t~lvi~~vvHElGHalAA~segV~vn--gfgIfi~aiyPgafvdl~~dhLqsl~~fr~-LrIfcAGIWHNfvf 197 (484)
T KOG2921|consen 121 SGIAYFLTSLVITVVVHELGHALAAASEGVQVN--GFGIFIAAIYPGAFVDLDNDHLQSLPSFRA-LRIFCAGIWHNFVF 197 (484)
T ss_pred ccchhhhhhHHHHHHHHHhhHHHHHHhcCceee--eeEEEEEEEcCchhhhhhhhHHhhcchHHH-HHHHhhhHHHHHHH
Confidence 44444 456677889999999999999999875 11000111223677766542 223233 56888999999999
Q ss_pred HHHHHHH----HHhhCCCCCCC----------------chhHHhHHhhhc--ccchhHHHHHHHHHHHHHHHh
Q 020890 266 SLALAVA----AFVADGSFNGG----------------DNALMLLDLIRM--TLEMYCLMLWKESEFLVIRLL 316 (320)
Q Consensus 266 al~~~~~----Gl~ls~~~~gg----------------~~~l~lg~~l~~--g~~~~Pl~~~gWvGl~vt~l~ 316 (320)
|+.|.+. +..+||-+.-| .-.+..||++.. |-.+|-+ .-|...+-|.+|
T Consensus 198 allc~lal~~lpViLsPfya~g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v--~dW~ecl~tsl~ 268 (484)
T KOG2921|consen 198 ALLCVLALFLLPVILSPFYAHGEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKV--SDWLECLATSLD 268 (484)
T ss_pred HHHHHHHHHhhhHhhchhhhcCceEEEEeccccCCCcCcccCCccceEEecCCcccCCH--HHHHHHHHhhcc
Confidence 9877543 44555522111 113345666553 4444443 456666666554
No 17
>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=69.55 E-value=2.3 Score=37.50 Aligned_cols=16 Identities=13% Similarity=-0.068 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRLTAA 215 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar 215 (320)
.+-.++||+|||+--+
T Consensus 69 ~g~TltHEvGH~LGL~ 84 (154)
T PF05572_consen 69 FGKTLTHEVGHWLGLY 84 (154)
T ss_dssp SSHHHHHHHHHHTT--
T ss_pred cccchhhhhhhhhccc
Confidence 3578899999997443
No 18
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=68.51 E-value=5.4 Score=32.72 Aligned_cols=72 Identities=17% Similarity=0.105 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHHHHHHHHHHHHHhhC
Q 020890 199 LITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSLALAVAAFVAD 277 (320)
Q Consensus 199 ll~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~~~al~~~~~Gl~ls 277 (320)
++..+.+||+-|.+..+.+|-+-.. ....-...+..-...+.+=+|+. |-+...-|. ++++++.+++++..+
T Consensus 3 ~~~~~~~HEliH~l~~~~~~~~~~~----~~g~~~~~~~~~~~~~~~~sk~~-~~i~~l~P~--ivl~~~~~~~~~~~p 74 (111)
T PF11667_consen 3 LIVLIPLHELIHGLFFKLFGKKPKV----KFGFKWKLGPFYATCNEPISKWR-FIIILLAPF--IVLTILPLILGFFFP 74 (111)
T ss_pred EEeeHHHHHHHHHHHHHHhCCCCce----EEEEEeeeEEEEEecCcEEeHHH-HHHHHHHHH--HHHHHHHHHHHHHHH
Confidence 3456789999999999999985321 11111122333323444445444 666666675 455555555555533
No 19
>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=67.82 E-value=3.2 Score=34.81 Aligned_cols=20 Identities=15% Similarity=0.184 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHhCc
Q 020890 200 ITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv 219 (320)
+...+.||+||.+--.+..-
T Consensus 105 ~~~v~~HEiGHaLGL~H~~~ 124 (154)
T PF00413_consen 105 LQSVAIHEIGHALGLDHSND 124 (154)
T ss_dssp HHHHHHHHHHHHTTBESSSS
T ss_pred hhhhhhhccccccCcCcCCC
Confidence 45678999999986644433
No 20
>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=66.45 E-value=2.8 Score=36.87 Aligned_cols=22 Identities=27% Similarity=0.027 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCc
Q 020890 198 GLITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 198 ~ll~iL~~HElGH~~~Ar~~gv 219 (320)
..-.+.++||+||.+-|.+=+-
T Consensus 140 ~~~~~~~AHEiGH~lGa~HD~~ 161 (196)
T PF13688_consen 140 YNGAITFAHEIGHNLGAPHDGD 161 (196)
T ss_dssp HHHHHHHHHHHHHHTT-----S
T ss_pred CceehhhHHhHHHhcCCCCCCC
Confidence 3456789999999999987554
No 21
>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=64.47 E-value=4.2 Score=34.89 Aligned_cols=22 Identities=9% Similarity=0.111 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHhCccc
Q 020890 200 ITILGVSEISTRLTAARYGVKL 221 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv~~ 221 (320)
+...++||+||.+-.++..-+-
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~ 125 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRP 125 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCc
Confidence 5678899999999988887753
No 22
>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=64.10 E-value=4.9 Score=35.54 Aligned_cols=20 Identities=15% Similarity=0.036 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHhCccc
Q 020890 200 ITILGVSEISTRLTAARYGVKL 221 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv~~ 221 (320)
+..+++||+||+. .+|..+.
T Consensus 89 l~aVlaHElgH~~--~~h~~~~ 108 (226)
T PF01435_consen 89 LAAVLAHELGHIK--HRHILKS 108 (226)
T ss_dssp HHHHHHHHHHHHH--TTHCCCC
T ss_pred HHHHHHHHHHHHH--cCCcchH
Confidence 5678899999986 4555443
No 23
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=63.29 E-value=6.2 Score=31.02 Aligned_cols=18 Identities=11% Similarity=0.202 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 020890 201 TILGVSEISTRLTAARYG 218 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar~~g 218 (320)
.-+++||++|.|.....+
T Consensus 26 ~~~l~HE~~H~~~~~~~~ 43 (128)
T PF13485_consen 26 DRVLAHELAHQWFGNYFG 43 (128)
T ss_pred HHHHHHHHHHHHHHHHcC
Confidence 367899999999998865
No 24
>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=62.44 E-value=5.2 Score=31.20 Aligned_cols=17 Identities=12% Similarity=-0.080 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHhC
Q 020890 202 ILGVSEISTRLTAARYG 218 (320)
Q Consensus 202 iL~~HElGH~~~Ar~~g 218 (320)
..++||+||++.-....
T Consensus 44 f~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 44 FTLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHhhhccc
Confidence 36789999999876654
No 25
>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=61.02 E-value=4.4 Score=35.92 Aligned_cols=20 Identities=15% Similarity=-0.200 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHhCc
Q 020890 200 ITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv 219 (320)
-...++||+||.+-|.+-+=
T Consensus 111 ~~~~~aHElGH~lGa~Hd~~ 130 (173)
T PF13574_consen 111 GIDTFAHELGHQLGAPHDFD 130 (173)
T ss_dssp HHHHHHHHHHHHHT---SSS
T ss_pred eeeeehhhhHhhcCCCCCCC
Confidence 44559999999999987554
No 26
>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=58.54 E-value=9.4 Score=32.41 Aligned_cols=25 Identities=12% Similarity=0.004 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCc
Q 020890 195 LFGGLITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 195 ~al~ll~iL~~HElGH~~~Ar~~gv 219 (320)
+......-..+||+||.+--++-.-
T Consensus 89 ~~~~~~~~~~~HEiGHaLGL~H~~~ 113 (165)
T cd04268 89 YSGARLRNTAEHELGHALGLRHNFA 113 (165)
T ss_pred HHHHHHHHHHHHHHHHHhcccccCc
Confidence 3445567888999999987665543
No 27
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=55.43 E-value=17 Score=39.20 Aligned_cols=102 Identities=26% Similarity=0.346 Sum_probs=66.7
Q ss_pred HHHHhhhhhhhhhhhhhcccCCCCchhhhhhhhhccchHHHHhhhhhhhhccCHhhHHHhhcccCcceEEEee---eeEe
Q 020890 8 AAIKLEKKRADTKLKELDRESTDNPIMRLFNRLVRDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATD---VRRF 84 (320)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF~vte---~~~~ 84 (320)
.|+|-|-..|++.+||+-. ++||-..+=-++.-..+|||++.++.+..- ++-+||.++.--+|+ +--|
T Consensus 131 ~~Lk~~ieqaq~~~~El~~--~n~pkl~LP~sllP~~~pr~l~pp~~~~~c-------~lhncfdySRCsltSgfPVYvy 201 (907)
T KOG2264|consen 131 SALKGEIEQAQRQLEELRE--TNNPKLFLPFSLLPLQIPRELEPPSQISPC-------QLHNCFDYSRCSLTSGFPVYVY 201 (907)
T ss_pred HHHHhHHHHHHHHHHHHHh--hcCCceeeccccCcccCcccCCCccccCcc-------cchhccccccccccCCceeEEe
Confidence 3667777778888888754 456766666677788888999998877555 788999998877776 2223
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHHHhCCCeEEEEEeecC
Q 020890 85 GDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEEKT 126 (320)
Q Consensus 85 ~~gvi~rGnLR~~~e~v~~~L~~~L~~~fgd~y~l~l~e~~~ 126 (320)
+.-.+..|. +.++ -++.-+++.. +|.+.++|+++
T Consensus 202 d~D~~~~G~---~~d~---~lk~~fq~t~--~~n~~~ve~pd 235 (907)
T KOG2264|consen 202 DSDIITSGQ---SEDE---WLKQVFQETI--PNNVYLVETPD 235 (907)
T ss_pred ccceeeccc---chHH---HHHHHHHHhc--ccceeEeeCCC
Confidence 333333354 2222 2333444443 67788888864
No 28
>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=54.88 E-value=7.7 Score=36.35 Aligned_cols=22 Identities=5% Similarity=0.031 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhC
Q 020890 197 GGLITILGVSEISTRLTAARYG 218 (320)
Q Consensus 197 l~ll~iL~~HElGH~~~Ar~~g 218 (320)
....++.++|||||-+-+.+-+
T Consensus 164 ~~~~a~t~AHElGHnlGm~HD~ 185 (244)
T cd04270 164 TKESDLVTAHELGHNFGSPHDP 185 (244)
T ss_pred hhHHHHHHHHHHHHhcCCCCCC
Confidence 4457789999999999887544
No 29
>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=53.70 E-value=9 Score=33.88 Aligned_cols=21 Identities=14% Similarity=0.120 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCc
Q 020890 199 LITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 199 ll~iL~~HElGH~~~Ar~~gv 219 (320)
..+..++||+||.+-+.+-+-
T Consensus 130 ~~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 130 LFAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHHhhcCCCcCCC
Confidence 346889999999998876554
No 30
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=53.02 E-value=6.1 Score=32.10 Aligned_cols=14 Identities=21% Similarity=-0.021 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLTAA 215 (320)
Q Consensus 202 iL~~HElGH~~~Ar 215 (320)
..++||+||-+-++
T Consensus 109 ~~~~HEiGH~lGl~ 122 (124)
T PF13582_consen 109 DTFAHEIGHNLGLN 122 (124)
T ss_dssp THHHHHHHHHTT--
T ss_pred eEeeehhhHhcCCC
Confidence 67899999987554
No 31
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=50.83 E-value=8 Score=36.18 Aligned_cols=15 Identities=13% Similarity=0.053 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHh
Q 020890 203 LGVSEISTRLTAARY 217 (320)
Q Consensus 203 L~~HElGH~~~Ar~~ 217 (320)
.++||+||++.=++-
T Consensus 75 tlAHELGH~llH~~~ 89 (213)
T COG2856 75 TLAHELGHALLHTDL 89 (213)
T ss_pred HHHHHHhHHHhcccc
Confidence 468999999976554
No 32
>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=50.79 E-value=7 Score=33.59 Aligned_cols=19 Identities=16% Similarity=0.167 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHhC
Q 020890 200 ITILGVSEISTRLTAARYG 218 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~g 218 (320)
+...+.||+||.+--.+-.
