Query 024810
Match_columns 262
No_of_seqs 259 out of 1822
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 07:34:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024810.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024810hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK04897 heat shock protein Ht 100.0 1.5E-32 3.2E-37 251.5 15.4 215 41-261 3-252 (298)
2 PRK02391 heat shock protein Ht 100.0 2.4E-29 5.1E-34 230.1 22.1 165 96-261 50-239 (296)
3 PRK03072 heat shock protein Ht 100.0 2.6E-29 5.6E-34 229.2 21.4 167 94-261 42-232 (288)
4 PRK02870 heat shock protein Ht 100.0 4.4E-30 9.6E-35 238.0 16.4 223 37-261 9-278 (336)
5 PRK03001 M48 family peptidase; 100.0 3.4E-29 7.3E-34 227.8 21.0 163 98-261 43-227 (283)
6 PRK01345 heat shock protein Ht 100.0 5.1E-29 1.1E-33 229.9 22.2 165 96-261 41-228 (317)
7 PRK03982 heat shock protein Ht 100.0 1.3E-28 2.8E-33 224.5 21.7 165 96-261 42-232 (288)
8 PRK01265 heat shock protein Ht 100.0 1.1E-27 2.4E-32 221.0 22.5 165 96-261 55-249 (324)
9 PRK05457 heat shock protein Ht 100.0 3.6E-27 7.8E-32 214.6 22.1 199 53-261 13-242 (284)
10 COG0501 HtpX Zn-dependent prot 99.9 5.7E-24 1.2E-28 193.2 19.0 170 90-261 61-256 (302)
11 PF01435 Peptidase_M48: Peptid 99.9 1.1E-23 2.4E-28 183.2 8.0 142 118-260 26-187 (226)
12 PF05569 Peptidase_M56: BlaR1 99.8 5.7E-18 1.2E-22 154.7 17.0 133 118-260 136-270 (299)
13 KOG2719 Metalloprotease [Gener 99.7 1.7E-16 3.7E-21 149.5 19.4 143 116-260 210-390 (428)
14 COG4783 Putative Zn-dependent 99.7 4.3E-16 9.4E-21 147.9 14.7 167 87-260 33-230 (484)
15 COG4219 MecR1 Antirepressor re 99.6 1E-14 2.2E-19 132.7 15.6 161 90-261 103-265 (337)
16 COG4784 Putative Zn-dependent 99.5 1.3E-13 2.9E-18 126.2 11.7 139 119-261 60-216 (479)
17 KOG2661 Peptidase family M48 [ 99.5 3.9E-13 8.5E-18 122.6 12.4 138 118-261 207-365 (424)
18 PF06114 DUF955: Domain of unk 97.9 0.00012 2.5E-09 56.6 9.4 70 162-257 28-97 (122)
19 PF04228 Zn_peptidase: Putativ 97.4 0.0015 3.3E-08 60.0 10.1 106 125-246 99-223 (292)
20 PF01863 DUF45: Protein of unk 97.1 0.0015 3.2E-08 56.1 7.1 69 124-197 113-181 (205)
21 PRK04351 hypothetical protein; 96.7 0.0079 1.7E-07 50.1 8.0 67 122-192 3-73 (149)
22 COG1451 Predicted metal-depend 96.5 0.014 3E-07 51.8 8.1 71 125-200 125-195 (223)
23 smart00731 SprT SprT homologue 96.2 0.013 2.8E-07 48.3 6.0 32 162-193 41-72 (146)
24 PF13203 DUF2201_N: Putative m 95.9 0.021 4.6E-07 52.0 6.6 36 164-199 44-79 (292)
25 PF10263 SprT-like: SprT-like 95.8 0.07 1.5E-06 43.9 8.7 30 164-193 44-73 (157)
26 PF10463 Peptidase_U49: Peptid 95.1 0.018 4E-07 50.4 3.1 42 178-246 99-140 (206)
27 PF04450 BSP: Peptidase of pla 94.7 0.2 4.4E-06 43.8 8.5 52 144-196 56-112 (205)
28 COG2856 Predicted Zn peptidase 94.5 0.031 6.7E-07 49.2 3.1 32 159-194 55-86 (213)
29 PRK04860 hypothetical protein; 94.2 0.18 4E-06 42.4 6.9 65 126-193 10-76 (160)
30 PF10026 DUF2268: Predicted Zn 93.8 0.27 5.9E-06 42.4 7.4 70 124-194 4-79 (195)
31 COG3091 SprT Zn-dependent meta 93.4 0.21 4.6E-06 41.5 5.8 66 122-192 4-73 (156)
32 PF13699 DUF4157: Domain of un 93.2 0.2 4.4E-06 37.1 5.0 58 131-194 9-75 (79)
33 PRK09672 phage exclusion prote 93.1 0.091 2E-06 48.3 3.4 42 178-246 163-204 (305)
34 PF04298 Zn_peptidase_2: Putat 92.6 7.2 0.00016 34.6 14.6 66 126-196 40-105 (222)
35 COG4900 Predicted metallopepti 89.2 1.4 3.1E-05 35.0 6.1 71 122-193 6-93 (133)
36 PF12388 Peptidase_M57: Dual-a 87.2 0.63 1.4E-05 40.9 3.4 35 163-199 118-153 (211)
37 COG1164 Oligoendopeptidase F [ 87.2 0.88 1.9E-05 46.0 4.9 49 141-194 345-394 (598)
38 PF02031 Peptidase_M7: Strepto 87.2 2.2 4.8E-05 34.6 6.2 37 151-192 53-89 (132)
39 COG2321 Predicted metalloprote 86.5 2.2 4.8E-05 39.0 6.5 64 127-193 98-180 (295)
40 PF14247 DUF4344: Domain of un 86.2 2.6 5.7E-05 37.3 6.8 57 133-193 30-105 (220)
41 COG3590 PepO Predicted metallo 86.0 0.16 3.4E-06 50.5 -1.2 48 143-193 443-500 (654)
42 COG2738 Predicted Zn-dependent 85.8 5.9 0.00013 34.6 8.4 67 129-200 46-112 (226)
43 TIGR00181 pepF oligoendopeptid 85.3 0.98 2.1E-05 45.2 4.1 43 146-194 349-392 (591)
44 PF13485 Peptidase_MA_2: Pepti 82.3 1.6 3.4E-05 33.4 3.3 33 162-197 10-42 (128)
45 TIGR02289 M3_not_pepF oligoend 80.3 1.3 2.7E-05 44.2 2.6 66 124-195 273-352 (549)
46 PF09768 Peptidase_M76: Peptid 79.2 3.1 6.8E-05 35.5 4.3 67 122-192 15-83 (173)
47 PF08325 WLM: WLM domain; Int 77.9 2.4 5.1E-05 36.5 3.2 23 174-196 76-98 (186)
48 PF00413 Peptidase_M10: Matrix 77.2 1.7 3.6E-05 35.2 2.0 21 176-196 101-122 (154)
49 cd04279 ZnMc_MMP_like_1 Zinc-d 77.0 1.6 3.5E-05 35.8 1.9 16 177-192 101-116 (156)
50 cd04270 ZnMc_TACE_like Zinc-de 76.8 1.7 3.7E-05 38.7 2.2 28 166-193 147-180 (244)
51 cd04268 ZnMc_MMP_like Zinc-dep 75.7 1.8 3.8E-05 35.5 1.8 32 162-193 72-107 (165)
52 TIGR02290 M3_fam_3 oligoendope 74.4 3.7 7.9E-05 41.2 4.0 46 144-194 343-389 (587)
53 PF14891 Peptidase_M91: Effect 74.1 10 0.00022 32.0 6.1 16 178-193 101-116 (174)
54 COG3864 Uncharacterized protei 73.8 4.8 0.0001 37.6 4.2 35 163-197 52-86 (396)
55 cd06460 M32_Taq Peptidase fami 70.9 31 0.00067 33.2 9.2 64 125-196 109-175 (396)
56 PF13688 Reprolysin_5: Metallo 70.4 2.3 5E-05 36.0 1.3 17 176-192 138-154 (196)
57 cd06459 M3B_Oligoendopeptidase 69.7 3.7 8E-05 38.9 2.7 43 147-194 193-236 (427)
58 PF01447 Peptidase_M4: Thermol 69.2 2.6 5.6E-05 35.0 1.3 42 147-193 106-148 (150)
59 PF13582 Reprolysin_3: Metallo 69.1 2.7 5.8E-05 32.8 1.3 12 181-192 108-119 (124)
60 PF01431 Peptidase_M13: Peptid 68.7 3.3 7.2E-05 35.4 2.0 36 161-196 7-52 (206)
61 PF01433 Peptidase_M1: Peptida 68.3 14 0.00031 34.3 6.3 67 125-196 234-311 (390)
62 cd04269 ZnMc_adamalysin_II_lik 67.5 4 8.6E-05 34.6 2.2 16 177-192 128-143 (194)
63 PF01432 Peptidase_M3: Peptida 67.3 4.3 9.3E-05 39.2 2.6 45 148-193 197-255 (458)
64 TIGR02414 pepN_proteo aminopep 65.2 9.1 0.0002 40.5 4.7 19 178-196 281-299 (863)
65 COG4324 Predicted aminopeptida 65.1 4.6 0.0001 36.9 2.2 34 167-200 181-220 (376)
66 PF13574 Reprolysin_2: Metallo 64.9 3.5 7.6E-05 34.7 1.3 14 180-193 111-124 (173)
67 cd06258 Peptidase_M3_like The 64.8 5.8 0.00013 37.0 2.9 46 148-194 112-168 (365)
68 cd06455 M3A_TOP Peptidase M3 T 63.6 5.1 0.00011 39.2 2.4 45 149-194 217-277 (472)
69 PF01421 Reprolysin: Reprolysi 62.7 6.5 0.00014 33.5 2.6 18 175-192 126-143 (199)
70 cd04278 ZnMc_MMP Zinc-dependen 62.3 3.8 8.2E-05 33.6 1.1 20 177-196 104-124 (157)
71 cd04267 ZnMc_ADAM_like Zinc-de 61.9 3.3 7.1E-05 35.0 0.6 16 177-192 130-145 (192)
72 cd06456 M3A_DCP_Oligopeptidase 60.0 8.1 0.00017 37.4 3.0 44 150-194 165-222 (422)
73 cd04271 ZnMc_ADAM_fungal Zinc- 59.8 3.1 6.7E-05 36.8 0.1 11 182-192 147-157 (228)
74 PF10023 DUF2265: Predicted am 59.2 5.4 0.00012 37.5 1.6 33 168-200 150-188 (337)
75 KOG3314 Ku70-binding protein [ 58.2 27 0.00059 29.7 5.4 67 127-196 41-107 (194)
76 PF05572 Peptidase_M43: Pregna 58.2 5.8 0.00013 33.0 1.5 22 176-197 65-87 (154)
77 TIGR02412 pepN_strep_liv amino 58.1 20 0.00043 37.7 5.7 66 128-196 231-303 (831)
78 cd00203 ZnMc Zinc-dependent me 57.8 4.7 0.0001 32.9 0.9 16 177-192 93-108 (167)
79 cd04272 ZnMc_salivary_gland_MP 57.5 6.2 0.00013 34.3 1.6 14 179-192 144-157 (220)
80 PF13583 Reprolysin_4: Metallo 55.2 6.3 0.00014 34.2 1.3 15 182-196 139-154 (206)
81 KOG1047 Bifunctional leukotrie 54.7 6.2 0.00013 39.5 1.2 33 161-195 270-303 (613)
82 cd04276 ZnMc_MMP_like_2 Zinc-d 54.1 12 0.00025 32.6 2.7 30 163-192 92-128 (197)
83 KOG3624 M13 family peptidase [ 53.0 10 0.00022 38.8 2.5 50 144-196 475-534 (687)
84 TIGR03793 TOMM_pelo TOMM prope 52.5 45 0.00097 24.6 5.2 54 121-185 15-76 (77)
85 PRK14015 pepN aminopeptidase N 51.1 21 0.00046 37.9 4.6 19 179-197 295-313 (875)
86 smart00235 ZnMc Zinc-dependent 50.8 8.3 0.00018 30.8 1.2 12 181-192 87-98 (140)
87 TIGR02411 leuko_A4_hydro leuko 48.9 9.6 0.00021 38.6 1.6 34 161-196 261-295 (601)
88 KOG1046 Puromycin-sensitive am 47.0 42 0.00091 35.7 6.0 20 177-196 321-340 (882)
89 cd04327 ZnMc_MMP_like_3 Zinc-d 46.7 15 0.00032 31.5 2.3 16 178-193 90-105 (198)
90 cd04277 ZnMc_serralysin_like Z 45.8 14 0.0003 31.1 1.9 35 163-197 94-131 (186)
91 PF02163 Peptidase_M50: Peptid 45.3 15 0.00032 30.9 2.0 14 180-193 7-20 (192)
92 TIGR02421 QEGLA conserved hypo 41.1 47 0.001 31.7 4.8 61 122-189 136-197 (366)
93 cd04273 ZnMc_ADAMTS_like Zinc- 40.8 5.1 0.00011 34.5 -1.6 13 180-192 140-152 (207)
94 PF12725 DUF3810: Protein of u 40.5 16 0.00035 34.0 1.6 19 175-193 191-209 (318)
95 cd05709 S2P-M50 Site-2 proteas 39.4 20 0.00044 29.8 1.9 12 181-192 9-20 (180)
96 cd06163 S2P-M50_PDZ_RseP-like 39.1 18 0.0004 30.9 1.6 11 182-192 11-21 (182)
97 cd06161 S2P-M50_SpoIVFB SpoIVF 38.4 21 0.00046 30.9 1.9 13 180-192 38-50 (208)
98 PF08014 DUF1704: Domain of un 37.3 63 0.0014 30.6 5.0 66 122-194 111-180 (349)
99 cd03082 TRX_Fd_NuoE_W_FDH_beta 35.7 38 0.00082 24.3 2.6 52 127-185 19-70 (72)
100 cd06164 S2P-M50_SpoIVFB_CBS Sp 35.5 25 0.00054 31.0 1.9 13 180-192 53-65 (227)
101 PF10460 Peptidase_M30: Peptid 35.0 31 0.00067 32.9 2.5 30 164-193 120-152 (366)
102 PF02074 Peptidase_M32: Carbox 34.9 1.3E+02 0.0029 29.8 7.1 65 125-194 209-273 (494)