T Consensus 107 ~~~~~~HEiGHaLGL~H~~ 125 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSS 125 (157)
T ss_pred HHHHHHHHhccccccCCCC
Confidence 5667899999998775443
No 33
>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=50.40 E-value=8.2 Score=32.67 Aligned_cols=21 Identities=10% Similarity=-0.233 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhC
Q 020890 198 GLITILGVSEISTRLTAARYG 218 (320)
Q Consensus 198 ~ll~iL~~HElGH~~~Ar~~g 218 (320)
......++||+||.+-.++..
T Consensus 94 ~~~~~~~~HElGH~LGl~H~~ 114 (167)
T cd00203 94 KEGAQTIAHELGHALGFYHDH 114 (167)
T ss_pred ccchhhHHHHHHHHhCCCccC
Confidence 346778899999999876554
No 34
>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=50.01 E-value=7.4 Score=34.29 Aligned_cols=20 Identities=20% Similarity=0.187 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHhCc
Q 020890 200 ITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv 219 (320)
.+..++||+||.+-+.+-+-
T Consensus 133 ~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 133 TALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred ehhhhhhhHHhhcCCcCCCC
Confidence 46789999999998887654
No 35
>PF14891 Peptidase_M91: Effector protein
Probab=48.45 E-value=12 Score=33.28 Aligned_cols=19 Identities=5% Similarity=-0.165 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHhC
Q 020890 200 ITILGVSEISTRLTAARYG 218 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~g 218 (320)
=++.+.|||+|.+-...=.
T Consensus 103 p~v~L~HEL~HA~~~~~Gt 121 (174)
T PF14891_consen 103 PFVVLYHELIHAYDYMNGT 121 (174)
T ss_pred HHHHHHHHHHHHHHHHCCC
Confidence 3567899999998776433
No 36
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=47.74 E-value=11 Score=32.74 Aligned_cols=17 Identities=18% Similarity=0.249 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHhCcc
Q 020890 204 GVSEISTRLTAARYGVK 220 (320)
Q Consensus 204 ~~HElGH~~~Ar~~gv~ 220 (320)
+.||+.|.|.=|.||.-
T Consensus 83 L~HEL~H~WQ~RsYG~i 99 (141)
T PHA02456 83 LAHELNHAWQFRTYGLV 99 (141)
T ss_pred HHHHHHHHHhhhcccee
Confidence 68999999999999974
No 37
>PRK03001 M48 family peptidase; Provisional
Probab=47.62 E-value=12 Score=35.73 Aligned_cols=13 Identities=15% Similarity=0.018 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||+-
T Consensus 124 l~aVlAHElgHi~ 136 (283)
T PRK03001 124 IRGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHHh
Confidence 5678899999984
No 38
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=47.13 E-value=12 Score=29.60 Aligned_cols=13 Identities=15% Similarity=0.143 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLTA 214 (320)
Q Consensus 202 iL~~HElGH~~~A 214 (320)
-+++||++|.+.=
T Consensus 63 ~llaHEl~Hv~Qq 75 (79)
T PF13699_consen 63 ALLAHELAHVVQQ 75 (79)
T ss_pred hhHhHHHHHHHhh
Confidence 4689999998863
No 39
>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=46.82 E-value=11 Score=33.25 Aligned_cols=19 Identities=21% Similarity=0.032 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHhC
Q 020890 200 ITILGVSEISTRLTAARYG 218 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~g 218 (320)
..-.++||+||.+--++-.
T Consensus 113 ~~~t~~HEiGHaLGL~H~~ 131 (186)
T cd04277 113 GYQTIIHEIGHALGLEHPG 131 (186)
T ss_pred hHHHHHHHHHHHhcCCCCC
Confidence 4567899999998765543
No 40
>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=46.69 E-value=10 Score=31.64 Aligned_cols=16 Identities=13% Similarity=0.096 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHhC
Q 020890 203 LGVSEISTRLTAARYG 218 (320)
Q Consensus 203 L~~HElGH~~~Ar~~g 218 (320)
.++||+||.+-.++-.
T Consensus 89 ~~~HEigHaLGl~H~~ 104 (140)
T smart00235 89 VAAHELGHALGLYHEQ 104 (140)
T ss_pred cHHHHHHHHhcCCcCC
Confidence 7899999998655433
No 41
>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=45.84 E-value=14 Score=34.82 Aligned_cols=30 Identities=13% Similarity=0.019 Sum_probs=22.6
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHhCcc
Q 020890 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVK 220 (320)
Q Consensus 188 ~~~~glp~al~ll~iL~~HElGH~~~Ar~~gv~ 220 (320)
.+..|+|- .+++++++||++|.|. |-.|.+
T Consensus 83 lvl~GLPr--ll~gsiLAHE~mHa~L-rl~g~~ 112 (212)
T PF12315_consen 83 LVLYGLPR--LLTGSILAHELMHAWL-RLNGFP 112 (212)
T ss_pred EEECCCCH--HHHhhHHHHHHHHHHh-cccCCC
Confidence 46778884 4588999999999998 445543
No 42
>PRK03982 heat shock protein HtpX; Provisional
Probab=44.95 E-value=14 Score=35.36 Aligned_cols=13 Identities=8% Similarity=-0.036 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||+-
T Consensus 125 l~AVlAHElgHi~ 137 (288)
T PRK03982 125 LEGVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHHHH
Confidence 5567899999974
No 43
>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=44.87 E-value=11 Score=35.38 Aligned_cols=26 Identities=12% Similarity=-0.047 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhC
Q 020890 193 VPLFGGLITILGVSEISTRLTAARYG 218 (320)
Q Consensus 193 lp~al~ll~iL~~HElGH~~~Ar~~g 218 (320)
-++..-...-+++|||||.+-=|+-+
T Consensus 126 ~~~~~~~~~hvi~HEiGH~IGfRHTD 151 (211)
T PF12388_consen 126 SNYSVNVIEHVITHEIGHCIGFRHTD 151 (211)
T ss_pred CCCchhHHHHHHHHHhhhhccccccC
Confidence 44556667889999999999877755
No 44
>PF01421 Reprolysin: Reprolysin (M12B) family zinc metalloprotease This Prosite motif covers only the active site.; InterPro: IPR001590 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 M12B (adamalysin 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 adamalysins are zinc dependent endopeptidases found in snake venom. There are some mammalian proteins such as P78325 from SWISSPROT, and fertilin Q28472 from SWISSPROT. Fertilin and closely related proteins appear to not have some active site residues and may not be active enzymes. CD156 (also called ADAM8 (3.4.24 from EC) or MS2 human) has been implicated in extravasation of leukocytes. 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: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2E3X_A 2W15_A 2W14_A 2W13_A 2W12_A 1ND1_A 3K7L_A 2DW2_A 2DW0_B 2DW1_A ....