103 TIGR03296 M6dom_TIGR03296 M6 f 34.0 9.6 0.00021 34.8 -1.0 12 181-192 166-177 (286)
104 PF12315 DUF3633: Protein of u 33.9 34 0.00075 30.1 2.5 20 174-193 87-106 (212)
105 PRK10911 oligopeptidase A; Pro 33.9 29 0.00062 35.8 2.3 19 175-194 459-477 (680)
106 PRK11767 SpoVR family protein; 33.7 52 0.0011 32.7 3.9 69 124-192 19-121 (498)
107 PF06262 DUF1025: Possibl zinc 33.6 39 0.00085 26.0 2.5 34 162-195 49-88 (97)
108 cd06160 S2P-M50_like_2 Unchara 32.2 31 0.00067 29.5 1.9 14 179-192 40-53 (183)
109 PF13398 Peptidase_M50B: Pepti 32.0 31 0.00068 29.7 1.9 15 178-192 20-34 (200)
110 PF14521 Aspzincin_M35: Lysine 31.7 68 0.0015 26.3 3.8 29 163-191 77-107 (148)
111 PF09471 Peptidase_M64: IgA Pe 30.3 31 0.00067 31.3 1.7 16 177-192 213-228 (264)
112 cd03063 TRX_Fd_FDH_beta TRX-li 30.1 1.8E+02 0.0039 22.0 5.6 68 122-198 16-87 (92)
113 COG3824 Predicted Zn-dependent 28.4 30 0.00065 28.0 1.1 29 164-192 86-121 (136)
114 PF06861 BALF1: BALF1 protein; 27.7 40 0.00087 28.8 1.8 23 175-197 127-149 (182)
115 cd06159 S2P-M50_PDZ_Arch Uncha 27.6 40 0.00087 30.6 1.9 13 180-192 118-130 (263)
116 PF01457 Peptidase_M8: Leishma 27.2 57 0.0012 32.4 3.1 32 164-195 194-225 (521)
117 KOG3607 Meltrins, fertilins an 25.4 93 0.002 32.4 4.3 16 177-192 320-335 (716)
118 COG0308 PepN Aminopeptidase N 25.2 52 0.0011 34.8 2.5 20 178-197 305-324 (859)
119 COG1905 NuoE NADH:ubiquinone o 25.2 1.4E+02 0.0029 25.2 4.5 58 126-185 94-154 (160)
120 PF13402 M60-like: Peptidase M 25.1 2.7E+02 0.0059 25.0 7.0 32 164-195 199-234 (307)
121 cd06162 S2P-M50_PDZ_SREBP Ster 24.9 46 0.001 30.5 1.8 13 180-192 135-147 (277)
122 PRK05988 formate dehydrogenase 24.8 1.1E+02 0.0025 25.4 4.0 56 126-185 92-152 (156)
123 COG4823 AbiF Abortive infectio 23.9 49 0.0011 30.2 1.7 14 177-190 89-102 (299)
124 COG5504 Predicted Zn-dependent 23.3 1.7E+02 0.0036 26.7 4.9 19 175-193 135-153 (280)
125 cd04283 ZnMc_hatching_enzyme Z 23.0 44 0.00095 28.6 1.2 12 181-192 78-89 (182)
126 COG4307 Uncharacterized protei 22.9 67 0.0014 29.5 2.4 43 149-193 131-184 (349)
127 PF01400 Astacin: Astacin (Pep 22.6 59 0.0013 27.7 2.0 30 156-192 62-91 (191)
128 cd03081 TRX_Fd_NuoE_FDH_gamma 21.9 2.8E+02 0.006 20.0 5.2 34 152-185 45-78 (80)
129 PF06884 DUF1264: Protein of u 21.6 1.2E+02 0.0026 25.9 3.5 49 133-186 32-80 (171)
130 KOG3714 Meprin A metalloprotea 21.5 44 0.00095 32.2 1.0 31 156-193 141-172 (411)
131 cd04281 ZnMc_BMP1_TLD Zinc-dep 21.5 48 0.001 28.8 1.2 13 181-193 88-100 (200)
132 TIGR00054 RIP metalloprotease 21.5 48 0.001 31.9 1.3 11 182-192 16-26 (420)
133 cd06158 S2P-M50_like_1 Unchara 21.4 61 0.0013 27.5 1.8 13 180-192 9-21 (181)
134 cd03083 TRX_Fd_NuoE_hoxF TRX-l 21.2 2.5E+02 0.0055 20.2 4.9 34 153-186 46-79 (80)
135 PHA02456 zinc metallopeptidase 21.2 52 0.0011 26.2 1.2 26 164-193 67-92 (141)
136 PRK13267 archaemetzincin-like 20.5 77 0.0017 27.0 2.2 14 179-192 124-137 (179)
137 PF10462 Peptidase_M66: Peptid 20.2 58 0.0013 30.3 1.5 17 179-195 192-209 (305)
138 COG3930 Uncharacterized protei 20.2 1.9E+02 0.0042 27.7 4.9 47 142-190 210-256 (434)
No 1
>PRK04897 heat shock protein HtpX; Provisional
Probab=100.00 E-value=1.5e-32 Score=251.52 Aligned_cols=215 Identities=17% Similarity=0.240 Sum_probs=154.2
Q ss_pred cccccccc-eeceeeeEeeeeeeeecCCCccccccccchHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHcCcccccCC
Q 024810 41 FGSMKQSR-RMRLVPVCRAAASVVFRDLDADDFRHPLDKQNTLLLRAIPGLNDLGRALLGTVTEQIMLLENIGTSVLVSK 119 (262)
Q Consensus 41 ~~~~~~~~-~~~~~~~~~~~~~~~~~gl~~~~~~hp~d~~~~~~l~~ipgl~~l~~~~i~~~~~~~~~~~~~~~~v~v~~ 119 (262)
|.|+++|+ ||.+++ ..+...+.+.|...+.+..+ +......+.. ...++..++.+++...+.....+ ..+++|
T Consensus 3 ~~~~~~n~~~t~~ll-~~~~~~~~~~g~~~~~~~~~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-a~~v~~ 76 (298)
T PRK04897 3 YEQIASNKRKTVFLL-VVFFLLLALVGAAVGYLFLN-SGLGGLIIAL---IIGVIYALIMIFQSTNVVMSMNH-AREVTE 76 (298)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhcccc-cchhHHHHHH---HHHHHHHHHHHHhhHHHHHHhCC-CEECCh
Confidence 67899999 887555 44445555555432211111 1111111111 12234466777888888887775 568889
Q ss_pred CCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHH
Q 024810 120 NQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWL 199 (262)
Q Consensus 120 ~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~ 199 (262)
+|+|+|++.++++|++.|+|.|++|+++++.+|||++|.++.++.|+++++|++.+++||+++|+|||+||++++|..+.
T Consensus 77 ~~~p~L~~~v~~la~~~gip~p~v~v~~~~~~NAfa~G~~~~~~~v~vt~gLl~~l~~~El~aVlAHElgHi~~~d~~~~ 156 (298)
T PRK04897 77 EEAPELWHIVEDMAMVAQIPMPRVFIIDDPSPNAFATGSSPKNAAVAVTTGLLAIMNREELEGVIGHEISHIRNYDIRLS 156 (298)
T ss_pred hhhHHHHHHHHHHHHHcCCCCCcEEEecCCCCceEEeccCCCCcEEEeehHHHhhCCHHHHHHHHHHHHHHHhcCCHHHH
Confidence 99999999999999999999999999999999999999877788999999999999999999999999999999999887
Q ss_pred HHHHHHHHHH-----------Hhh-----------hh---H-HHHH------HHHHH--HHHHHHHHHHHHHHHHHHHHh
Q 024810 200 TFANILTLGA-----------YTI-----------PG---I-GGMI------AQSLE--EQLFRWLRAAELTCDRAALLV 245 (262)
Q Consensus 200 ~l~~~l~~la-----------~~~-----------p~---l-g~~l------~~~l~--~~l~~~sR~~E~~ADr~al~~ 245 (262)
++...+.... ++. +. + ..++ ..++. .....+||.+||+||++|+++
T Consensus 157 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~ll~~~~SR~rE~~AD~~A~~l 236 (298)
T PRK04897 157 TIAVALASAITLLSDIAGRMMWWGGGSRRRDDDRDGGGLQIILLIVSLLLLILAPLAATLIQLAISRQREYLADASSVEL 236 (298)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 7553321110 000 00 0 0000 01111 112467999999999999999
Q ss_pred cCCcHHHHHHhhcccC
Q 024810 246 SQDPKVYKTDILNPKN 261 (262)
Q Consensus 246 ~~~~~a~~~aL~K~~~ 261 (262)
++||+++++||.|+.+
T Consensus 237 t~~p~~La~AL~KL~~ 252 (298)
T PRK04897 237 TRNPQGLISALEKISN 252 (298)
T ss_pred hCCHHHHHHHHHHHHh
Confidence 9999999999999864
No 2
>PRK02391 heat shock protein HtpX; Provisional
Probab=99.97 E-value=2.4e-29 Score=230.13 Aligned_cols=165 Identities=29% Similarity=0.435 Sum_probs=130.6
Q ss_pred HHHHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhC
Q 024810 96 ALLGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELL 175 (262)
Q Consensus 96 ~~i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L 175 (262)
.++.+++...+....++. .+++|.++|++++.++++|++.|++.|++|+++++.+|||++|.++.++.|+++++|++.+
T Consensus 50 ~~~~~~~~~~~~~~~~~~-~~~~~~~~p~L~~~v~~la~~~~~~~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L 128 (296)
T PRK02391 50 LLAQYFFSDKLALWSMGA-RIVSEDEYPELHAMVERLCALADLPKPRVAVADSDVPNAFATGRSPKNAVVCVTTGLMRRL 128 (296)
T ss_pred HHHHHHHhHHHHHHHcCC-EECChhhCHHHHHHHHHHHHHcCCCCCcEEEEeCCCCceEEecCCCCCcEEEecHHHHhhC
Confidence 445566666666666654 5889999999999999999999999999999999999999999877788999999999999
Q ss_pred CHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh-------hh--------h-HHHH----HHH----HHH-HHHHHH
Q 024810 176 TRKELQAVLAHELGHLKCDHGVWLTFANILTLGAYT-------IP--------G-IGGM----IAQ----SLE-EQLFRW 230 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~la~~-------~p--------~-lg~~----l~~----~l~-~~l~~~ 230 (262)
|+||+++|+|||+||++++|....++..++..++.. .. . .+.+ +.. .+. .....+
T Consensus 129 ~~~El~aVlaHElgHi~~~di~~~~i~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 208 (296)
T PRK02391 129 DPDELEAVLAHELSHVKNRDVAVMTIASFLSTIAFLIVRWGFYFGGFGGRGGGGGGGGILVVILVSLVVWAISFLLIRAL 208 (296)
T ss_pred CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCcccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999988765443221110 00 0 0000 111 111 123467
Q ss_pred HHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 231 LRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 231 sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
||.+||+||++|+++++||+++++||.|+.+
T Consensus 209 SR~rE~~AD~~Aa~ltg~p~~LasAL~KL~~ 239 (296)
T PRK02391 209 SRYREFAADRGAAIITGRPSALASALMKISG 239 (296)
T ss_pred HHHHHHHHhHHHHHHhCCHHHHHHHHHHHHc
Confidence 9999999999999999999999999999874
No 3
>PRK03072 heat shock protein HtpX; Provisional
Probab=99.97 E-value=2.6e-29 Score=229.16 Aligned_cols=167 Identities=19% Similarity=0.271 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHh
Q 024810 94 GRALLGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVE 173 (262)
Q Consensus 94 ~~~~i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~ 173 (262)
+..++++++...+....++ ...++|.++|+|++.++++|++.|++.|++|+++++.+|||++|..++++.|+++++|++
T Consensus 42 ~~~~~~~~~s~~~~~~~~~-~~~v~~~~~p~L~~~v~~la~~~g~p~p~vyv~~~~~~NAFa~G~~~~~~~v~vt~gLl~ 120 (288)
T PRK03072 42 GMNAYVYWNSDKLALRAMH-AQPVSEVQAPAMYRIVRELSTAARQPMPRLYISPTAAPNAFATGRNPRNAAVCCTEGILQ 120 (288)
T ss_pred HHHHHHHHHhHHHHHHhcC-CEECChhhhHHHHHHHHHHHHHcCCCCCCEEEecCCCCceEEecCCCCCcEEEecHHHHH
Confidence 4455666777777776665 457899999999999999999999999999999999999999997666778999999999
Q ss_pred hCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHH----HH---Hhh-----------hh-HHHHHH----HHH-HHHHHH
Q 024810 174 LLTRKELQAVLAHELGHLKCDHGVWLTFANILTL----GA---YTI-----------PG-IGGMIA----QSL-EEQLFR 229 (262)
Q Consensus 174 ~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~----la---~~~-----------p~-lg~~l~----~~l-~~~l~~ 229 (262)
.+++||+++|+|||+||++++|..+.++...+.. +. .+. +. ++.++. ... ......
T Consensus 121 ~l~~~El~aVlAHElgHi~~~d~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 200 (288)
T PRK03072 121 ILNERELRGVLGHELSHVYNRDILISSVAGALASVITYLANMAMFAGMFGGRRDNDGPNPLALLLVSLLGPIAATVIQLA 200 (288)
T ss_pred hCCHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998876533221 10 000 00 111111 111 122356
Q ss_pred HHHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 230 WLRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 230 ~sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
+||.+|++||++|+++++||+++++||.|+.+
T Consensus 201 ~SR~rE~~AD~~A~~l~~~p~~La~AL~KL~~ 232 (288)
T PRK03072 201 ISRSREYQADESGAELTGDPLALASALRKISG 232 (288)
T ss_pred HHhHHHHHHhHHHHHHhCCHHHHHHHHHHHHh
Confidence 89999999999999999999999999999864
No 4
>PRK02870 heat shock protein HtpX; Provisional
Probab=99.97 E-value=4.4e-30 Score=238.02 Aligned_cols=223 Identities=23% Similarity=0.292 Sum_probs=152.0
Q ss_pred cccccccc-cccc-eeceeeeEeeeeeeeecCCCcc------ccccc-cchHHH--HHHHhcCCchH------HHHHHHH
Q 024810 37 GNFKFGSM-KQSR-RMRLVPVCRAAASVVFRDLDAD------DFRHP-LDKQNT--LLLRAIPGLND------LGRALLG 99 (262)
Q Consensus 37 ~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~gl~~~------~~~hp-~d~~~~--~~l~~ipgl~~------l~~~~i~ 99 (262)
|+-.|++. ++|+ ||.+++ +.+...+.+.|...+ .+.|+ +....+ ..++.+|.-.+ ++..+++
T Consensus 9 ~~~~~~~~i~~n~~kt~~l~-~~~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (336)
T PRK02870 9 GSVDWRKVIRRNRLKTRAVI-ATYLAIFLFIGLLVDAIRIASEYPAASLGKALLALLTFQIFPTATLIMSLVAVISILVT 87 (336)
T ss_pred ccccHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhcccccccccchhhhhhhhhccccchHHHHHHHHHHHHHHHH
Confidence 34445554 8888 888766 555577777775444 23342 212222 22344342111 1223345
Q ss_pred HHHHHHHHHHHcCcccccCCC-----CcHHHHHHHHHHHHHcCCC-CCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHh
Q 024810 100 TVTEQIMLLENIGTSVLVSKN-----QLPELHQLMTEAAEILNLE-APDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVE 173 (262)
Q Consensus 100 ~~~~~~~~~~~~~~~v~v~~~-----~~p~L~~~v~~l~~~lgi~-~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~ 173 (262)
+++...+.+..++.. .++|+ ++|+|++.++++|++.|+| .|++|+++++.+|||++|+++.++.|++++||++
T Consensus 88 y~~~~~~~l~~~~a~-~I~~~~~~p~~~~~L~~~ve~La~~ag~p~~p~V~vi~~~~~NAFA~G~~~~~~~Ivvt~GLL~ 166 (336)
T PRK02870 88 FQNFDKIMLSGTEYK-EITPENALSLQERQLYNVVEELLVAAGLRFMPKVYIIDAPYMNAFASGYSEKSAMVAITTGLLE 166 (336)
T ss_pred HHhhHHHHHHHcCCE-EcCCCCCCchhhHHHHHHHHHHHHHcCCCCCCeEEEEcCCCCceEEecCCCCCcEEEEehHHhh
Confidence 555556666665533 44554 4779999999999999999 8999999999999999998766789999999999
Q ss_pred hCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHH----HH----H-hhh-------h---HHHH----HHHHHH-HHHHH
Q 024810 174 LLTRKELQAVLAHELGHLKCDHGVWLTFANILTL----GA----Y-TIP-------G---IGGM----IAQSLE-EQLFR 229 (262)
Q Consensus 174 ~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~----la----~-~~p-------~---lg~~----l~~~l~-~~l~~ 229 (262)
.+++||+++|+|||+||++++|....+....+.. +. + .+. . ++.+ +...+. .....
T Consensus 167 ~L~~dEL~aVlAHELgHik~~di~~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~l~l~~~~~~~~~ll~~~ 246 (336)
T PRK02870 167 KLDRDELQAVMAHELSHIRHGDIRLTLCVGVLSNIMLIVADFLFYSFMGNRRNSGANRARMIILILRYVLPILTVLLMLF 246 (336)
T ss_pred hCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999987665432221 10 0 000 0 0111 111111 22346
Q ss_pred HHHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 230 WLRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 230 ~sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
+||.+||+||++|+++++||+++++||.|+.+
T Consensus 247 iSR~rEy~AD~~Aa~ltg~p~aLasAL~KL~~ 278 (336)
T PRK02870 247 LSRTREYMADAGAVELMRDNEPMARALQKISN 278 (336)
T ss_pred HHHHHHHHHhHHHHHHhCCHHHHHHHHHHHHh
Confidence 79999999999999999999999999999864
No 5
>PRK03001 M48 family peptidase; Provisional
Probab=99.97 E-value=3.4e-29 Score=227.82 Aligned_cols=163 Identities=22% Similarity=0.312 Sum_probs=125.9
Q ss_pred HHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCH
Q 024810 98 LGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTR 177 (262)
Q Consensus 98 i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~ 177 (262)
+.+++.........+. .++++.|.|+|++.++++|++.|++.|++|+++++.+|||++|.+++++.|+++++|++.+++
T Consensus 43 ~~~~~~~~~i~~~~~~-~~l~~~~~p~L~~~v~~la~~~g~~~p~v~v~~~~~~NAfa~G~~~~~~~Ivvt~gLl~~l~~ 121 (283)
T PRK03001 43 FSYWFSDKMVLKMYNA-QEVDENTAPQFYRMVRELAQRAGLPMPKVYLINEDQPNAFATGRNPEHAAVAATTGILRVLSE 121 (283)
T ss_pred HHHHHhHHHHHHHcCC-EECCccccHHHHHHHHHHHHHcCCCCCeEEEecCCCcceEEecCCCCCeEEEecHHHHhhCCH
Confidence 4444444445555554 578888999999999999999999999999999999999999976666789999999999999
Q ss_pred HHHHHHHHHHHHHHHccchHHHHHHHHHHH----HH---Hhh----------hhHHHHHH---HH--HHHHHHHHHHHHH
Q 024810 178 KELQAVLAHELGHLKCDHGVWLTFANILTL----GA---YTI----------PGIGGMIA---QS--LEEQLFRWLRAAE 235 (262)
Q Consensus 178 dEL~aVlaHElgHi~~~H~~~~~l~~~l~~----la---~~~----------p~lg~~l~---~~--l~~~l~~~sR~~E 235 (262)
||+++|+|||+||++++|....++...+.. +. .+. ...+.++. .. .......|||.+|
T Consensus 122 ~El~aVlAHElgHi~~~h~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SR~~E 201 (283)
T PRK03001 122 REIRGVMAHELAHVKHRDILISTISATMAGAISALANFAMFFGGRDENGRPVNPIAGIAVAILAPLAASLIQMAISRARE 201 (283)
T ss_pred HHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHhcCCCccccccchHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 999999999999999999998875432211 10 000 00111111 11 1122357899999
Q ss_pred HHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 236 LTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 236 ~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
++||++|+++++||+++++||.|+.+
T Consensus 202 ~~AD~~a~~l~~~p~~l~~AL~Kl~~ 227 (283)
T PRK03001 202 FEADRGGARISGDPQALASALDKIHR 227 (283)
T ss_pred HHHhHHHHHHhCCHHHHHHHHHHHHh
Confidence 99999999999999999999999864
No 6
>PRK01345 heat shock protein HtpX; Provisional
Probab=99.97 E-value=5.1e-29 Score=229.91 Aligned_cols=165 Identities=23% Similarity=0.312 Sum_probs=128.0
Q ss_pred HHHHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhC
Q 024810 96 ALLGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELL 175 (262)
Q Consensus 96 ~~i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L 175 (262)
.++.++....+....++ ...++|.+.|+|++.++++|++.|++.|++|+++++.+|||++|.+++++.|+++++|++.+
T Consensus 41 ~~~~~~~~~~~~~~~~~-a~~v~~~~~p~L~~~v~~La~~agi~~p~v~vid~~~~NAFa~G~~~~~~~V~vt~gLL~~L 119 (317)
T PRK01345 41 NLFSYWNSDKMVLRMYG-AQEVDERSAPELYRMVRDLARRAGLPMPKVYIIDNPQPNAFATGRNPENAAVAATTGLLQRL 119 (317)
T ss_pred HHHHHHHhHHHHHHHcC-CeECCcccCHHHHHHHHHHHHHcCCCCCcEEEEcCCCcceEEecCCCCCeEEEechHHHhhC
Confidence 34455555555555554 45788999999999999999999999999999999999999999766678999999999999
Q ss_pred CHHHHHHHHHHHHHHHHccchHHHHHHHHHHH----HHH---hh-----------hhHHHHH---HHHH--HHHHHHHHH
Q 024810 176 TRKELQAVLAHELGHLKCDHGVWLTFANILTL----GAY---TI-----------PGIGGMI---AQSL--EEQLFRWLR 232 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~----la~---~~-----------p~lg~~l---~~~l--~~~l~~~sR 232 (262)
++||+++|+|||+||++++|..+.++...+.. +.. ++ ..++.++ ...+ ......+||
T Consensus 120 ~~dEL~aVlAHElgHi~~~d~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~~~SR 199 (317)
T PRK01345 120 SPEEVAGVMAHELAHVKNRDTLTMTITATLAGAISMLANFAFFFGGNRENNNGPLGLVGTLAAMIVAPLAAMLVQMAISR 199 (317)
T ss_pred CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999988775433211 110 00 0111111 1111 112346899
Q ss_pred HHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 233 AAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 233 ~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
.+|++||++|+++++||++++++|.|+.+
T Consensus 200 ~rE~~AD~~A~~ltg~p~~L~~AL~KL~~ 228 (317)
T PRK01345 200 TREYAADRRGAEICGNPLWLASALGKIER 228 (317)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence 99999999999999999999999999874
No 7
>PRK03982 heat shock protein HtpX; Provisional
Probab=99.96 E-value=1.3e-28 Score=224.52 Aligned_cols=165 Identities=24% Similarity=0.346 Sum_probs=127.1
Q ss_pred HHHHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhC
Q 024810 96 ALLGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELL 175 (262)
Q Consensus 96 ~~i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L 175 (262)
.++.+++...+..... +..++++.++|++++.++++|++.|++.|++|+++++.+|||++|.+++++.|+++++|++.+
T Consensus 42 ~~~~~~~~~~i~~~~~-~~~~l~~~~~p~L~~~v~~la~~~g~~~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~l 120 (288)
T PRK03982 42 NLISYYYSDKIVLASY-NARIVSEEEAPELYRIVERLAERANIPKPKVAIVPTQTPNAFATGRDPKHAVVAVTEGILNLL 120 (288)
T ss_pred HHHHHHHhHHHHHHhc-CCEECChhhhHHHHHHHHHHHHHcCCCCCeEEEEeCCCcceEEeccCCCCeEEEeehHHHhhC
Confidence 3345555555555544 455778889999999999999999999999999999999999999876678899999999999
Q ss_pred CHHHHHHHHHHHHHHHHccchHHHHHHHHHHHH----HHh------hh-----------hHHHHHH----HHH-HHHHHH
Q 024810 176 TRKELQAVLAHELGHLKCDHGVWLTFANILTLG----AYT------IP-----------GIGGMIA----QSL-EEQLFR 229 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~l----a~~------~p-----------~lg~~l~----~~l-~~~l~~ 229 (262)
|+||+++|+|||+||++++|..+.++...+... ..+ .. .++.++. ... ......