Probab=43.07 E-value=17 Score=32.25 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhCc
Q 020890 198 GLITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 198 ~ll~iL~~HElGH~~~Ar~~gv 219 (320)
..++..++||+||.+-..+-+-
T Consensus 129 ~~~a~~~AHelGH~lGm~HD~~ 150 (199)
T PF01421_consen 129 LSFAVIIAHELGHNLGMPHDGD 150 (199)
T ss_dssp HHHHHHHHHHHHHHTT---TTT
T ss_pred HHHHHHHHHHHHHhcCCCCCCC
Confidence 3466788999999988777666
No 45
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=42.37 E-value=44 Score=33.06 Aligned_cols=67 Identities=15% Similarity=0.242 Sum_probs=47.0
Q ss_pred ccCHhhHHHhhcccCc-ceEEEeeeeEeCCeEEEEccCCC--cHHHHHHHHHHHHHHHhCCCeEEEEEeecCC
Q 020890 58 SFKALDLNKLRGCFGF-DTFFATDVRRFGDGGIFIGNLRK--PIEEVIPKLEKKLSEAAGRDVVVWFMEEKTN 127 (320)
Q Consensus 58 ~~~~eDl~~lk~~Fg~-dtF~vte~~~~~~gvi~rGnLR~--~~e~v~~~L~~~L~~~fgd~y~l~l~e~~~~ 127 (320)
++-.|.++.||..+|- .+||++|+-.--+|.-+-++--. +.++.++++...|++. +|.+|+.|-.++
T Consensus 215 ~f~~~q~e~vqsa~g~~k~~~v~EtGWPS~G~~~G~a~pS~anq~~~~~~i~~~~~~~---G~d~fvfeAFdd 284 (305)
T COG5309 215 TFLLEQLERVQSACGTKKTVWVTETGWPSDGRTYGSAVPSVANQKIAVQEILNALRSC---GYDVFVFEAFDD 284 (305)
T ss_pred HHHHHHHHHHHHhcCCCccEEEeeccCCCCCCccCCcCCChhHHHHHHHHHHhhhhcc---CccEEEeeeccc
Confidence 3334557788988887 99999999655555444443322 4567788888888776 888888887654
No 46
>PRK04897 heat shock protein HtpX; Provisional
Probab=42.10 E-value=16 Score=35.29 Aligned_cols=13 Identities=23% Similarity=-0.077 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||+-
T Consensus 137 l~aVlAHElgHi~ 149 (298)
T PRK04897 137 LEGVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHHHh
Confidence 5567899999974
No 47
>PRK02870 heat shock protein HtpX; Provisional
Probab=41.74 E-value=14 Score=36.81 Aligned_cols=19 Identities=16% Similarity=0.212 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHhCccc
Q 020890 200 ITILGVSEISTRLTAARYGVKL 221 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv~~ 221 (320)
+..+++||+||+ +++++..
T Consensus 173 L~aVlAHELgHi---k~~di~~ 191 (336)
T PRK02870 173 LQAVMAHELSHI---RHGDIRL 191 (336)
T ss_pred HHHHHHHHHHHH---HcccHHH
Confidence 556789999998 5555554
No 48
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=41.03 E-value=8.8 Score=35.06 Aligned_cols=16 Identities=19% Similarity=-0.132 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhCc
Q 020890 204 GVSEISTRLTAARYGV 219 (320)
Q Consensus 204 ~~HElGH~~~Ar~~gv 219 (320)
++||+||.+-|++-+=
T Consensus 141 ~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 141 FAHEIGHNLGLRHDFD 156 (206)
T ss_pred HHHHHHHHhcCCCCcc
Confidence 7899999999987654
No 49
>PF02031 Peptidase_M7: Streptomyces extracellular neutral proteinase (M7) family; InterPro: IPR000013 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 M7 (snapalysin 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. With a molecular weight of around 16kDa, Streptomyces extracellular neutral protease is one of the smallest known proteases []; it is capable of hydrolysing milk proteins []. The enzyme is synthesised as a proenzyme with a signal peptide, a propeptide and an active domain that contains the conserved HEXXH motif characteristic of metalloproteases. Although family M7 shows active site sequence similarity to other members, it differs in one major respect: the third zinc ligand appears to be an aspartate residue rather than the usual histidine.; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 1C7K_A 1KUH_A.
Probab=39.37 E-value=18 Score=31.79 Aligned_cols=11 Identities=18% Similarity=0.311 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 020890 203 LGVSEISTRLT 213 (320)
Q Consensus 203 L~~HElGH~~~ 213 (320)
+.+||+||.+-
T Consensus 80 IaaHE~GHiLG 90 (132)
T PF02031_consen 80 IAAHELGHILG 90 (132)
T ss_dssp HHHHHHHHHHT
T ss_pred eeeehhccccC
Confidence 57899999863
No 50
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=39.13 E-value=14 Score=32.47 Aligned_cols=16 Identities=25% Similarity=0.399 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 197 GGLITILGVSEISTRL 212 (320)
Q Consensus 197 l~ll~iL~~HElGH~~ 212 (320)
.=.+...++||+||++
T Consensus 106 gd~vthvliHEIgHhF 121 (136)
T COG3824 106 GDQVTHVLIHEIGHHF 121 (136)
T ss_pred hhHhhhhhhhhhhhhc
Confidence 4467899999999986
No 51
>PRK01345 heat shock protein HtpX; Provisional
Probab=38.91 E-value=19 Score=35.23 Aligned_cols=13 Identities=8% Similarity=0.015 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||.-
T Consensus 124 L~aVlAHElgHi~ 136 (317)
T PRK01345 124 VAGVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHHHH
Confidence 5667899999986
No 52
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=38.80 E-value=20 Score=33.37 Aligned_cols=13 Identities=8% Similarity=0.033 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||..
T Consensus 157 l~aVlaHElgHi~ 169 (302)
T COG0501 157 LEAVLAHELGHIK 169 (302)
T ss_pred HHHHHHHHHHHHh
Confidence 4457899999963
No 53
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=37.40 E-value=21 Score=32.55 Aligned_cols=20 Identities=20% Similarity=0.130 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHhCcc
Q 020890 201 TILGVSEISTRLTAARYGVK 220 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar~~gv~ 220 (320)
+..++||+||-+-+.+-+-.
T Consensus 146 ~~~~AHElGH~lG~~HD~~~ 165 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGSP 165 (220)
T ss_pred HHHHHHHHHHHhCCCCCCCC
Confidence 48899999999988876543
No 54
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=37.14 E-value=21 Score=30.74 Aligned_cols=18 Identities=6% Similarity=-0.180 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 020890 199 LITILGVSEISTRLTAAR 216 (320)
Q Consensus 199 ll~iL~~HElGH~~~Ar~ 216 (320)
.+--.+.|||.|+++-..
T Consensus 58 ~l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 58 RLRETLLHELCHAALYLF 75 (146)
T ss_pred HHHhhHHHHHHHHHHHHh
Confidence 445588999999999753
No 55
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=37.01 E-value=43 Score=27.63 Aligned_cols=52 Identities=19% Similarity=0.139 Sum_probs=36.1
Q ss_pred HHhhcccCcceEEEeeeeEeCCeEEEEccCCCcHHHHHHHHHHHHHHHhCCCeEEE
Q 020890 65 NKLRGCFGFDTFFATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVW 120 (320)
Q Consensus 65 ~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR~~~e~v~~~L~~~L~~~fgd~y~l~ 120 (320)
+++++.+.-.---+.+++..++.+++| =+.++---+-++-|++.+|++|.|-
T Consensus 49 ~~v~~~L~~~~I~~k~i~~~~~~llir----f~~~~~Ql~Ak~~L~~~L~~~y~VA 100 (101)
T PF13721_consen 49 FQVEQALKAAGIAVKSIEQEGDSLLIR----FDSTDQQLKAKDVLSKALGDDYVVA 100 (101)
T ss_pred HHHHHHHHHCCCCcceEEeeCCEEEEE----ECCHHHHHHHHHHHHHHcCCCCEee
Confidence 466655555556667888888887776 3344444566777888899999873
No 56
>PRK02391 heat shock protein HtpX; Provisional
Probab=36.88 E-value=22 Score=34.53 Aligned_cols=12 Identities=17% Similarity=0.155 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHH
Q 020890 200 ITILGVSEISTR 211 (320)
Q Consensus 200 l~iL~~HElGH~ 211 (320)
+..+++||+||+
T Consensus 133 l~aVlaHElgHi 144 (296)
T PRK02391 133 LEAVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHHHH
Confidence 456789999995
No 57
>PRK03072 heat shock protein HtpX; Provisional
Probab=36.56 E-value=22 Score=34.21 Aligned_cols=13 Identities=15% Similarity=-0.041 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRL 212 (320)
Q Consensus 200 l~iL~~HElGH~~ 212 (320)
+..+++||+||.-
T Consensus 127 l~aVlAHElgHi~ 139 (288)
T PRK03072 127 LRGVLGHELSHVY 139 (288)
T ss_pred HHHHHHHHHHHHh
Confidence 4567899999963
No 58
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=36.37 E-value=83 Score=31.79 Aligned_cols=44 Identities=14% Similarity=0.065 Sum_probs=39.9
Q ss_pred EeCCeEEEEccCCCcHHHHHHHHHHHHHHHhCCCeEEEEEeecC
Q 020890 83 RFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEEKT 126 (320)
Q Consensus 83 ~~~~gvi~rGnLR~~~e~v~~~L~~~L~~~fgd~y~l~l~e~~~ 126 (320)
..++.+...|++..+..+.|+++.+++++++|..|.+.++.-+.