T Consensus 121 ~~~El~AVlAHElgHi~~~h~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 200 (288)
T PRK03982 121 NEDELEGVIAHELTHIKNRDTLIQTIAATLAGAIMYLAQWLSWGLWFGGGGRDDRNGGNPIGSLLLIILAPIAATLIQFA 200 (288)
T ss_pred CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999887755432111 000 00 0111111 111 112346
Q ss_pred HHHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 230 WLRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 230 ~sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
+||.+|++||++|++++++|++++++|.|+.+
T Consensus 201 ~SR~~E~~AD~~A~~~~~~p~~l~~aL~kL~~ 232 (288)
T PRK03982 201 ISRQREFSADEGGARLTGNPLALANALQKLEK 232 (288)
T ss_pred HhHHHHHHHhHHHHHHhCCHHHHHHHHHHHHh
Confidence 79999999999999999999999999999864
No 8
>PRK01265 heat shock protein HtpX; Provisional
Probab=99.96 E-value=1.1e-27 Score=221.00 Aligned_cols=165 Identities=21% Similarity=0.298 Sum_probs=124.9
Q ss_pred HHHHHHHHHHHHHHHcCcccccCCCC--cHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHh
Q 024810 96 ALLGTVTEQIMLLENIGTSVLVSKNQ--LPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVE 173 (262)
Q Consensus 96 ~~i~~~~~~~~~~~~~~~~v~v~~~~--~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~ 173 (262)
.++.+++...+.....+ ..+++|.+ +|+|++.++++|++.|++.|++|+++++.+|||++|.+.+++.|+++++|++
T Consensus 55 ~~~~~~~sp~li~~~~~-a~~~~p~~~~~~~L~~~v~~la~~~g~~~p~vyv~~~~~~NAfa~G~~~~~~~Ivvt~gLl~ 133 (324)
T PRK01265 55 NIIQWLFGPYMINAAYR-TVEVTPTDPVYGWLYSIVAEVAKYNGIRVPKVYIADVPFPNAFAYGSPIAGKRIAITLPLLK 133 (324)
T ss_pred HHHHHHHhHHHHHHHcC-CeeCCCCCcccHHHHHHHHHHHHHcCCCCCeEEEecCCCCCeEEeccCCCCCEEEEehHHHh
Confidence 34555666666666554 23556655 8999999999999999999999999999999999997656689999999999
Q ss_pred hCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHHH----HH------hhh---------h----HHHHH---HHHH-HHH
Q 024810 174 LLTRKELQAVLAHELGHLKCDHGVWLTFANILTLG----AY------TIP---------G----IGGMI---AQSL-EEQ 226 (262)
Q Consensus 174 ~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~l----a~------~~p---------~----lg~~l---~~~l-~~~ 226 (262)
.+++||+++|+|||+||++++|....+++..+..+ .. +.. + +..++ ...+ ...
T Consensus 134 ~l~~~El~aVlAHElgHik~~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~~ll~~~~~~i~~~l 213 (324)
T PRK01265 134 ILNRDEIKAVAGHELGHLKHRDVELLMAIGLIPTLIYYLGYSLFWGGMFGGGGGGRGNNGGLLFLIGIALMAVSFVFNLL 213 (324)
T ss_pred hCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCCCccchHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999887754332211 00 000 0 00001 1111 123
Q ss_pred HHHHHHHHHHHHHHHHHH-hcCCcHHHHHHhhcccC
Q 024810 227 LFRWLRAAELTCDRAALL-VSQDPKVYKTDILNPKN 261 (262)
Q Consensus 227 l~~~sR~~E~~ADr~al~-~~~~~~a~~~aL~K~~~ 261 (262)
...+||.+||+||++|++ .+++|+++++||.|+.+
T Consensus 214 ~~aiSR~rEy~AD~~aa~~~tg~p~~LasAL~KL~~ 249 (324)
T PRK01265 214 VLSINRMREAYADVNSALTVPGGAENLQTALAKITL 249 (324)
T ss_pred HHHHHHHHHHHHhHHHHHhhcCChHHHHHHHHHHHh
Confidence 345699999999999998 56999999999999864
No 9
>PRK05457 heat shock protein HtpX; Provisional
Probab=99.96 E-value=3.6e-27 Score=214.62 Aligned_cols=199 Identities=19% Similarity=0.276 Sum_probs=138.8
Q ss_pred eeeEeeeeeeeecCCCccccccccchHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHcCcccccC-CCC--cHHHHHHH
Q 024810 53 VPVCRAAASVVFRDLDADDFRHPLDKQNTLLLRAIPGLNDLGRALLGTVTEQIMLLENIGTSVLVS-KNQ--LPELHQLM 129 (262)
Q Consensus 53 ~~~~~~~~~~~~~gl~~~~~~hp~d~~~~~~l~~ipgl~~l~~~~i~~~~~~~~~~~~~~~~v~v~-~~~--~p~L~~~v 129 (262)
+++..+++...+.|+.. + .+......+..+ ..++..++++++...+....++.. .++ |.+ .|.+++.+
T Consensus 13 ~~~~~~~~~~~~~~~~~--~---~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~~~~~~a~-~i~~~~~~~~~~L~~~v 83 (284)
T PRK05457 13 AVMLVLGIVLSLLGVQS--Y---LNLGGLLVFAAV---FGFGGSFISLLMSKWMAKRSTGAE-VIEQPRNETERWLVETV 83 (284)
T ss_pred HHHHHHHHHHHHHHHHH--H---hhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHhcCCe-ECCCCCCchHHHHHHHH
Confidence 44455555555556533 2 122222222222 224556777777777777766544 443 433 34599999
Q ss_pred HHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHHHHHHHH-HHH
Q 024810 130 TEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWLTFANIL-TLG 208 (262)
Q Consensus 130 ~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l-~~l 208 (262)
+++|++.|+|.|++|+++++.+|||++|.++++..|++++||++.+|+||+++|+|||+||++++|....+++..+ ...
T Consensus 84 ~~la~~~g~p~p~v~v~~~~~~NAfa~G~~~~~~~V~vt~gLl~~L~~~El~aVlAHElgHi~~~d~~~~~l~~~~~~~~ 163 (284)
T PRK05457 84 ARQARQAGIGMPEVAIYHSPEINAFATGASKNNSLVAVSTGLLQNMSRDEVEAVLAHEISHIANGDMVTMTLIQGVVNTF 163 (284)
T ss_pred HHHHHhCCCCCCCEEEEeCCCceEEEecCCCCCeEEEeehHHhhhCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999877788899999999999999999999999999999999876543211 110
Q ss_pred --------HHhh----------hhHHH----HH----HHHHH-HHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 209 --------AYTI----------PGIGG----MI----AQSLE-EQLFRWLRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 209 --------a~~~----------p~lg~----~l----~~~l~-~~l~~~sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
..+. ++++. ++ ...+. .....+||.+||+||++|+++++ |+++++||.|+.+
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ll~~~~SR~rEy~AD~~Aa~ltg-p~~L~~AL~KL~~ 242 (284)
T PRK05457 164 VIFLSRIIAQIVDRFVSGNEEGNGIGYFIVSIVLEIVFGILASIIVMWFSRHREFRADAGGAKLAG-REKMIAALQRLKT 242 (284)
T ss_pred HHHHHHHHHHHHHhhcccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhC-HHHHHHHHHHHHh
Confidence 0000 11111 11 11111 12345699999999999999997 9999999999874
No 10
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=5.7e-24 Score=193.18 Aligned_cols=170 Identities=26% Similarity=0.363 Sum_probs=123.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHcCcccccCCCC--cHH----HHHHHHHHHHHcCCC-CCcEEEEeCCCCcEEEEeccCCC
Q 024810 90 LNDLGRALLGTVTEQIMLLENIGTSVLVSKNQ--LPE----LHQLMTEAAEILNLE-APDLYVRQSPVPNAYTLAISGKK 162 (262)
Q Consensus 90 l~~l~~~~i~~~~~~~~~~~~~~~~v~v~~~~--~p~----L~~~v~~l~~~lgi~-~p~vyv~~~~~~NAfa~G~~~~~ 162 (262)
+..+...+++++..+.+.....+.. .+.+.. .+. +...+.+++...+++ .|++++++++.+|||++|.++++
T Consensus 61 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~~~~~v~i~~~~~~NAFa~g~~~~~ 139 (302)
T COG0501 61 LLAFAALLISLLFSKALVLKSLGAL-TLSEPILLAPRLYAVLLLKVAELARQAGIPHMPEVYILETPQPNAFALGGGPKN 139 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcee-ecccccccchHHHHHHHHHHHHHHHHCCCCCCCeeEEecCCCccceecCCCCCC
Confidence 3334556677777777777776652 222221 343 445899999999999 89999999999999999965567
Q ss_pred cEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHHH-HHHHHHHHH----Hhhhh---------HHHHH----H-HHH
Q 024810 163 PFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWLT-FANILTLGA----YTIPG---------IGGMI----A-QSL 223 (262)
Q Consensus 163 ~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~-l~~~l~~la----~~~p~---------lg~~l----~-~~l 223 (262)
+.|++++||++.+|+||+++|||||+||++++|...+. +...+.... ....+ ....+ . ...
T Consensus 140 ~~V~vt~gLl~~l~~dEl~aVlaHElgHi~~rd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (302)
T COG0501 140 GRVVVTTGLLDLLNDDELEAVLAHELGHIKNRHTLVRLTLRGLLASAFVLLATLALAAGLLGEAALALLLLLLLLALFLA 219 (302)
T ss_pred eeEEecHHHHhhCCHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999733 222211110 00100 00011 1 111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHhhcccC
Q 024810 224 EEQLFRWLRAAELTCDRAALLVSQDPKVYKTDILNPKN 261 (262)
Q Consensus 224 ~~~l~~~sR~~E~~ADr~al~~~~~~~a~~~aL~K~~~ 261 (262)
......|||.+|++||+.|+++++ ++.++++|.|+..
T Consensus 220 ~~~~~~~SR~~E~~AD~~a~~l~~-~~~l~~aL~kl~~ 256 (302)
T COG0501 220 TLLVLAFSRKREYEADRFAAKLTG-PEKLASALQKLAR 256 (302)
T ss_pred HHHHHHHHHHhHHhhhhchhhccC-hHHHHHHHHHHHh
Confidence 234578899999999999999999 9999999999864
No 11
>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=99.89 E-value=1.1e-23 Score=183.17 Aligned_cols=142 Identities=30% Similarity=0.422 Sum_probs=90.6
Q ss_pred CCCCcHHHHHHHHHHHHHc--CCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccc
Q 024810 118 SKNQLPELHQLMTEAAEIL--NLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDH 195 (262)
Q Consensus 118 ~~~~~p~L~~~v~~l~~~l--gi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H 195 (262)
.|.++++|++.++++|+++ +.+.|++|+++++.+|||++|.+. ++.|+|+++|++.+++||+++|||||+||++++|
T Consensus 26 ~~~~~~~L~~~v~~l~~~~~~~~~~~~v~v~~~~~~NA~~~g~~~-~~~I~v~~~ll~~~~~~el~aVlaHElgH~~~~h 104 (226)
T PF01435_consen 26 TPLEDPELRRIVEELARRAGLGIPPPRVYVIDSPSPNAFATGGGP-RKRIVVTSGLLESLSEDELAAVLAHELGHIKHRH 104 (226)
T ss_dssp -B-HHHHHHHHHHHHHHHHHCTSS--EEEEE--SSEEEEEETTTC---EEEEEHHHHHHSSHHHHHHHHHHHHHHHHTTH
T ss_pred cchHHHHHHHHHHHHHHHhcCCCCCCeEEEEcCCCCcEEEEccCC-CcEEEEeChhhhcccHHHHHHHHHHHHHHHHcCC
Confidence 3788999999999999999 777889999999999999999643 6899999999999999999999999999999999
Q ss_pred hHHHHHHHHH----HHHHH-hh---hh---HHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHhh
Q 024810 196 GVWLTFANIL----TLGAY-TI---PG---IGGM-------IAQSLEEQLFRWLRAAELTCDRAALLVSQDPKVYKTDIL 257 (262)
Q Consensus 196 ~~~~~l~~~l----~~la~-~~---p~---lg~~-------l~~~l~~~l~~~sR~~E~~ADr~al~~~~~~~a~~~aL~ 257 (262)
..+.+....+ ..... .. .. .... +..........|+|.+|++||++|++++++++.+++++.
T Consensus 105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sr~~E~~AD~~a~~~~~~~~~l~~a~~ 184 (226)
T PF01435_consen 105 ILKSLLISLLLSILFFALLALLIGSMSLFSAFGFIDILGILIAFLFQLLTNAFSRRQEYEADRYAARLGGDPALLARALY 184 (226)
T ss_dssp CCCCCCHHH-HHHHHHHHHT-----HHHHHHHH----------HHSTT------HHHHHHHHHHHHHH------HHHTTS
T ss_pred cchHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhcccchhhHHHHHHHhhcchhHHHHHHHHHHHHHhcCCcHHHHHhCC
Confidence 8755322111 11100 00 00 0000 001112244678999999999999999999988777777
Q ss_pred ccc
Q 024810 258 NPK 260 (262)
Q Consensus 258 K~~ 260 (262)
|+.
T Consensus 185 ~~~ 187 (226)
T PF01435_consen 185 KPA 187 (226)
T ss_dssp -TT
T ss_pred CHH
Confidence 664
No 12
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=99.78 E-value=5.7e-18 Score=154.72 Aligned_cols=133 Identities=29% Similarity=0.399 Sum_probs=112.5
Q ss_pred CCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchH
Q 024810 118 SKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 118 ~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
.+..++++.+.+++++++.|++.+......+....++++|+ .+|.|+++.++.+.++++|++.|+.||++|++++|..
T Consensus 136 ~~~~~~~~~~~l~~~~~~~~~~~~~~i~~s~~i~sP~~~G~--~~p~I~lP~~~~~~~~~~el~~il~HEl~Hikr~D~~ 213 (299)
T PF05569_consen 136 RPVEDEELQALLEECKEELGIKRPIRIRVSSGISSPFVFGF--LRPVIVLPESLLEDLSEEELRAILLHELAHIKRRDLL 213 (299)
T ss_pred cccCcHHHHHHHHHHHHHhCCCCceEEEEcCCCCCCeeecC--cceEEEecCccccccCHHHHHHHHHHHHHHHHCCChH
Confidence 44567788999999999999886533344555668899997 6899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCCcHHHHHHhhccc
Q 024810 198 WLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRAALLV--SQDPKVYKTDILNPK 260 (262)
Q Consensus 198 ~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~--~~~~~a~~~aL~K~~ 260 (262)
++.+..++..+.|+.|.++. ......+.+|+.||+.++.. ..+...++++|+++.
T Consensus 214 ~~~l~~l~~~l~WfnP~~~~--------~~~~~~~~~E~~cD~~vl~~l~~~~~~~Y~~~Ll~~~ 270 (299)
T PF05569_consen 214 WKLLAELLCALHWFNPLVWL--------LRRRIRRDRELACDEAVLRNLGKEERKAYAETLLKVA 270 (299)
T ss_pred HHHHHHHHHHHHHhhHHHHH--------HHHHHHHHHHHhhhHHHHHhcCchhHHHHHHHHHHHH
Confidence 99999988888898887654 23456788999999999999 467788999998864
No 13
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=99.74 E-value=1.7e-16 Score=149.50 Aligned_cols=143 Identities=25% Similarity=0.223 Sum_probs=106.7
Q ss_pred ccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEe----CCCCcEEEEeccCCCcEEEECHHHH--hh-CCHHHHHHHHHHHH
Q 024810 116 LVSKNQLPELHQLMTEAAEILNLEAPDLYVRQ----SPVPNAYTLAISGKKPFVVVHTSLV--EL-LTRKELQAVLAHEL 188 (262)
Q Consensus 116 ~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~----~~~~NAfa~G~~~~~~~Ivi~~~Ll--~~-L~~dEL~aVlaHEl 188 (262)
+.+|.++.++.+.++++++..|+|..++++++ +...|||.+|++ ...+|+|.+.|+ +. +++||+.||+|||+
T Consensus 210 K~~PLe~g~l~~~Ie~la~s~gfp~~k~~vi~~s~rs~hsNAyfyG~~-~~KRIvIyDtLl~~~~~~~~eel~AVl~HEL 288 (428)
T KOG2719|consen 210 KFTPLEEGDLKEKIERLADSVGFPLSKYRVIDGSKRSSHSNAYFYGLC-KNKRIVIYDTLLLEEEHLNNEELVAVLAHEL 288 (428)
T ss_pred CCCCCCCCchHHHHHHHHHhcCCCceEEEEEecCCCCCCCCeeeeecc-ccceEEEehhhhhhhhccccHHHHHHHHHHh
Confidence 34667777999999999999999998899987 357999999974 567999999999 44 48999999999999
Q ss_pred HHHHccchHHHHHHHHHHH---------HHH---------h---hhh-HHHH-HHHH-------HH-HHHHHHHHHHHHH
Q 024810 189 GHLKCDHGVWLTFANILTL---------GAY---------T---IPG-IGGM-IAQS-------LE-EQLFRWLRAAELT 237 (262)
Q Consensus 189 gHi~~~H~~~~~l~~~l~~---------la~---------~---~p~-lg~~-l~~~-------l~-~~l~~~sR~~E~~ 237 (262)
||++++|..++++...+.. ... + .|. +|.+ +... +. ..+.-.||..|++
T Consensus 289 GHW~~~H~~K~~ii~~~~l~l~~llF~~~~~~~~ly~a~Gf~~~~P~~ig~livf~~~l~py~~l~~~~~n~~sR~fEyq 368 (428)
T KOG2719|consen 289 GHWKLNHVLKNIIIMQIHLFLEFLLFGFLYRNPKLYAAFGFIDEQPSLIGFLIVFQFVLAPYRALLNFLMNLISRRFEYQ 368 (428)
T ss_pred hHHHHhhHHHHHHHHHHHHHHHHHHHHHHHcCcchheeecCCCCCcchhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 9999999999886532211 000 0 122 2322 1111 11 1223448999999
Q ss_pred HHHHHHHhcCCcHHHHHHhhccc
Q 024810 238 CDRAALLVSQDPKVYKTDILNPK 260 (262)
Q Consensus 238 ADr~al~~~~~~~a~~~aL~K~~ 260 (262)
||++|.+.. -.+.+.+||.|+-
T Consensus 369 AD~fA~klG-Yg~~L~~AL~KL~ 390 (428)
T KOG2719|consen 369 ADAFAKKLG-YGKDLRQALIKLF 390 (428)
T ss_pred HHHHHHHcC-CchhHHHHHHHHh
Confidence 999999985 4566999999973
No 14
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=99.69 E-value=4.3e-16 Score=147.91 Aligned_cols=167 Identities=23% Similarity=0.315 Sum_probs=111.7
Q ss_pred cCCchHHHHHHHHHHHHHHHH----HHHcCcccccCCCCcHHHHHHHHHHHH----HcCCC-CC-cEEEEeCCCCcEEEE
Q 024810 87 IPGLNDLGRALLGTVTEQIML----LENIGTSVLVSKNQLPELHQLMTEAAE----ILNLE-AP-DLYVRQSPVPNAYTL 156 (262)
Q Consensus 87 ipgl~~l~~~~i~~~~~~~~~----~~~~~~~v~v~~~~~p~L~~~v~~l~~----~lgi~-~p-~vyv~~~~~~NAfa~ 156 (262)
+|++....+..++.-.+..+. .+..+. +....+|+|.+.++++.. ..|.+ .| ++++++++..|||++
T Consensus 33 lp~ig~~~~s~ls~~qev~~g~~~~~Qlr~~---~~~i~D~el~~yv~~~g~rL~~~a~~~~~~f~f~lV~d~~iNAFA~ 109 (484)
T COG4783 33 LPDIGVSAGSTLSPAQEVALGDPANAQLRGS---VPLIRDPELEEYVNSLGQRLAAAADLVKTPFTFFLVNDDSINAFAT 109 (484)
T ss_pred cchhhhhhhhcCCHHHHHHhhHHHHHHhccC---CCCcCCHHHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCccchhhc
Confidence 455555555555555443333 333332 344678888888877554 45555 34 788999999999998
Q ss_pred eccCCCcEEEECHHHHhhC-CHHHHHHHHHHHHHHHHccchHHHHH----------HHHH-HHHHHhh-h--hHHHHHH-
Q 024810 157 AISGKKPFVVVHTSLVELL-TRKELQAVLAHELGHLKCDHGVWLTF----------ANIL-TLGAYTI-P--GIGGMIA- 220 (262)
Q Consensus 157 G~~~~~~~Ivi~~~Ll~~L-~~dEL~aVlaHElgHi~~~H~~~~~l----------~~~l-~~la~~~-p--~lg~~l~- 220 (262)
. | .+|+|++||+-.. ||+||++|||||+||+..+|..+.+= +.++ ..++... + +...+..
T Consensus 110 ~--G--g~v~vntGLll~ae~esElagViAHEigHv~qrH~aR~~e~~~r~~~~~i~~ml~gi~aa~a~~~ag~a~iag~ 185 (484)
T COG4783 110 P--G--GYVVVNTGLLLTAENESELAGVIAHEIGHVAQRHLARSMEQQQRAAPMAIAGMLLGILAALAGADAGMAGIAGA 185 (484)
T ss_pred C--C--ceEEEehHHHHhcCCHHHHHHHHHHHHHHHhhhhHHHHHHHHhhhchhHHHHHHHHHHHHHhCccccHHHHHHH
Confidence 2 2 3899999999876 79999999999999999999987541 1111 1111111 1 1111110
Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHhc----CCcHHHHHHhhccc
Q 024810 221 -QSLEEQLFRWLRAAELTCDRAALLVS----QDPKVYKTDILNPK 260 (262)
Q Consensus 221 -~~l~~~l~~~sR~~E~~ADr~al~~~----~~~~a~~~aL~K~~ 260 (262)
.....-...|||..|.+|||.|+... .||.+|.+.+.|+.
T Consensus 186 ~a~~~~g~L~~sR~~E~eADr~Gi~~L~raGydp~gM~~ff~rl~ 230 (484)
T COG4783 186 LAGAAQGQLNFSRQNEQEADRIGITTLVRAGYDPQGMPEFFERLA 230 (484)
T ss_pred HHHhhhhhhhcchhhHHHHHHHHHHHHHHcCCCchhHHHHHHHHH
Confidence 11122345799999999999999875 79999999999875
No 15
>COG4219 MecR1 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]
Probab=99.62 E-value=1e-14 Score=132.65 Aligned_cols=161 Identities=19% Similarity=0.194 Sum_probs=118.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHcCcccccCCCCcHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECH
Q 024810 90 LNDLGRALLGTVTEQIMLLENIGTSVLVSKNQLPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHT 169 (262)
Q Consensus 90 l~~l~~~~i~~~~~~~~~~~~~~~~v~v~~~~~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~ 169 (262)
+.|+++.++..++....+.........--+...-+..+.++++.++...+.+.+ -.++..-++.++|. .+|.|++++
T Consensus 103 ~lWi~g~li~~~~~~~~~~~~~~r~~~sl~~~e~d~~~~~~~~~~~~~~k~i~i-r~s~~i~~P~v~gl--~kp~IvlP~ 179 (337)
T COG4219 103 LLWIVGALIGLFYFIVARLARFVRKLGSLEPNEVDKRKIVTILKNHQYKKHILI-RKSKAIDGPMVFGL--VKPCIVLPA 179 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccccHHHHHHHHHHhhhccCeeE-eecccCCCceeecc--CcceEEccH
Confidence 678888888877755544444332222122233456788888888877666422 23445667788886 689999999
Q ss_pred HHHhhCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--C
Q 024810 170 SLVELLTRKELQAVLAHELGHLKCDHGVWLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRAALLVS--Q 247 (262)
Q Consensus 170 ~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~~--~ 247 (262)
.+.+.++++|++.|++||++|+++||...+.+...+..+.|+.|.+-. ...+...++|.+||+.++... .
T Consensus 180 d~~~r~~~ee~~yIilHEl~Hlk~gD~i~n~i~~~~~~l~WfNP~v~l--------~~~~~~~D~E~aCDa~vL~~~~~~ 251 (337)
T COG4219 180 DFVERLTDEELKYIILHELSHLKRGDAIINLIVVVLGVLFWFNPLVHL--------GKRKIRIDQEIACDAAVLARINPE 251 (337)
T ss_pred HHHhhcCHHhhhhhHhHHHhhhhcccHHHHHHHHHHhHHhhcChHHHH--------HHHHHHhhHHHHhhHHHHhccChH
Confidence 999999999999999999999999999999998888888888886421 223445689999999999876 2
Q ss_pred CcHHHHHHhhcccC
Q 024810 248 DPKVYKTDILNPKN 261 (262)
Q Consensus 248 ~~~a~~~aL~K~~~ 261 (262)
....++++++|+..