T Consensus 302 ~~~~~i~lsG~l~~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~ 345 (410)
T TIGR02500 302 ESGREIALSGQLDSEKRSRLQELLAAFKQRDGVIPDVVLQNIPA 345 (410)
T ss_pred ecCCEEEEEecCCHHHHHHHHHHHHHHHHhCCCCceEEEecCCc
Confidence 66779999999999999999999999999999989888887754
No 59
>PRK05457 heat shock protein HtpX; Provisional
Probab=36.31 E-value=23 Score=34.17 Aligned_cols=12 Identities=25% Similarity=0.185 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHH
Q 020890 200 ITILGVSEISTR 211 (320)
Q Consensus 200 l~iL~~HElGH~ 211 (320)
+..+++||+||.
T Consensus 134 l~aVlAHElgHi 145 (284)
T PRK05457 134 VEAVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHHHH
Confidence 456789999996
No 60
>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=36.19 E-value=27 Score=29.73 Aligned_cols=18 Identities=6% Similarity=-0.147 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 020890 199 LITILGVSEISTRLTAAR 216 (320)
Q Consensus 199 ll~iL~~HElGH~~~Ar~ 216 (320)
.+.-.+.|||.|+++-..
T Consensus 59 ~~~~tL~HEm~H~~~~~~ 76 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVF 76 (157)
T ss_pred HHHHHHHHHHHHHHhhhc
Confidence 566688999999998544
No 61
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=36.18 E-value=38 Score=31.92 Aligned_cols=25 Identities=12% Similarity=0.061 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCccc
Q 020890 196 FGGLITILGVSEISTRLTAARYGVKL 221 (320)
Q Consensus 196 al~ll~iL~~HElGH~~~Ar~~gv~~ 221 (320)
+++-+...+.||+||.+... +++++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~-~~lPv 112 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDD-LDLPV 112 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHH-hcCCc
Confidence 67778888999999999875 45543
No 62
>cd03513 CrtW_beta-carotene-ketolase Beta-carotene ketolase/oxygenase (CrtW, also known as CrtO), the carotenoid astaxanthin biosynthetic enzyme, initially catalyzes the addition of two keto groups to carbons C4 and C4' of beta-carotene. Carotenoids are important natural pigments produced by many microorganisms and plants. Astaxanthin is reported to be an antioxidant, an anti-cancer agent, and an immune system stimulant. A number of bacteria and green algae can convert beta-carotene into astaxanthin by using several ketocarotenoids as intermediates and CrtW and a beta-carotene hydroxylase (CrtZ). CrtW initially converts beta-carotene to canthaxanthin via echinenone, and CrtZ initially mediates the conversion of beta-carotene to zeaxanthin via beta-cryptoxanthin. After a few more intermediates are formed, CrtW and CrtZ act in combination to produce astaxanthin. Sequences of this domain family appear to be structurally related to membrane fatty acid desaturases and alkane hydroxylases. Th
Probab=35.98 E-value=60 Score=30.43 Aligned_cols=18 Identities=6% Similarity=-0.073 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHH-HHhCc
Q 020890 202 ILGVSEISTRLTA-ARYGV 219 (320)
Q Consensus 202 iL~~HElGH~~~A-r~~gv 219 (320)
.+++||.+|.-.+ ++..+
T Consensus 47 fi~~HDa~Hg~~~~~~~~~ 65 (225)
T cd03513 47 FIIAHDAMHGSLAPGNPRL 65 (225)
T ss_pred HHHHHHhhhhccccCCchH
Confidence 3689999999887 44433
No 63
>PRK01265 heat shock protein HtpX; Provisional
Probab=35.67 E-value=23 Score=35.07 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHhCcccc
Q 020890 200 ITILGVSEISTRLTAARYGVKLS 222 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv~~s 222 (320)
+..+++||+||+ |++++...
T Consensus 140 l~aVlAHElgHi---k~~d~~~~ 159 (324)
T PRK01265 140 IKAVAGHELGHL---KHRDVELL 159 (324)
T ss_pred HHHHHHHHHHHH---HcccHHHH
Confidence 456789999996 55555443
No 64
>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=35.30 E-value=21 Score=32.09 Aligned_cols=15 Identities=13% Similarity=0.051 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLTAAR 216 (320)
Q Consensus 202 iL~~HElGH~~~Ar~ 216 (320)
-..+||+||.+--.+
T Consensus 94 ~~i~HElgHaLG~~H 108 (198)
T cd04327 94 RVVLHEFGHALGFIH 108 (198)
T ss_pred HHHHHHHHHHhcCcc
Confidence 467899999986543
No 65
>PF09585 Lin0512_fam: Conserved hypothetical protein (Lin0512_fam); InterPro: IPR011719 This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N terminus.
Probab=34.44 E-value=19 Score=30.92 Aligned_cols=59 Identities=20% Similarity=0.248 Sum_probs=42.0
Q ss_pred CchhhhhhhhhccchHHHHhhhhhhhhccCHhhHHHhhcccCcceEEEeeeeEeCCeEEEEcc
Q 020890 31 NPIMRLFNRLVRDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGN 93 (320)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGn 93 (320)
|.+-+++..+-. +...|+-+++-.-+....-|.+++|.+||+.+ -+++-..+|.++.|.
T Consensus 33 nslp~l~~~~~~-~~~~M~v~V~igVp~pe~vD~e~v~~~~PyG~---~~v~vv~GGl~~sGi 91 (113)
T PF09585_consen 33 NSLPGLFEILGL-DLDDMKVEVKIGVPRPEKVDIEAVKAVFPYGQ---VTVEVVKGGLITSGI 91 (113)
T ss_pred cchHHHHHHcCC-ChHHEEEEEEEeCCCccccCHHHHHHhCCCCC---ceEEEEcCCccccCc
Confidence 556556654444 55667777766666657789999999999998 556666777777774
No 66
>cd03512 Alkane-hydroxylase Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes in Pseudomonas oleovorans encode conversion of alkanes to acyl CoA. The alkane omega-hydroxylase (AlkB) system is responsible for the initial oxidation of inactivated alkanes. It is a three-component system comprising a soluble NADH-rubredoxin reductase (AlkT), a soluble rubredoxin (AlkG), and the integral membrane oxygenase (AlkB). AlkB utilizes the oxygen rebound mechanism to hydroxylate alkanes. This mechanism involves homolytic cleavage of the C-H bond by an electrophilic metal-oxo intermediate to generate a substrate-based radical. As with other members of this superfamily, this domain family has extensive hydrophobic regions that would be capable of spanning the membrane bilayer at least twice. The active
Probab=34.14 E-value=99 Score=30.25 Aligned_cols=16 Identities=31% Similarity=0.455 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 195 LFGGLITILGVSEIST 210 (320)
Q Consensus 195 ~al~ll~iL~~HElGH 210 (320)
++.|.+++-.+||++|
T Consensus 81 ~~~g~i~~~~aHel~H 96 (314)
T cd03512 81 LLSGVIGINTAHELIH 96 (314)
T ss_pred HHHHHhhHHHHHhccC
Confidence 3344455677888888
No 67
>PF13796 Sensor: Putative sensor
Probab=33.93 E-value=3.2e+02 Score=23.88 Aligned_cols=74 Identities=12% Similarity=0.032 Sum_probs=45.1
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHH-HHHHhCcccccccccccccccccceeeecCCCCCCchhhhhhhhhhhHHHH
Q 020890 190 ANVVPLFGGLITILGVSEISTRL-TAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAY 263 (320)
Q Consensus 190 ~~glp~al~ll~iL~~HElGH~~-~Ar~~gv~~slPyFIP~~~lGtfGav~~~~s~~p~r~alfdIaiAGPlag~ 263 (320)
..|+|.....+...-..=-.|+. +++..|+++..||--|.-.-|...-+.+.-+.+.+++++....+..|++-.
T Consensus 30 ~vGlpll~~~~~~~r~~a~~eR~r~~~~lg~~i~~p~~~~~~~~~~~~~~~~~l~d~~tWR~l~~~~l~~~lg~v 104 (181)
T PF13796_consen 30 GVGLPLLPLALAAARGFARLERRRARRLLGVPIPRPYRRPPPRPGWLARLRARLTDPATWRDLAYLLLHFPLGLV 104 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCHHHHHHHHhcCcchHHHHHHHHHHHHHHHH
Confidence 34666544433333333333444 444459999988864443455566666666678888999888887776543
No 68
>PF09471 Peptidase_M64: IgA Peptidase M64; InterPro: IPR019026 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 is a family of highly selective metallo-endopeptidases belonging to the MEROPS peptidase family M64 (IgA peptidase, clan MA). The primary structure of the Clostridium ramosum IgA peptidase shows no significant overall similarity to any other known metallo-endopeptidase []. ; PDB: 3P1V_A 4DF9_D.
Probab=33.08 E-value=25 Score=33.85 Aligned_cols=16 Identities=13% Similarity=0.100 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 199 LITILGVSEISTRLTA 214 (320)
Q Consensus 199 ll~iL~~HElGH~~~A 214 (320)
-+.-+++||+||.+.-
T Consensus 215 ~~~~v~vHE~GHsf~~ 230 (264)
T PF09471_consen 215 SFKQVVVHEFGHSFGG 230 (264)
T ss_dssp THHHHHHHHHHHHTT-
T ss_pred cccceeeeeccccccc
Confidence 3667889999998753
No 69
>PF01434 Peptidase_M41: Peptidase family M41 This is family M41 in the peptidase classification. ; InterPro: IPR000642 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 M41 (FtsH endopeptidase 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 peptidase M41 family belong to a larger family of zinc metalloproteases. This family includes the cell division protein FtsH, and the yeast mitochondrial respiratory chain complexes assembly protein, which is a putative ATP-dependent protease required for assembly of the mitochondrial respiratory chain and ATPase complexes. FtsH is an integral membrane protein, which seems to act as an ATP-dependent zinc metallopeptidase that binds one zinc ion.; GO: 0004222 metalloendopeptidase activity, 0005524 ATP binding, 0006508 proteolysis; PDB: 4EIW_C 2DHR_E 1IY1_A 1IY2_A 1IY0_A 1IXZ_A 2CE7_F 2CEA_F 3KDS_E 2QZ4_A ....
Probab=32.43 E-value=32 Score=31.49 Aligned_cols=19 Identities=11% Similarity=-0.036 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHhC
Q 020890 200 ITILGVSEISTRLTAARYG 218 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~g 218 (320)
--.+.+||.||.++|-..+
T Consensus 28 ~~~~A~HEAGhAvva~~l~ 46 (213)
T PF01434_consen 28 KRRIAYHEAGHAVVAYLLP 46 (213)
T ss_dssp HHHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 3467899999999998765
No 70
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=31.80 E-value=27 Score=36.20 Aligned_cols=41 Identities=5% Similarity=-0.175 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHhCcccccccccccccccccceeeec
Q 020890 200 ITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNY 241 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv~~slPyFIP~~~lGtfGav~~~ 241 (320)
+..+++||+||+-----.+- +..-++.=.+.++.||.+.+-
T Consensus 280 l~AVl~HELGHW~~~H~~K~-~ii~~~~l~l~~llF~~~~~~ 320 (428)
T KOG2719|consen 280 LVAVLAHELGHWKLNHVLKN-IIIMQIHLFLEFLLFGFLYRN 320 (428)
T ss_pred HHHHHHHHhhHHHHhhHHHH-HHHHHHHHHHHHHHHHHHHcC
Confidence 45678999999854322211 111111222457777777664
No 71
>cd04275 ZnMc_pappalysin_like Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor. This model includes pappalysins and related metalloprotease domains from all three kingdoms of life. The three-dimensional structure of an archaeal representative, ulilysin, has been solved.
Probab=29.79 E-value=8.4 Score=36.09 Aligned_cols=16 Identities=13% Similarity=0.036 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRLTAA 215 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar 215 (320)
++..++||+||++--+
T Consensus 137 ~g~t~~HEvGH~lGL~ 152 (225)
T cd04275 137 LGDTATHEVGHWLGLY 152 (225)
T ss_pred ccceeEEeccceeeee
Confidence 4467899999997543
No 72
>PRK09966 putative inner membrane diguanylate cyclase; Provisional
Probab=29.69 E-value=1.7e+02 Score=28.34 Aligned_cols=98 Identities=18% Similarity=0.201 Sum_probs=49.2
Q ss_pred hhhhhhhhcccCCCCchhhhhhhhhccchHHHHhhhhhhhhccCHhhHHHhhcccCcceEEEeeeeEeCCeEEEEccCCC
Q 020890 17 ADTKLKELDRESTDNPIMRLFNRLVRDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGNLRK 96 (320)
Q Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR~ 96 (320)
.+++..++.+...-+|+++++|+- .|..++++.-+.+.. ..++ ....-+++.+.+---.+|. .
T Consensus 237 l~~~~~~l~~~a~~D~lTgl~nr~---~f~~~l~~~~~~~~~---------~~~~---~l~~i~id~f~~in~~~G~--~ 299 (407)
T PRK09966 237 LQAKNAQLLRTALHDPLTGLANRA---AFRSGINTLMNNSDA---------RKTS---ALLFLDGDNFKYINDTWGH--A 299 (407)
T ss_pred HHHHHHHHHHHhCcCCccCCccHH---HHHHHHHHHHHHhhc---------CCce---EEEEEECccchHHHhhhch--H
Confidence 344445566666667888888764 233333222111100 0111 1222333333332223332 3
Q ss_pred cHHHHHHHHHHHHHHHhCCCeEEEEEeecCCCCCceEEEE
Q 020890 97 PIEEVIPKLEKKLSEAAGRDVVVWFMEEKTNDITKQACAV 136 (320)
Q Consensus 97 ~~e~v~~~L~~~L~~~fgd~y~l~l~e~~~~~~~~~vlvv 136 (320)
..+++.+++.+.|++.+++...+.-..+ +++++++
T Consensus 300 ~gd~~l~~~a~~L~~~~~~~~~~~R~~~-----deF~ill 334 (407)
T PRK09966 300 TGDRVLIEIAKRLAEFGGLRHKAYRLGG-----DEFAMVL 334 (407)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEEEEcc-----ceEEEEE
Confidence 5688999999999888776655543322 3566654
No 73
>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=28.97 E-value=32 Score=33.66 Aligned_cols=13 Identities=8% Similarity=0.102 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLTA 214 (320)
Q Consensus 202 iL~~HElGH~~~A 214 (320)
.-++||+||.+-.
T Consensus 224 ~tl~HE~GHa~h~ 236 (427)
T cd06459 224 FTLAHELGHAFHS 236 (427)
T ss_pred HHHHHHhhHHHHH
Confidence 4578999997643
No 74
>TIGR00275 flavoprotein, HI0933 family. The model when searched with a partial length search brings in proteins with a dinucleotide-binding motif (Rossman fold) over the initial 40 residues of the model, including oxidoreductases and dehydrogenases. Partially characterized members include an FAD-binding protein from Bacillus cereus and flavoprotein HI0933 from Haemophilus influenzae.
Probab=28.77 E-value=52 Score=32.66 Aligned_cols=66 Identities=14% Similarity=0.264 Sum_probs=43.2
Q ss_pred CCchhhhhhhhhccchHH---HHhhh--hhhhhccCHhhHHHhhcccCcceEEEeeeeEeCCeEEEEccCC
Q 020890 30 DNPIMRLFNRLVRDSLTR---EKERL--EKAEESFKALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGNLR 95 (320)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~---~~~~i--~~~ee~~~~eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR 95 (320)
...+...++.+.-+.+-. ++.+| ++.-..++++|+++|-+.+---.|-++.+..+.++.+++|=..
T Consensus 283 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lk~~~~~~~g~~~~~~a~vt~GGv~ 353 (400)
T TIGR00275 283 KKTVKNILKGLLPKRLAELLLEQLGIDPDLPAAQLSKKEIKKLVQLLKNWPFTVSGTRGFKEAEVTAGGVS 353 (400)
T ss_pred hhhHHHHhhhhhhHHHHHHHHHHcCCCCCCChHHCCHHHHHHHHHHHhCCEEEecCcCccceeEEecCccc
Confidence 444444444444444443 33333 3444567888999888655555699999999999999998443
No 75
>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=28.77 E-value=43 Score=29.78 Aligned_cols=22 Identities=14% Similarity=0.078 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 020890 193 VPLFGGLITILGVSEISTRLTA 214 (320)
Q Consensus 193 lp~al~ll~iL~~HElGH~~~A 214 (320)
-.+-.|.++.+++|||.|.+--
T Consensus 29 ~~~~yg~lG~ilahel~hafd~ 50 (206)
T PF01431_consen 29 PALNYGGLGFILAHELMHAFDP 50 (206)
T ss_dssp HHHHHHTHHHHHHHHHHHCTST
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444677999999999998743
No 76
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=28.17 E-value=46 Score=32.62 Aligned_cols=15 Identities=7% Similarity=0.027 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHH
Q 020890 201 TILGVSEISTRLTAA 215 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar 215 (320)
+-+++||.||.+...
T Consensus 171 ayVlAHEyGHHVQ~l 185 (292)
T PF04228_consen 171 AYVLAHEYGHHVQNL 185 (292)
T ss_pred HHHHHHHHHHHHHHH
Confidence 446899999998764
No 77
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=27.60 E-value=41 Score=27.83 Aligned_cols=16 Identities=31% Similarity=0.256 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 197 GGLITILGVSEISTRL 212 (320)
Q Consensus 197 l~ll~iL~~HElGH~~ 212 (320)
.-++-..++||+||++
T Consensus 70 ~~~I~~tlvhEiah~f 85 (97)
T PF06262_consen 70 AELIRDTLVHEIAHHF 85 (97)
T ss_dssp HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHc
Confidence 4457788999999986
No 78
>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=27.55 E-value=39 Score=33.96 Aligned_cols=20 Identities=10% Similarity=-0.062 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHhCcc
Q 020890 201 TILGVSEISTRLTAARYGVK 220 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar~~gv~ 220 (320)
...++||+||.+-.-.-+-+
T Consensus 243 v~tLfHE~GHa~H~~ls~~~ 262 (458)
T PF01432_consen 243 VETLFHEFGHAMHSLLSRTK 262 (458)
T ss_dssp HHHHHHHHHHHHHHHHCCCS
T ss_pred HHHHHHHHhHHHHHHHhccc
Confidence 35689999999877665543
No 79
>COG0819 TenA Putative transcription activator [Transcription]
Probab=27.24 E-value=72 Score=29.96 Aligned_cols=55 Identities=20% Similarity=0.280 Sum_probs=42.7
Q ss_pred hhhhhhcccCCCCchhhhhhhhhccchHH----HHhhhhhhhhccCHhhHHHhhcccCc
Q 020890 19 TKLKELDRESTDNPIMRLFNRLVRDSLTR----EKERLEKAEESFKALDLNKLRGCFGF 73 (320)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i~~~ee~~~~eDl~~lk~~Fg~ 73 (320)
.++++..+.+.++|-..-++.-+.+.+.. ....+++.-+..+++|+++++++|-.