T Consensus 252 err~YaEsil~~l~ 265 (337)
T COG4219 252 ERRTYAESILKLLL 265 (337)
T ss_pred HHHHHHHHHHHHHh
Confidence 44568888888653
No 16
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=99.51 E-value=1.3e-13 Score=126.19 Aligned_cols=139 Identities=24% Similarity=0.350 Sum_probs=98.4
Q ss_pred CCCcHHHHHHHHHHHHHcCCC--CC----cEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhC-CHHHHHHHHHHHHHHH
Q 024810 119 KNQLPELHQLMTEAAEILNLE--AP----DLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELL-TRKELQAVLAHELGHL 191 (262)
Q Consensus 119 ~~~~p~L~~~v~~l~~~lgi~--~p----~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L-~~dEL~aVlaHElgHi 191 (262)
+-.+|.+.+++.++..++-.. .| ++-|+++|..|||+.+ | .+++|+.||+..+ |+.|+++||+||+||+
T Consensus 60 eY~D~Kler~Vari~g~lt~~S~~p~q~YriTilnSP~INAFALP--G--GYlYitRGLlAland~sEvAAVl~HEmgHV 135 (479)
T COG4784 60 EYRDPKLERMVARIVGALTAVSENPQQTYRITILNSPNINAFALP--G--GYLYITRGLLALANDSSEVAAVLAHEMGHV 135 (479)
T ss_pred ccCCHHHHHHHHHHHhHhhhhccCCCceEEEEEecCCCccccccC--C--ceEEEehhHHHHcCCHHHHHHHHHhhhhhe
Confidence 456788888888887765432 23 6778999999999974 2 4999999999987 5689999999999999
Q ss_pred HccchHHHHHHH----HHHHHHHhhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCcHHHHHHhhccc
Q 024810 192 KCDHGVWLTFAN----ILTLGAYTIPG---IGGMIAQSLEEQLFRWLRAAELTCDRAALLVS----QDPKVYKTDILNPK 260 (262)
Q Consensus 192 ~~~H~~~~~l~~----~l~~la~~~p~---lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~~----~~~~a~~~aL~K~~ 260 (262)
..+|.....-.. +.........+ -|.....--...+..|+|.+|++||..|++.. .||.++++.|..++
T Consensus 136 tAnHgi~rQ~~e~a~~ia~rvva~vl~~~~agk~A~~rGklrla~fsRnqELqAD~iG~~~lgeAGYDP~A~~rfl~sm~ 215 (479)
T COG4784 136 TANHGIQRQQREAAEVIASRVVAEVLGSDAAGKQALIRGKLRLAQFSRNQELQADAIGIKMLGEAGYDPYAAARFLQSMA 215 (479)
T ss_pred ecchhHHHHHHHHHHHHHHHHHHHHhCCcchhhHHHhhhhHHHhhhccchhhhhhhhhHHHHHhcCCChHHHHHHHHHHH
Confidence 999998655211 11111111101 11111100113466899999999999999886 49999999987776
Q ss_pred C
Q 024810 261 N 261 (262)
Q Consensus 261 ~ 261 (262)
+
T Consensus 216 a 216 (479)
T COG4784 216 A 216 (479)
T ss_pred h
Confidence 4
No 17
>KOG2661 consensus Peptidase family M48 [Posttranslational modification, protein turnover, chaperones]
Probab=99.48 E-value=3.9e-13 Score=122.56 Aligned_cols=138 Identities=25% Similarity=0.291 Sum_probs=93.4
Q ss_pred CCCCcH---HHHHHHHHHHHHcC----CC--CCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhC-CHHHHHHHHHHH
Q 024810 118 SKNQLP---ELHQLMTEAAEILN----LE--APDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELL-TRKELQAVLAHE 187 (262)
Q Consensus 118 ~~~~~p---~L~~~v~~l~~~lg----i~--~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L-~~dEL~aVlaHE 187 (262)
-|.+.| .+.+.+.++.+..+ +. .-++.|+++|.+|||+.+ + ..|+|.+|++..+ ++||+++|||||
T Consensus 207 Lp~~hp~sl~V~~vlk~iIea~~~~~slsgIkWeihVVndPipNAFvLP--g--GKvfVFtgiLn~ck~ddglAtvLgHE 282 (424)
T KOG2661|consen 207 LPEKHPRSLAVKEVLKHIIEANKDVPSLSGIKWEIHVVNDPIPNAFVLP--G--GKVFVFTGILNSCKDDDGLATVLGHE 282 (424)
T ss_pred CCcCCchhhHHHHHHHHHHHHhccCCcccCceeEEEEecCCCCceeecc--C--CeEEEEechhhcccChHHHHHHHHHH
Confidence 345555 35566666655554 32 237899999999999984 2 3699999999887 789999999999
Q ss_pred HHHHHccchHHHHH----HHHHHHHHHhhhhHHHHHHH-HHH--HHHHHHHHHHHHHHHHHHHHh----cCCcHHHHHHh
Q 024810 188 LGHLKCDHGVWLTF----ANILTLGAYTIPGIGGMIAQ-SLE--EQLFRWLRAAELTCDRAALLV----SQDPKVYKTDI 256 (262)
Q Consensus 188 lgHi~~~H~~~~~l----~~~l~~la~~~p~lg~~l~~-~l~--~~l~~~sR~~E~~ADr~al~~----~~~~~a~~~aL 256 (262)
+||...||..-+.. ..++....+.+- +..... .+. ...+.+||++|.+||.+|+.+ |-||.+.....
T Consensus 283 ~aHaVarH~AEki~k~~~~siLgLvlyt~~--~a~~~n~~Ll~~flrlPfSRKMEtEADyIGLlLma~Acfdpras~tvw 360 (424)
T KOG2661|consen 283 IAHAVARHAAEKIGKVHLLSILGLVLYTMI--WAICPNDKLLEYFLRLPFSRKMETEADYIGLLLMAKACFDPRASSTVW 360 (424)
T ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHHHHH--hhccchHHHHHHHhcCcchhhhhhhhhHHHHHHHHHhhcCcccchHHH
Confidence 99999999976542 222222222211 111111 111 123468999999999999976 46888887777
Q ss_pred hcccC
Q 024810 257 LNPKN 261 (262)
Q Consensus 257 ~K~~~ 261 (262)
.|+.+
T Consensus 361 ErM~~ 365 (424)
T KOG2661|consen 361 ERMEF 365 (424)
T ss_pred HHHHH
Confidence 76643
No 18
>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=97.89 E-value=0.00012 Score=56.56 Aligned_cols=70 Identities=19% Similarity=0.249 Sum_probs=44.1
Q ss_pred CcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024810 162 KPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRA 241 (262)
Q Consensus 162 ~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~ 241 (262)
.+.|+|++. +++.+..++++||+||+..+|....... . .-.......|++||++
T Consensus 28 ~~~I~in~~----~~~~~~~f~laHELgH~~~~~~~~~~~~--------~--------------~~~~~~~~~E~~An~f 81 (122)
T PF06114_consen 28 NPIIFINSN----LSPERQRFTLAHELGHILLHHGDETFNY--------Y--------------LNYFFNERQEREANAF 81 (122)
T ss_dssp TTEEEEESS----S-HHHHHHHHHHHHHHHHHHH-HHHHHH--------H--------------HHH--THHHHHHHHHH
T ss_pred CCEEEECCC----CCHHHHHHHHHHHHHHHHhhhccccchh--------h--------------ccccchhhHHHHHHHH
Confidence 789999987 6899999999999999998877654300 0 0011234567777777
Q ss_pred HHHhcCCcHHHHHHhh
Q 024810 242 ALLVSQDPKVYKTDIL 257 (262)
Q Consensus 242 al~~~~~~~a~~~aL~ 257 (262)
|..++=..+.....+.
T Consensus 82 A~~lL~p~~~~~~~~~ 97 (122)
T PF06114_consen 82 AAALLMPEEDFRDALE 97 (122)
T ss_dssp HHHHHS-HHHHHHHHH
T ss_pred HHHHhCCHHHHHHHHH
Confidence 7766644444444433
No 19
>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=97.36 E-value=0.0015 Score=60.01 Aligned_cols=106 Identities=17% Similarity=0.097 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHcCCC--CCcEEEEeCC----------CCcEEEEeccCCCcEEEECHHHHhhCC-------HHHHHHHHH
Q 024810 125 LHQLMTEAAEILNLE--APDLYVRQSP----------VPNAYTLAISGKKPFVVVHTSLVELLT-------RKELQAVLA 185 (262)
Q Consensus 125 L~~~v~~l~~~lgi~--~p~vyv~~~~----------~~NAfa~G~~~~~~~Ivi~~~Ll~~L~-------~dEL~aVla 185 (262)
+.+...+..++.|.+ .|++.++++. ..|||-+ +....|++...+++.|. +--..+|||
T Consensus 99 le~~W~~~~~~~g~~y~~P~lv~~~~~~~t~CG~a~s~~gpFYC---p~D~tIYlD~~f~~~L~~~~ga~G~~a~ayVlA 175 (292)
T PF04228_consen 99 LEDVWTPQFPQAGLPYRPPKLVLFSGSVQTGCGTASSATGPFYC---PADQTIYLDLSFFDELQQRFGASGDFAQAYVLA 175 (292)
T ss_pred HHHHHHHHHHHcCCCCCCCEEEEeCCCCCCCCCCCcCCCCCEeC---CCCCEEEechHHHHHHHHHhCCccHHHHHHHHH
Confidence 344555556667776 5777776432 2345543 34568999988776543 224678999
Q ss_pred HHHHHHHccchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024810 186 HELGHLKCDHGVWLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRAALLVS 246 (262)
Q Consensus 186 HElgHi~~~H~~~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~~ 246 (262)
||.||..++..= ++-. ....-.-... ..-...+|..|+.||-+|=..+
T Consensus 176 HEyGHHVQ~l~G--il~~-~~~~~~~~~~----------~~~~~~svr~ELQADC~AGvw~ 223 (292)
T PF04228_consen 176 HEYGHHVQNLLG--ILDA-VRQAQQGRSP----------AEANELSVRLELQADCFAGVWA 223 (292)
T ss_pred HHHHHHHHHHhh--hHHH-HHHHhhccCc----------cccchHHHHHHHHHHHHHHHHh
Confidence 999998753321 1100 0000000000 0112557889999999876654
No 20
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=97.13 E-value=0.0015 Score=56.15 Aligned_cols=69 Identities=22% Similarity=0.291 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchH
Q 024810 124 ELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 124 ~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
.+...+...++.+|++.+.+.+.+...- +|-+..+..|.++..|+ .++++-+++|+.|||+|+.+.+.-
T Consensus 113 ~l~~~~~~~~~~~~~~~~~i~ir~~ksr----WGsc~~~~~I~ln~~L~-~~P~~~idYVvvHEL~Hl~~~nHs 181 (205)
T PF01863_consen 113 YLPERLKKYAKKLGLPPPKIKIRDMKSR----WGSCSSKGNITLNWRLV-MAPPEVIDYVVVHELCHLRHPNHS 181 (205)
T ss_pred HHHHHHHHHHHHcCCCcceEEEeehhhc----cccCCCCCcEEeecccc-cCCccHHHHHHHHHHHHhccCCCC
Confidence 4556677788899999888888765442 34334577899999999 489999999999999999865443
No 21
>PRK04351 hypothetical protein; Provisional
Probab=96.74 E-value=0.0079 Score=50.07 Aligned_cols=67 Identities=22% Similarity=0.298 Sum_probs=47.2
Q ss_pred cHHHHHHHHHHHHH-cCCCCC-cEEEEeCCC--CcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHH
Q 024810 122 LPELHQLMTEAAEI-LNLEAP-DLYVRQSPV--PNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLK 192 (262)
Q Consensus 122 ~p~L~~~v~~l~~~-lgi~~p-~vyv~~~~~--~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~ 192 (262)
+.+|.+++++++.. .+.+-| ++..-..-. ..++-. ....|.++.-+++..+++++..|+.||++|+.
T Consensus 3 ~~~l~~l~~~~s~~~F~~~f~~~v~~n~RlrttgG~~~l----~~~~I~lnp~ll~~~~~~~l~~vv~HElcH~~ 73 (149)
T PRK04351 3 NQELQRLVEEISLEYFGKPFRHQAYFNKRLRTTGGRYLL----KDHHIEFNPKMLEEYGLEELIGIIKHELCHYH 73 (149)
T ss_pred HHHHHHHHHHHHHHHhCCCCCcEEEEeccchhhhheeec----CCCeEEeCHHHHhhccHHHHHhhHHHHHHHHH
Confidence 46889999998875 455533 333222111 122221 45689999999999999999999999999984
No 22
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=96.47 E-value=0.014 Score=51.77 Aligned_cols=71 Identities=20% Similarity=0.150 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHHH
Q 024810 125 LHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWLT 200 (262)
Q Consensus 125 L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~ 200 (262)
+...++..++.+|.+.+.+.+.+-...-+-++ ....|.++.-+. ..+++.+.+|++|||+|++..+.-..+
T Consensus 125 l~~~~~~~~~~l~~~~~~~~ik~~k~~WGScs----~~~~i~~~~~l~-~~p~~~i~YVvvHELaHLke~nHs~~F 195 (223)
T COG1451 125 LEIRLKEYAKKLGVPPRAIKLKNMKRRWGSCS----KAGEIRFNWRLV-MAPEEVIDYVVVHELAHLKEKNHSKRF 195 (223)
T ss_pred HHHHHHHHHHHhCCCccceeeeeccceeeeec----CCCcEEeehhhh-cCCHHHHHHHHHHHHHHHhhhhccHHH
Confidence 34445556667777766666664333333222 233688888777 589999999999999999987654433
No 23
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=96.18 E-value=0.013 Score=48.27 Aligned_cols=32 Identities=25% Similarity=0.293 Sum_probs=30.1
Q ss_pred CcEEEECHHHHhhCCHHHHHHHHHHHHHHHHc
Q 024810 162 KPFVVVHTSLVELLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 162 ~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~ 193 (262)
...|.++..+++..+++++..||.|||+|+..
T Consensus 41 ~~~I~ln~~l~~~~~~~~l~~~l~HEm~H~~~ 72 (146)
T smart00731 41 SAEIRLNPKLLTENGRDRLRETLLHELCHAAL 72 (146)
T ss_pred CCEEEeCHHHHhhccHHHHHhhHHHHHHHHHH
Confidence 66899999999989999999999999999996
No 24
>PF13203 DUF2201_N: Putative metallopeptidase domain
Probab=95.89 E-value=0.021 Score=52.03 Aligned_cols=36 Identities=22% Similarity=0.183 Sum_probs=34.0
Q ss_pred EEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHH
Q 024810 164 FVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWL 199 (262)
Q Consensus 164 ~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~ 199 (262)
.|+++...+..++.+|+.+|++||+-|+..+|+.+.
T Consensus 44 ~l~~nP~~~~~l~~~~~~~~l~HevlH~~~~H~~r~ 79 (292)
T PF13203_consen 44 RLYYNPEFLESLSPEERVGLLLHEVLHCLLRHPWRR 79 (292)
T ss_pred EEEECcHHHhcCCHHHHHHHHHHHHHHHHccchhhh
Confidence 899999999999999999999999999999998653
No 25
>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=95.78 E-value=0.07 Score=43.89 Aligned_cols=30 Identities=23% Similarity=0.335 Sum_probs=28.7
Q ss_pred EEEECHHHHhhCCHHHHHHHHHHHHHHHHc
Q 024810 164 FVVVHTSLVELLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 164 ~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~ 193 (262)
.|.|+..+++..+++|+..+|.|||.|+..
T Consensus 44 ~I~ls~~~~~~~~~~~~~~tL~HEm~H~~~ 73 (157)
T PF10263_consen 44 EIRLSPKLLDRNPEEELIDTLLHEMAHAAA 73 (157)
T ss_pred EEEECHHHHHhhHHHHHHHHHHHHHHHHHh
Confidence 899999999988899999999999999986
No 26
>PF10463 Peptidase_U49: Peptidase U49; InterPro: IPR019504 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This entry contains peptidases belonging to MEROPS peptidase family U49 (Lit peptidase, clan U-). The Lit peptidase from Escherichia coli functions in bacterial cell death in response to infection by Enterobacteria phage T4. Following binding of Gol peptide to domains II and III of elongation factor Tu, the Lit peptidase cleaves domain I of the elongation factor. This prevents binding of guanine nucleotides, shuts down translation and leads to cell death.
Probab=95.09 E-value=0.018 Score=50.35 Aligned_cols=42 Identities=24% Similarity=0.139 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024810 178 KELQAVLAHELGHLKCDHGVWLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRAALLVS 246 (262)
Q Consensus 178 dEL~aVlaHElgHi~~~H~~~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~~ 246 (262)
--+.+++.||++|+..+|.... .| .++++.|.+||..|....
T Consensus 99 ~A~~fil~HE~~Hv~~~h~~~~------------~~---------------~~~~~eE~~AD~~A~~~i 140 (206)
T PF10463_consen 99 CAIAFILLHELAHVVLGHEGDS------------SP---------------SQSIQEEKEADSYATEMI 140 (206)
T ss_pred HHHHHHHHHHHHHHHHcCcccc------------cc---------------chhHHHHHhhhHHHHHHH
Confidence 4578999999999999998764 11 335688999999888774
No 27
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=94.67 E-value=0.2 Score=43.82 Aligned_cols=52 Identities=19% Similarity=0.153 Sum_probs=43.1
Q ss_pred EEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCH-----HHHHHHHHHHHHHHHccch
Q 024810 144 YVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTR-----KELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 144 yv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~-----dEL~aVlaHElgHi~~~H~ 196 (262)
+++++...-|++.| ......|.++...++...+ +|+.+||-||+.|+-+.++
T Consensus 56 ~~~~~~~gVA~t~g-d~~~~~I~~S~~~i~~~~~~~~~~~Ei~Gvl~HE~~H~~Q~~~ 112 (205)
T PF04450_consen 56 LILDDMDGVAYTSG-DDDHKEIHFSARYIAKYPADGDVRDEIIGVLYHEMVHCWQWDG 112 (205)
T ss_pred EEEECCCeeEEEec-CCCccEEEEeHHHHhhcccccchHHHHHHHHHHHHHHHhhcCC
Confidence 35677778899998 4567799999999998753 5999999999999998664
No 28
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=94.52 E-value=0.031 Score=49.19 Aligned_cols=32 Identities=28% Similarity=0.447 Sum_probs=26.9
Q ss_pred cCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 159 SGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 159 ~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
...+|.|++++. .+++.-++++||||||+..+
T Consensus 55 ~~~~~~I~iN~n----~~~~r~rFtlAHELGH~llH 86 (213)
T COG2856 55 DEEKPVIYINAN----NSLERKRFTLAHELGHALLH 86 (213)
T ss_pred eccCceEEEeCC----CCHHHHHHHHHHHHhHHHhc
Confidence 346689999976 48899999999999999863
No 29
>PRK04860 hypothetical protein; Provisional
Probab=94.18 E-value=0.18 Score=42.41 Aligned_cols=65 Identities=18% Similarity=0.194 Sum_probs=42.4
Q ss_pred HHHHHHHHHHcCCC--CCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHc
Q 024810 126 HQLMTEAAEILNLE--APDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 126 ~~~v~~l~~~lgi~--~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~ 193 (262)
.+-++...+.++.+ .|++..-..... |-.... ....|.++..+++..+++++..||.||++|+..
T Consensus 10 ~~~~~~a~~~f~~~f~~p~~~f~~R~rt-aG~~~l--~~~~I~~Np~ll~~~~~~~l~~~v~HEl~H~~~ 76 (160)
T PRK04860 10 RECLAQANLYFKRTFPEPKVSYTQRGTS-AGTAWL--QSNEIRLNPVLLLENQQAFIDEVVPHELAHLLV 76 (160)
T ss_pred HHHHHHHHHHhCCCCCCCEEEEeecchh-hcchhH--hcCCeeeCHHHHhhCcHHHHHhHHHHHHHHHHH
Confidence 33344444445555 455544332221 322222 345799999999989999999999999999874
No 30
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=93.80 E-value=0.27 Score=42.41 Aligned_cols=70 Identities=16% Similarity=0.182 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEE------EeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 124 ELHQLMTEAAEILNLEAPDLYVRQSPVPNAYT------LAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 124 ~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa------~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
.+.+.+.++.+.+..+.-+|++......|.+. .|..+...+|.+.- +-...+.++|.+++|||+-|..+-
T Consensus 4 ~i~~~~~~~~~~~~~~~i~v~i~p~~~~~~~~~~~~g~~g~~~~~~~i~l~~-~~~~~~~~~l~~~iaHE~hH~~r~ 79 (195)
T PF10026_consen 4 IIEEALEKSIELLPGPDIPVFIFPADPENPFLIPELGGKGGGAIPGYIFLFL-LPNDYSLEELPALIAHEYHHNCRY 79 (195)
T ss_pred HHHHHHHHHHHHcCCCCCCEEEEeccCCCcccccccCcccccCCCCEEEEEe-cCCcccHHHHHHHHHHHHHHHHHH
Confidence 34566667777766553345554322222111 11122344677775 455668899999999999999753
No 31
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=93.42 E-value=0.21 Score=41.52 Aligned_cols=66 Identities=24% Similarity=0.262 Sum_probs=46.8
Q ss_pred cHHHHHHHHHHHHHcCCC--CCcEEEEeCC--CCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHH
Q 024810 122 LPELHQLMTEAAEILNLE--APDLYVRQSP--VPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLK 192 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi~--~p~vyv~~~~--~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~ 192 (262)
..+|.+.++++.....-+ .|+++.-.-. .-.||. .+.-|-++.-+++...+|.+..|+.|||+|+.
T Consensus 4 ~~~L~~~~~~as~~~~r~~~~p~~~~n~Rg~taG~ayL-----~~~~I~lNP~ll~en~~~f~~~vV~HELaHl~ 73 (156)
T COG3091 4 NRKLQQCVEQASLKFFRKFFRPKASYNQRGRTAGGAYL-----LKSEIRLNPKLLEENGEDFIEQVVPHELAHLH 73 (156)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcceehhhhhhhcchhhc-----cccccccCHHHHHHccHHHHHHHHHHHHHHHH
Confidence 346778888877776543 5655443221 222332 23379999999999999999999999999986
No 32
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=93.24 E-value=0.2 Score=37.09 Aligned_cols=58 Identities=21% Similarity=0.237 Sum_probs=37.8
Q ss_pred HHHHHcCCCCCcEEEEeC---------CCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 131 EAAEILNLEAPDLYVRQS---------PVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 131 ~l~~~lgi~~p~vyv~~~---------~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
++....|.+...|-|..+ ....||+.| + .|++..+-.+ .+..+=..+++||++|+.+.
T Consensus 9 ~~e~~~G~dl~~Vrvh~~~~a~~~~~~~~A~A~T~G---~--~I~f~~g~~~-~~s~~~~~llaHEl~Hv~Qq 75 (79)
T PF13699_consen 9 RLERAFGADLSDVRVHTGPAASRAAAALGARAFTVG---N--DIYFAPGKYN-PDSPEGRALLAHELAHVVQQ 75 (79)
T ss_pred HHHHHhCCCccceEEEeCCchhhhhhccCCeEEEEC---C--EEEEcCCCcC-CCCCCcchhHhHHHHHHHhh
Confidence 344556777555666543 246678876 2 6999776432 34445678999999999864
No 33
>PRK09672 phage exclusion protein Lit; Provisional
Probab=93.06 E-value=0.091 Score=48.30 Aligned_cols=42 Identities=21% Similarity=0.085 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 024810 178 KELQAVLAHELGHLKCDHGVWLTFANILTLGAYTIPGIGGMIAQSLEEQLFRWLRAAELTCDRAALLVS 246 (262)
Q Consensus 178 dEL~aVlaHElgHi~~~H~~~~~l~~~l~~la~~~p~lg~~l~~~l~~~l~~~sR~~E~~ADr~al~~~ 246 (262)
.-+.+|+.||++|+..+|.... . ..+++..|.+||.+|....
T Consensus 163 ~A~a~i~~HEiaHv~~~h~~~~------------~---------------~e~s~~eE~eaDs~At~~i 204 (305)
T PRK09672 163 CALAWILLHEIAHVEFQHSSLE------------S---------------NEDSIQEEKEADSYATNWL 204 (305)
T ss_pred HHHHHHHHHHHHHHHhcccccc------------C---------------chHHHHHHHHHHHHHHHHH
Confidence 4689999999999999998751 0 1456789999999998876
No 34
>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=92.55 E-value=7.2 Score=34.60 Aligned_cols=66 Identities=15% Similarity=0.135 Sum_probs=40.4
Q ss_pred HHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccch
Q 024810 126 HQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 126 ~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~ 196 (262)
.+.-+.+.++.|+...+|.-+++.--.=| ++.++.|.++++-.+.-+- ---+|=|||+||..++..
T Consensus 40 ae~Ar~iL~~~gl~~V~Ve~~~G~LtDHY----dP~~k~vrLS~~vy~~~Si-aAvaVAAHEvGHAiQ~a~ 105 (222)
T PF04298_consen 40 AEVARHILDRNGLSDVRVERVPGELTDHY----DPRNKVVRLSEDVYNGRSI-AAVAVAAHEVGHAIQHAE 105 (222)
T ss_pred HHHHHHHHHHCCCCCeeEEEeCCCCCCCc----CCCCCEEEeCCccCCCCCH-HHHHHHHHHHhHHHhccc
Confidence 34455566677887555655543212222 3456688888875543222 335789999999998764
No 35
>COG4900 Predicted metallopeptidase [General function prediction only]
Probab=89.25 E-value=1.4 Score=34.96 Aligned_cols=71 Identities=23% Similarity=0.250 Sum_probs=47.7
Q ss_pred cHHHHHHHHHHHHHcCCC---CCcEEEEeCCC--CcEEE------------EeccCCCcEEEECHHHHhhCCHHHHHHHH
Q 024810 122 LPELHQLMTEAAEILNLE---APDLYVRQSPV--PNAYT------------LAISGKKPFVVVHTSLVELLTRKELQAVL 184 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi~---~p~vyv~~~~~--~NAfa------------~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVl 184 (262)
.++..+.++.+..++|++ ..+++++-++. ..|++ .|.++ -..|-+-+.-++.|+-+|---|+
T Consensus 6 ~~dve~~~~~~V~~lgLdyi~~~rv~vVys~gS~~~A~ARIwg~pki~~e~lglnP-~YviEl~sekF~rLs~~ekvKvi 84 (133)
T COG4900 6 LADVEADIKNAVVRLGLDYIFQVRVVVVYSPGSHSKAVARIWGIPKIFQEVLGLNP-VYVIELLSEKFKRLSCAEKVKVI 84 (133)
T ss_pred cccHHHHHHHHHHHhCcceeeeeeEEEEECCCCcceehhhhhcccHHHHHHhCCCC-eeeeeeehhhcCCCChHHHHHHH
Confidence 345667788888888877 45778776543 23332 23322 22455566667788889999999
Q ss_pred HHHHHHHHc
Q 024810 185 AHELGHLKC 193 (262)
Q Consensus 185 aHElgHi~~ 193 (262)
.||+.||-.