T Consensus 144 ~~~~~~~~~~~~~~Y~~Wi~~Y~s~ef~~~v~~~~~~ld~~~~~~~~~~~~~l~~iF~~ 202 (218)
T COG0819 144 KRLKAKPRASPNPPYQEWIDTYASEEFQEAVEELEALLDSLAENSSEEELEKLKQIFLT 202 (218)
T ss_pred HHHHhccccCCCCcHHHHHHHcCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 45666677778899999999999888774 45556666667788999999998854
No 80
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=27.09 E-value=66 Score=34.51 Aligned_cols=38 Identities=8% Similarity=0.026 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHhC--cccccccccccccccccceeeec
Q 020890 201 TILGVSEISTRLTAARYG--VKLSPSFLVPSNWTGCLGVMNNY 241 (320)
Q Consensus 201 ~iL~~HElGH~~~Ar~~g--v~~slPyFIP~~~lGtfGav~~~ 241 (320)
-....||.||.+++..+. .++.-...+|. |.-++++.+
T Consensus 409 ~~~a~he~gha~~~~~~~~~~~~~~v~i~pr---g~~~g~~~~ 448 (644)
T PRK10733 409 ESTAYHEAGHAIIGRLVPEHDPVHKVTIIPR---GRALGVTFF 448 (644)
T ss_pred HHHHHHHHHHHHHHHHccCCCceeEEEEecc---CCCcceeEE
Confidence 567899999999998763 44444455666 333444443
No 81
>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=26.61 E-value=38 Score=35.33 Aligned_cols=13 Identities=8% Similarity=-0.079 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHH
Q 020890 201 TILGVSEISTRLT 213 (320)
Q Consensus 201 ~iL~~HElGH~~~ 213 (320)
...++||+||.+-
T Consensus 338 v~TL~HElGHa~H 350 (549)
T TIGR02289 338 IDVLTHEAGHAFH 350 (549)
T ss_pred HHHHHHHhhHHHH
Confidence 3467999999973
No 82
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=26.53 E-value=38 Score=35.59 Aligned_cols=18 Identities=22% Similarity=0.043 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHhCc
Q 020890 200 ITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv 219 (320)
++.+++||+||. +.+|-+
T Consensus 130 lagViAHEigHv--~qrH~a 147 (484)
T COG4783 130 LAGVIAHEIGHV--AQRHLA 147 (484)
T ss_pred HHHHHHHHHHHH--hhhhHH
Confidence 577899999995 344433
No 83
>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=25.66 E-value=45 Score=29.45 Aligned_cols=11 Identities=18% Similarity=0.283 Sum_probs=9.4
Q ss_pred HHHHHHHHHHH
Q 020890 203 LGVSEISTRLT 213 (320)
Q Consensus 203 L~~HElGH~~~ 213 (320)
+.+|||+|-++
T Consensus 138 VvaHEltHGVt 148 (150)
T PF01447_consen 138 VVAHELTHGVT 148 (150)
T ss_dssp HHHHHHHHHHH
T ss_pred eeeeccccccc
Confidence 57899999875
No 84
>PRK07650 4-amino-4-deoxychorismate lyase; Provisional
Probab=25.25 E-value=79 Score=29.76 Aligned_cols=78 Identities=14% Similarity=0.147 Sum_probs=51.8
Q ss_pred hhhhhhhccchHH--HHhhhhhhhhccCHhhHHHhhcccCcceE-EEeeeeEeCCeEEEEccCCCcHHHHHHHHHHHHHH
Q 020890 35 RLFNRLVRDSLTR--EKERLEKAEESFKALDLNKLRGCFGFDTF-FATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSE 111 (320)
Q Consensus 35 ~~~~~~~~~~~~~--~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF-~vte~~~~~~gvi~rGnLR~~~e~v~~~L~~~L~~ 111 (320)
++++...|..+-. ++++++-.|++++++|+..-.+||=.++. -+..+...++. .+. +++..+.+++++.+.+
T Consensus 199 g~L~GitR~~li~~~~~~g~~v~e~~i~~~dL~~adeifl~ns~~gv~pV~~i~~~-~~~----g~~g~~~~~l~~~~~~ 273 (283)
T PRK07650 199 GILNGITRAFVIKVLEELGIEVKEGFYTKEELLSADEVFVTNSIQEIVPLTRIEER-DFP----GKVGMVTKRLQNLYEM 273 (283)
T ss_pred CCcccHHHHHHHHHHHHcCCeEEEEecCHHHHhhCCEeeeecCcccEEEEEEECCE-EeC----CCCCHHHHHHHHHHHH
Confidence 3566666666553 56677888899999999999999887775 45556555543 332 4555666666666655
Q ss_pred HhCCCe
Q 020890 112 AAGRDV 117 (320)
Q Consensus 112 ~fgd~y 117 (320)
...+.|
T Consensus 274 ~~~~~~ 279 (283)
T PRK07650 274 QREKLW 279 (283)
T ss_pred HHHhhh
Confidence 544443
No 85
>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=24.72 E-value=37 Score=32.86 Aligned_cols=13 Identities=8% Similarity=-0.092 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHH
Q 020890 203 LGVSEISTRLTAA 215 (320)
Q Consensus 203 L~~HElGH~~~Ar 215 (320)
-+.||+||.+-..
T Consensus 157 tl~HE~GHa~h~~ 169 (365)
T cd06258 157 TLFHEFGHAVHFL 169 (365)
T ss_pred HHHHHHhHHHHHH
Confidence 4689999998554
No 86
>cd04271 ZnMc_ADAM_fungal Zinc-dependent metalloprotease, ADAM_fungal subgroup. The adamalysin_like or ADAM (A Disintegrin And Metalloprotease) family of metalloproteases are integral membrane proteases acting on a variety of extracellular targets. They are involved in shedding soluble peptides or proteins from the cell surface. This subfamily contains fungal ADAMs, whose precise function has yet to be determined.
Probab=24.49 E-value=28 Score=32.45 Aligned_cols=16 Identities=19% Similarity=0.071 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHh
Q 020890 202 ILGVSEISTRLTAARY 217 (320)
Q Consensus 202 iL~~HElGH~~~Ar~~ 217 (320)
..++|||||-+-+.+-
T Consensus 147 ~t~AHElGHnLGm~HD 162 (228)
T cd04271 147 QVFAHEIGHTFGAVHD 162 (228)
T ss_pred eehhhhhhhhcCCCCC
Confidence 6899999999988744
No 87
>PF04315 DUF462: Protein of unknown function, DUF462; InterPro: IPR007411 This family consists of bacterial proteins of uncharacterised function.
Probab=24.42 E-value=48 Score=30.22 Aligned_cols=16 Identities=25% Similarity=0.270 Sum_probs=12.0
Q ss_pred HHHHHHHHHHH--HHhCc
Q 020890 204 GVSEISTRLTA--ARYGV 219 (320)
Q Consensus 204 ~~HElGH~~~A--r~~gv 219 (320)
..||++|+-+| +|+.+
T Consensus 45 ALHEIaHWciAG~~RR~l 62 (164)
T PF04315_consen 45 ALHEIAHWCIAGPERRQL 62 (164)
T ss_pred HHHHHHHHHhcccccccc
Confidence 46999999999 44443
No 88
>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=24.38 E-value=41 Score=35.13 Aligned_cols=12 Identities=8% Similarity=0.122 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 020890 201 TILGVSEISTRL 212 (320)
Q Consensus 201 ~iL~~HElGH~~ 212 (320)
..-++||+||.+
T Consensus 379 v~TLaHElGHa~ 390 (591)
T TIGR00181 379 VFTLAHELGHSM 390 (591)
T ss_pred HHHHHHHhhhHH
Confidence 356799999987
No 89
>PRK04860 hypothetical protein; Provisional
Probab=23.34 E-value=78 Score=28.38 Aligned_cols=22 Identities=18% Similarity=0.235 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhC
Q 020890 197 GGLITILGVSEISTRLTAARYG 218 (320)
Q Consensus 197 l~ll~iL~~HElGH~~~Ar~~g 218 (320)
..++--++.||++||++=..+|
T Consensus 60 ~~~l~~~v~HEl~H~~~~~~~g 81 (160)
T PRK04860 60 QAFIDEVVPHELAHLLVYQLFG 81 (160)
T ss_pred HHHHHhHHHHHHHHHHHHHHcC
Confidence 3566777899999999998877
No 90
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=23.33 E-value=1.3e+02 Score=25.93 Aligned_cols=60 Identities=7% Similarity=-0.033 Sum_probs=41.3
Q ss_pred hhHHHhhcccCcceEEEeeeeEeCCeEEEEccCCCcHHHHHHHHHHHHHHHhCCCeEEEEEeec
Q 020890 62 LDLNKLRGCFGFDTFFATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEEK 125 (320)
Q Consensus 62 eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR~~~e~v~~~L~~~L~~~fgd~y~l~l~e~~ 125 (320)
.|..++++.+--.---+.+++..++.+++| =+.++---+-++-|++.+||+|.+-+...+
T Consensus 50 ~~~~~v~~~L~~~gI~~ksi~~~~~~~~ir----f~~~~~Ql~Ak~vL~~~L~~~y~VAlnl~p 109 (127)
T PRK10629 50 PDGFYVYQHLDANGIHIKSITPENDSLLIR----FDSPEQSAAAKEVLDRTLPHGYIIAQQDDN 109 (127)
T ss_pred chHHHHHHHHHHCCCCcceEEeeCCEEEEE----ECCHHHHHHHHHHHHHHcCCCCEEEEecCC
Confidence 456666665555555677788888887776 333344466677888899999988776654
No 91
>cd04276 ZnMc_MMP_like_2 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=23.08 E-value=57 Score=30.04 Aligned_cols=19 Identities=16% Similarity=0.144 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 020890 198 GLITILGVSEISTRLTAAR 216 (320)
Q Consensus 198 ~ll~iL~~HElGH~~~Ar~ 216 (320)
..+...++||+||.+--++
T Consensus 114 ~~~~~~~~he~gh~lGl~h 132 (197)
T cd04276 114 ASLRYLLAHEVGHTLGLRH 132 (197)
T ss_pred HHHHHHHHHHHHHHhcCcc
Confidence 5567789999999986554
No 92
>PRK10245 adrA diguanylate cyclase AdrA; Provisional
Probab=22.21 E-value=2.3e+02 Score=27.86 Aligned_cols=80 Identities=20% Similarity=0.231 Sum_probs=41.0
Q ss_pred hhcccCCCCchhhhhhhhh-ccchHHHHhhhhhhhhccCHhhHHHhhcccCcceEEEeeeeEeCCeEEEEccCCCcHHHH
Q 020890 23 ELDRESTDNPIMRLFNRLV-RDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGNLRKPIEEV 101 (320)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR~~~e~v 101 (320)
++++...-+|+++++|+-. .+.+.++.++..+...+ -+..+-+++.+.+----.|. ...+++
T Consensus 200 ~l~~~a~~D~LTGL~NR~~f~~~l~~~l~~~~~~~~~---------------~~ll~idId~Fk~INd~~Gh--~~GD~l 262 (366)
T PRK10245 200 RLQVMSTRDGMTGVYNRRHWETLLRNEFDNCRRHHRD---------------ATLLIIDIDHFKSINDTWGH--DVGDEA 262 (366)
T ss_pred HHHHHhCcCCccCCCCHHHHHHHHHHHHHHHHhcCCC---------------EEEEEEECCcchHHHHhhCc--hHHHHH
Confidence 3444455689999999743 22233333322221100 11222333333332222232 246788
Q ss_pred HHHHHHHHHHHhCCCeEE
Q 020890 102 IPKLEKKLSEAAGRDVVV 119 (320)
Q Consensus 102 ~~~L~~~L~~~fgd~y~l 119 (320)
.+++.+.|++.+++.-.+
T Consensus 263 L~~vA~~L~~~l~~~d~l 280 (366)
T PRK10245 263 IVALTRQLQITLRGSDVI 280 (366)
T ss_pred HHHHHHHHHHhCCCCCEE
Confidence 899999999888766443
No 93
>TIGR03296 M6dom_TIGR03296 M6 family metalloprotease domain. This model describes a metalloproteinase domain, with a characteristic HExxH motif. Examples of this domain are found in proteins in the family of immune inhibitor A, which cleaves antibacterial peptides, and in other, only distantly related proteases. This model is built to be broader and more inclusive than Pfam model pfam05547.
Probab=22.14 E-value=21 Score=34.21 Aligned_cols=12 Identities=17% Similarity=0.083 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHH
Q 020890 201 TILGVSEISTRL 212 (320)
Q Consensus 201 ~iL~~HElGH~~ 212 (320)
.-+++||+||.+
T Consensus 166 igv~~HE~gH~l 177 (286)
T TIGR03296 166 VGVIAHELGHDL 177 (286)
T ss_pred eeeeehhhhccc
Confidence 456799999954
No 94
>PLN02259 branched-chain-amino-acid aminotransferase 2
Probab=22.00 E-value=99 Score=31.31 Aligned_cols=73 Identities=14% Similarity=0.105 Sum_probs=51.1
Q ss_pred hhhhhhccchHH--HHhhhhhhhhccCHhhHHHhhcccCcceE----EEeeeeEeCCeEEEEccCCCcHHHHHHHHHHHH
Q 020890 36 LFNRLVRDSLTR--EKERLEKAEESFKALDLNKLRGCFGFDTF----FATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKL 109 (320)
Q Consensus 36 ~~~~~~~~~~~~--~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF----~vte~~~~~~gvi~rGnLR~~~e~v~~~L~~~L 109 (320)
+++.+.|+++-. +..+++-.|++++.+||.+-.+||.-+|- -|.++.+.+..+.+.+. +.++.++|++.+
T Consensus 294 iL~GITR~sIl~la~~~G~~V~Er~i~~~eL~~AdEvF~tgTa~~V~PV~~I~~~~~~~~~~~~----~g~~t~~L~~~l 369 (388)
T PLN02259 294 ILEGITRKSVMEIASDQGYQVVEKAVHVDEVMDADEVFCTGTAVVVAPVGTITYQEKRVEYKTG----DESVCQKLRSVL 369 (388)
T ss_pred cCcCHHHHHHHHHHHHCCCeEEEEECCHHHHHhCCEEEEcCCcceEEEEEEEecCCceEEeCCC----CCHHHHHHHHHH
Confidence 566666666653 55678888999999999999999999986 34444433344444321 237888888888
Q ss_pred HHH
Q 020890 110 SEA 112 (320)
Q Consensus 110 ~~~ 112 (320)
...
T Consensus 370 ~~i 372 (388)
T PLN02259 370 VGI 372 (388)
T ss_pred HHH
Confidence 777
No 95
>PF04155 Ground-like: Ground-like domain; InterPro: IPR007284 This group of proteins contain one or more copies of the ground-like domain, which are specific to Caenorhabditis elegans and Caenorhabditis briggsae. It has been proposed that the ground-like domain containing proteins may bind and modulate the activity of Patched-like membrane molecules, reminiscent of the modulating activities of neuropeptides [].
Probab=21.97 E-value=1.5e+02 Score=22.84 Aligned_cols=29 Identities=14% Similarity=0.040 Sum_probs=25.9
Q ss_pred CcHHHHHHHHHHHHHHHhCCCeEEEEEee
Q 020890 96 KPIEEVIPKLEKKLSEAAGRDVVVWFMEE 124 (320)
Q Consensus 96 ~~~e~v~~~L~~~L~~~fgd~y~l~l~e~ 124 (320)
.++..+-+.|++.++++||.+|.|+.-++
T Consensus 22 ~~~~~s~~~Iq~~~e~~f~~~f~vIcs~~ 50 (76)
T PF04155_consen 22 CNLSISKRAIQKAAEKRFGGSFEVICSEG 50 (76)
T ss_pred CCHHHHHHHHHHHHHHHhCCCEEEEEeCC
Confidence 78889999999999999999999997655
No 96
>cd04273 ZnMc_ADAMTS_like Zinc-dependent metalloprotease, ADAMTS_like subgroup. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions. This particular subfamily represents domain architectures that combine ADAM-like metalloproteinases with thrombospondin type-1 repeats. ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) proteinases are inhibited by TIMPs (tissue inhibitors of metalloproteinases), and they play roles in coagulation, angiogenesis, development and progression of arthritis. They hydrolyze the von Willebrand factor precursor and various components of the extracellular matrix.
Probab=21.93 E-value=13 Score=33.57 Aligned_cols=20 Identities=15% Similarity=0.042 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHhCc
Q 020890 200 ITILGVSEISTRLTAARYGV 219 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar~~gv 219 (320)
.+..++||+||.+-+.+-+-
T Consensus 140 ~a~~~aHElGH~LG~~HD~~ 159 (207)
T cd04273 140 SAFTIAHELGHVLGMPHDGD 159 (207)
T ss_pred eEEeeeeechhhcCCCCCCC
Confidence 36789999999998876654
No 97
>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=21.76 E-value=52 Score=34.50 Aligned_cols=12 Identities=8% Similarity=-0.053 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLT 213 (320)
Q Consensus 202 iL~~HElGH~~~ 213 (320)
.-++||+||.+-
T Consensus 377 ~TL~HE~GHa~H 388 (587)
T TIGR02290 377 STLAHELGHAYH 388 (587)
T ss_pred HHHHHHhhHHHH
Confidence 457999999983
No 98
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=21.48 E-value=58 Score=30.93 Aligned_cols=14 Identities=14% Similarity=0.287 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHH
Q 020890 202 ILGVSEISTRLTAA 215 (320)
Q Consensus 202 iL~~HElGH~~~Ar 215 (320)
.+.+||.||.+.=.
T Consensus 91 aVAAHEvGHAiQ~a 104 (222)
T PF04298_consen 91 AVAAHEVGHAIQHA 104 (222)
T ss_pred HHHHHHHhHHHhcc
Confidence 35789999998744
No 99
>PLN02782 Branched-chain amino acid aminotransferase
Probab=21.16 E-value=1.3e+02 Score=30.52 Aligned_cols=75 Identities=15% Similarity=0.170 Sum_probs=52.0
Q ss_pred hhhhhhccchHH--HHhhhhhhhhccCHhhHHHhhcccCcceE-EEeeeeEe--CCeEEEEccCCCcHHHHHHHHHHHHH
Q 020890 36 LFNRLVRDSLTR--EKERLEKAEESFKALDLNKLRGCFGFDTF-FATDVRRF--GDGGIFIGNLRKPIEEVIPKLEKKLS 110 (320)
Q Consensus 36 ~~~~~~~~~~~~--~~~~i~~~ee~~~~eDl~~lk~~Fg~dtF-~vte~~~~--~~gvi~rGnLR~~~e~v~~~L~~~L~ 110 (320)
++..+.|+++-. +.++++-.|++++.+|+.+-.+||.-+|- -++-+... ++.-+..|+ +.+-.+.++|++.+.
T Consensus 308 iLpGITR~svlela~~~Gi~V~Er~i~~~eL~~AdEvF~tgTa~~V~PV~~I~~~g~~~~~~~--g~~Gpvt~~L~~~l~ 385 (403)
T PLN02782 308 ILPGITRKSIIDVARSQGFQVEERNVTVDELLEADEVFCTGTAVVVSPVGSITYKGKRVSYGE--GGFGTVSQQLYTVLT 385 (403)
T ss_pred cCcCHHHHHHHHHHHHcCCeEEEEECCHHHHhhCCEEEEccCcceEEEEEEEEECCEEEeCCC--CCcCHHHHHHHHHHH
Confidence 566666666654 55678888999999999999999998885 44444433 444333454 345567788888887
Q ss_pred HH
Q 020890 111 EA 112 (320)
Q Consensus 111 ~~ 112 (320)
+.
T Consensus 386 ~i 387 (403)
T PLN02782 386 SL 387 (403)
T ss_pred HH
Confidence 76
No 100
>cd06455 M3A_TOP Peptidase M3 Thimet oligopeptidase (TOP; PZ-peptidase; endo-oligopeptidase A; endopeptidase 24.15; soluble metallo-endopeptidase; EC 3.4.24.15) family also includes neurolysin (endopeptidase 24.16, microsomal endopeptidase, mitochondrial oligopeptidase M, neurotensin endopeptidase, soluble angiotensin II-binding protein, thimet oligopeptidase II) which hydrolyzes oligopeptides such as neurotensin, bradykinin and dynorphin A. TOP and neurolysin are neuropeptidases expressed abundantly in the testis, but also found in the liver, lung and kidney. They are involved in the metabolism of neuropeptides under 20 amino acid residues long and cleave most bioactive peptides at the same sites, but recognize different positions on some naturally occurring and synthetic peptides; they cleave at distinct sites on the 13-residue bioactive peptide neurotensin, which modulates central dopaminergic and cholinergic circuits. TOP has been shown to degrade peptides released by the proteasom
Probab=20.87 E-value=60 Score=33.24 Aligned_cols=25 Identities=20% Similarity=0.101 Sum_probs=18.9
Q ss_pred cHHHHHHHHHHHHHHHhCCCeEEEE
Q 020890 97 PIEEVIPKLEKKLSEAAGRDVVVWF 121 (320)
Q Consensus 97 ~~e~v~~~L~~~L~~~fgd~y~l~l 121 (320)
+-+++.+.+.+-+++.||.+|.-..
T Consensus 157 ~~~~~~~~i~~~~~~lfg~~~~~~~ 181 (472)
T cd06455 157 PLEVVIEGMLDIYQRLFGLRFEEVP 181 (472)
T ss_pred cHHHHHHHHHHHHHHHhCeEEEeCC
Confidence 5667888888888777998886553
No 101
>PF12301 CD99L2: CD99 antigen like protein 2; InterPro: IPR022078 This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=20.73 E-value=70 Score=29.14 Aligned_cols=26 Identities=15% Similarity=0.142 Sum_probs=21.9
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHhhC
Q 020890 252 FDIPVARTASAYLTSLALAVAAFVAD 277 (320)
Q Consensus 252 fdIaiAGPlag~~~al~~~~~Gl~ls 277 (320)
-.-+.+|.++|.+-+++++++|.+.|
T Consensus 109 ~~~~~~g~IaGIvsav~valvGAvsS 134 (169)
T PF12301_consen 109 DGEAEAGTIAGIVSAVVVALVGAVSS 134 (169)
T ss_pred ccCcccchhhhHHHHHHHHHHHHHHH
Confidence 34568999999999999999997766
No 102
>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=20.62 E-value=48 Score=35.68 Aligned_cols=16 Identities=19% Similarity=0.136 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 020890 200 ITILGVSEISTRLTAA 215 (320)
Q Consensus 200 l~iL~~HElGH~~~Ar 215 (320)
++.+++||++|.|...
T Consensus 288 l~~vIaHEIAHSWtGN 303 (613)
T KOG1047|consen 288 LVDVIAHEIAHSWTGN 303 (613)
T ss_pred hhhHHHHHhhhhhccc
Confidence 4789999999999753
No 103
>PF10692 DUF2498: Protein of unknown function (DUF2498); InterPro: IPR019633 This entry represents proteins found in gammaproteobacteria, including YciN from Escherichia coli. Their function is not known. ; PDB: 3M92_A.
Probab=20.60 E-value=3.8e+02 Score=21.92 Aligned_cols=44 Identities=23% Similarity=0.224 Sum_probs=28.9
Q ss_pred eEEEeeeeEeCCeEEEEccCCCc--------HHHHHHHHHHHHHHHhCCCeEE
Q 020890 75 TFFATDVRRFGDGGIFIGNLRKP--------IEEVIPKLEKKLSEAAGRDVVV 119 (320)
Q Consensus 75 tF~vte~~~~~~gvi~rGnLR~~--------~e~v~~~L~~~L~~~fgd~y~l 119 (320)
.-.+++++..++..+|||+-=-| ...|| .+-+.|.-.+.++|.+
T Consensus 29 GM~a~~Veqk~~VLVFkGeyFLD~~GlPT~KtTAvF-NmFK~LAh~LS~~y~L 80 (82)
T PF10692_consen 29 GMRATSVEQKGDVLVFKGEYFLDEQGLPTAKTTAVF-NMFKHLAHVLSEKYHL 80 (82)
T ss_dssp T--EEEEEECTTEEEEEE-----TTS---HHHHHHH-HHHHHHHHHHCCCEEE
T ss_pred cccccceeeECCEEEEecceeecCCCCCCcchHHHH-HHHHHHHHHcCcceEe
Confidence 35799999999999999975322 22344 4667777788888976
No 104
>PRK13267 archaemetzincin-like protein; Reviewed
Probab=20.54 E-value=52 Score=29.93 Aligned_cols=16 Identities=13% Similarity=-0.004 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHh
Q 020890 202 ILGVSEISTRLTAARY 217 (320)
Q Consensus 202 iL~~HElGH~~~Ar~~ 217 (320)
-..+||+||.+--.+-
T Consensus 127 k~~~HElGH~lGL~HC 142 (179)
T PRK13267 127 KEVTHELGHTLGLEHC 142 (179)
T ss_pred HHHHHHHHHHcCCccC
Confidence 3479999999765543
No 105
>KOG2661 consensus Peptidase family M48 [Posttranslational modification, protein turnover, chaperones]
Probab=20.52 E-value=70 Score=32.65 Aligned_cols=18 Identities=22% Similarity=0.215 Sum_probs=13.1
Q ss_pred cccCcceEEEeeeeEeCC
Q 020890 69 GCFGFDTFFATDVRRFGD 86 (320)
Q Consensus 69 ~~Fg~dtF~vte~~~~~~ 86 (320)
+..+..+||.|..|..+=
T Consensus 156 G~~~~~vfyfthlE~~Pi 173 (424)
T KOG2661|consen 156 GLLLFVVFYFTHLEVSPI 173 (424)
T ss_pred hccceEEEEEeeeeeecc
Confidence 334489999998877664
No 106
>PF12046 DUF3529: Protein of unknown function (DUF3529); InterPro: IPR021919 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 176 to 190 amino acids in length.
Probab=20.43 E-value=32 Score=31.51 Aligned_cols=48 Identities=13% Similarity=0.095 Sum_probs=38.1
Q ss_pred CHhhHHHhhcccCcceEEEeeeeEeCCeEEEEccCCCcH-HHHHHHHHH
Q 020890 60 KALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGNLRKPI-EEVIPKLEK 107 (320)
Q Consensus 60 ~~eDl~~lk~~Fg~dtF~vte~~~~~~gvi~rGnLR~~~-e~v~~~L~~ 107 (320)
+++-+++|++-|--.-|-+++.++.++.+.|+|+.+... ..+|=.+..
T Consensus 42 ~~~~~~~l~~yf~~r~y~v~~~d~~~~~itFeG~V~pS~~lA~fLt~l~ 90 (173)
T PF12046_consen 42 PDEVLEQLKAYFEQRNYRVAEGDAEGEVITFEGFVAPSWFLAIFLTFLA 90 (173)
T ss_pred HHHHHHHHHHHHHhcCceecccCccccEEEEEEEecCcHhHHHHHHHHH
Confidence 556678899999999999999999999999999998754 334444433
No 107
>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=20.31 E-value=53 Score=29.29 Aligned_cols=16 Identities=19% Similarity=-0.137 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHh
Q 020890 202 ILGVSEISTRLTAARY 217 (320)
Q Consensus 202 iL~~HElGH~~~Ar~~ 217 (320)
-..+||+||.+-..+-
T Consensus 76 g~v~HE~~HalG~~HE 91 (180)
T cd04280 76 GTIVHELMHALGFYHE 91 (180)
T ss_pred chhHHHHHHHhcCcch
Confidence 3578999999765443
No 108
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=20.05 E-value=1.1e+02 Score=24.42 Aligned_cols=34 Identities=24% Similarity=0.434 Sum_probs=21.9
Q ss_pred ccCCCcHHHHHHHHHHHHHHHhC---CCeEEEEEeec
Q 020890 92 GNLRKPIEEVIPKLEKKLSEAAG---RDVVVWFMEEK 125 (320)
Q Consensus 92 GnLR~~~e~v~~~L~~~L~~~fg---d~y~l~l~e~~ 125 (320)
|+-...-++.|+.|.++|++..| +...+.++|.+
T Consensus 39 gRs~e~K~~ly~~l~~~L~~~~gi~p~Dv~I~l~e~~ 75 (82)
T PF14552_consen 39 GRSTEQKKALYRALAERLAEKLGIRPEDVMIVLVENP 75 (82)
T ss_dssp ---HHHHHHHHHHHHHHHHHHH---GGGEEEEEEEE-
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCCHHHEEEEEEECC
Confidence 55445667899999999998876 44666666654
Done!