T Consensus 85 iHEllHIP~ 93 (133)
T COG4900 85 IHELLHIPA 93 (133)
T ss_pred HHHHhcCcc
Confidence 999999974
No 36
>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=87.25 E-value=0.63 Score=40.91 Aligned_cols=35 Identities=20% Similarity=0.438 Sum_probs=26.0
Q ss_pred cEEEECHHHHhhCCHHHHHHHHHHHHHHHH-ccchHHH
Q 024810 163 PFVVVHTSLVELLTRKELQAVLAHELGHLK-CDHGVWL 199 (262)
Q Consensus 163 ~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~-~~H~~~~ 199 (262)
+.|.| .+ ++..+-+..+.||+|||||.. .||.-|.
T Consensus 118 ~~I~I-~~-~~~~~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 118 KFIQI-YG-LSNYSVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred ceEEE-Ee-cCCCchhHHHHHHHHHhhhhccccccCcC
Confidence 45666 23 456778899999999999987 4776543
No 37
>COG1164 Oligoendopeptidase F [Amino acid transport and metabolism]
Probab=87.23 E-value=0.88 Score=46.01 Aligned_cols=49 Identities=31% Similarity=0.537 Sum_probs=34.8
Q ss_pred CcEEEEeCCCCcEEEEeccC-CCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 141 PDLYVRQSPVPNAYTLAISG-KKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 141 p~vyv~~~~~~NAfa~G~~~-~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
.+++--.+..+.||+.|... .+|+|.++=. . +... -.+|+||+||..|.
T Consensus 345 iD~~~~~gKrsGaYs~~~~~~~~p~IlmN~~--g--t~~d-V~TLaHElGHs~Hs 394 (598)
T COG1164 345 IDVYPRKGKRSGAYSIGFYKGDHPFILMNYD--G--TLRD-VFTLAHELGHSVHS 394 (598)
T ss_pred eeccCCCCCCCCcccCCCCCCCCCeEEEeCC--C--chhH-HHHHHHHccHHHHH
Confidence 44555567789999999876 7899987532 1 2222 46799999999864
No 38
>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=87.18 E-value=2.2 Score=34.63 Aligned_cols=37 Identities=22% Similarity=0.296 Sum_probs=23.2
Q ss_pred CcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHH
Q 024810 151 PNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLK 192 (262)
Q Consensus 151 ~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~ 192 (262)
.-|.+.|. ++.+|.+...--+..+. .+ |.+||+||+.
T Consensus 53 sya~~~g~--G~G~I~l~~~~~qgy~~--~R-IaaHE~GHiL 89 (132)
T PF02031_consen 53 SYASTDGL--GSGYIFLDYQQNQGYNS--TR-IAAHELGHIL 89 (132)
T ss_dssp -EEEE-SS--S-EEEEEEHHHHHHS-H--HH-HHHHHHHHHH
T ss_pred cccccCCC--CcEEEEechHHhhCCcc--ce-eeeehhcccc
Confidence 33555554 57799998764444443 33 9999999997
No 39
>COG2321 Predicted metalloprotease [General function prediction only]
Probab=86.52 E-value=2.2 Score=38.95 Aligned_cols=64 Identities=16% Similarity=0.158 Sum_probs=40.8
Q ss_pred HHHHHHHHHcCCC--CCcEEEEeCC----------CCcEEEEeccCCCcEEEECHHHHhhCCH-------HHHHHHHHHH
Q 024810 127 QLMTEAAEILNLE--APDLYVRQSP----------VPNAYTLAISGKKPFVVVHTSLVELLTR-------KELQAVLAHE 187 (262)
Q Consensus 127 ~~v~~l~~~lgi~--~p~vyv~~~~----------~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~-------dEL~aVlaHE 187 (262)
+....+-+..+-. .|.+.++... ...+|- ++...++++.....+.|.. =--++|+|||
T Consensus 98 d~W~~if~~~~~~Y~~Ptlvlf~~~v~t~CG~assasGPFY---CP~D~kvYlDlsFf~~m~~~fga~GdfAqaYViAHE 174 (295)
T COG2321 98 DTWMQIFQESGRTYQKPTLVLFSGQVRTGCGFASSASGPFY---CPADTKVYLDLSFFDEMKTKFGASGDFAQAYVIAHE 174 (295)
T ss_pred HHHHHHHHHhcccccCCeEEEecCccccCcCCCCcCCCCee---cCCCceEEEehhHHHHHHHHhcCCccHHHHHHHHhh
Confidence 3444444444433 6777665422 222333 3456799999999987753 2578999999
Q ss_pred HHHHHc
Q 024810 188 LGHLKC 193 (262)
Q Consensus 188 lgHi~~ 193 (262)
.||...
T Consensus 175 VGHHVQ 180 (295)
T COG2321 175 VGHHVQ 180 (295)
T ss_pred hhHHHH
Confidence 999875
No 40
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=86.24 E-value=2.6 Score=37.28 Aligned_cols=57 Identities=21% Similarity=0.303 Sum_probs=38.7
Q ss_pred HHHcCCCCCcEEEE--eCCCCcEEEEeccCCCcEEEECHHHHhhC---------CH--------HHHHHHHHHHHHHHHc
Q 024810 133 AEILNLEAPDLYVR--QSPVPNAYTLAISGKKPFVVVHTSLVELL---------TR--------KELQAVLAHELGHLKC 193 (262)
Q Consensus 133 ~~~lgi~~p~vyv~--~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L---------~~--------dEL~aVlaHElgHi~~ 193 (262)
-..+.+|.| +.|. +....|||- .+....|.+.-.+++.. ++ +-+.+++-||+||..-
T Consensus 30 n~~f~LP~~-l~i~~~~CGe~nA~y---dPe~~~I~iCYEf~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~HE~GHAlI 105 (220)
T PF14247_consen 30 NDYFPLPRD-LTIRFAECGEDNAFY---DPENRSITICYEFVDEILDRFAKANDPDEEYGQAAIGNVLFTLYHELGHALI 105 (220)
T ss_pred hhcCCCCCC-eEEEEeecCCCCCcc---CCCCCEEEECHHHHHHHHHHHHhCCcCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 333445554 3333 467899994 45778999998888632 11 2478999999999874
No 41
>COG3590 PepO Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]
Probab=85.95 E-value=0.16 Score=50.51 Aligned_cols=48 Identities=23% Similarity=0.294 Sum_probs=35.8
Q ss_pred EEEEeCCCCcEEEEeccCCCcEEEECHHHHhh--CCHH--------HHHHHHHHHHHHHHc
Q 024810 143 LYVRQSPVPNAYTLAISGKKPFVVVHTSLVEL--LTRK--------ELQAVLAHELGHLKC 193 (262)
Q Consensus 143 vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~--L~~d--------EL~aVlaHElgHi~~ 193 (262)
-+.+.....|||-- +.+..||++.++|+. .++| -+-+|||||+||---
T Consensus 443 eW~M~pq~VNAYYn---p~~N~IVFPAAILQ~PFfd~ea~~a~NYGgIGaVIgHEI~HgFD 500 (654)
T COG3590 443 EWEMPPQTVNAYYN---PQKNEIVFPAAILQAPFFDPEADSAANYGGIGAVIGHEIGHGFD 500 (654)
T ss_pred hcCCCHHHhhhhcC---CCCceEeeeHHhcCCCCCCCCcchhhcccCccceehhhhccccc
Confidence 34455567899863 467799999999985 2332 489999999999764
No 42
>COG2738 Predicted Zn-dependent protease [General function prediction only]
Probab=85.77 E-value=5.9 Score=34.57 Aligned_cols=67 Identities=15% Similarity=0.040 Sum_probs=37.9
Q ss_pred HHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchHHHH
Q 024810 129 MTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGVWLT 200 (262)
Q Consensus 129 v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~~~~ 200 (262)
.+.+.+..|+...++-.+.+.-..= ..++++.+.+++.-...-+- .=.+|-|||.||..+.+.-|..
T Consensus 46 Ar~iLd~nGl~dV~Ve~v~G~LTDH----YDP~~kvvrLSe~~y~g~Si-a~~aVAAHEVGHAiQd~~~Y~~ 112 (226)
T COG2738 46 ARMILDENGLYDVPVEEVPGTLTDH----YDPRRKVVRLSEANYYGPSI-AAIAVAAHEVGHAIQDQEDYAF 112 (226)
T ss_pred HHHHHhhcCCccceeeeecCCcccc----cChhhheeeccccccCCccH-HHHHHHHHHhhHHHhhhcccHH
Confidence 3344555676633344443221111 23456677777765543332 3468999999999987765543
No 43
>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=85.27 E-value=0.98 Score=45.25 Aligned_cols=43 Identities=28% Similarity=0.435 Sum_probs=31.0
Q ss_pred EeCCCCcEEEEeccCCCcEEEEC-HHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 146 RQSPVPNAYTLAISGKKPFVVVH-TSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 146 ~~~~~~NAfa~G~~~~~~~Ivi~-~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
..+..+.||++|..+..|+|.++ ++ +-++ -..|+||+||..|.
T Consensus 349 r~gK~~Ga~~~~~~~~~p~il~N~~~-----~~~d-v~TLaHElGHa~H~ 392 (591)
T TIGR00181 349 NKGKRSGAYSIGGYKVKPYILMNWDG-----TLNS-VFTLAHELGHSMHS 392 (591)
T ss_pred CCCCCCCcccCCCCCCCCeEEEecCC-----Ccch-HHHHHHHhhhHHHH
Confidence 34567889999987778888775 22 2233 35799999999854
No 44
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=82.32 E-value=1.6 Score=33.39 Aligned_cols=33 Identities=30% Similarity=0.160 Sum_probs=23.5
Q ss_pred CcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchH
Q 024810 162 KPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 162 ~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
.+.|++.. +.-+++.+..+++||++|....+..
T Consensus 10 ~~~i~~~~---~~~~~~~~~~~l~HE~~H~~~~~~~ 42 (128)
T PF13485_consen 10 FNRIVVYF---QGSDEDWLDRVLAHELAHQWFGNYF 42 (128)
T ss_pred CCEEEEec---CCCCHHHHHHHHHHHHHHHHHHHHc
Confidence 34566433 3457788899999999999865543
No 45
>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=80.27 E-value=1.3 Score=44.21 Aligned_cols=66 Identities=27% Similarity=0.331 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHcCCCCC------------cEEEEeCCCCcEEEEeccC-CCcEEEEC-HHHHhhCCHHHHHHHHHHHHH
Q 024810 124 ELHQLMTEAAEILNLEAP------------DLYVRQSPVPNAYTLAISG-KKPFVVVH-TSLVELLTRKELQAVLAHELG 189 (262)
Q Consensus 124 ~L~~~v~~l~~~lgi~~p------------~vyv~~~~~~NAfa~G~~~-~~~~Ivi~-~~Ll~~L~~dEL~aVlaHElg 189 (262)
++.+.+.++...+|...- +++-..+..+.|||+++++ ..|+|..+ ++ +.+++ .+|+||+|
T Consensus 273 ~~~~~~~~~~~~l~~~~~e~~~~~~~~~~iD~~~r~gK~~Gayc~~~~~~~~P~I~~Nf~~-----t~~dv-~TL~HElG 346 (549)
T TIGR02289 273 FLLEKAEKMYKELSLEFYEFFNFMREKNLLDLESRKGKAAGGYCTYLPKYKAPFIFSNFNG-----TSGDI-DVLTHEAG 346 (549)
T ss_pred HHHHHHHHHhcCCCcHHHHHHHHHHhcCccccCCCCCCCCCcccCCCCCCCCcEEEEeCCC-----ChhHH-HHHHHHhh
Confidence 555666666555553211 1222345578899998654 57888765 22 34444 46899999
Q ss_pred HHHccc
Q 024810 190 HLKCDH 195 (262)
Q Consensus 190 Hi~~~H 195 (262)
|..|..
T Consensus 347 Ha~H~~ 352 (549)
T TIGR02289 347 HAFHVY 352 (549)
T ss_pred HHHHHH
Confidence 998543
No 46
>PF09768 Peptidase_M76: Peptidase M76 family; InterPro: IPR019165 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. Mitochondrial inner membrane protease ATP23 has two roles in the assembly of mitochondrial ATPase. Firstly, it acts as a protease that removes the N-terminal 10 residues of mitochondrial ATPase CF(0) subunit 6 (ATP6) at the intermembrane space side. Secondly, it is involved in the correct assembly of the membrane-embedded ATPase CF(0) particle, probably mediating association of ATP6 with the subunit 9 ring [, ].; GO: 0004222 metalloendopeptidase activity
Probab=79.19 E-value=3.1 Score=35.47 Aligned_cols=67 Identities=19% Similarity=0.184 Sum_probs=39.6
Q ss_pred cHHHHHHHHHHHHHcCCC-CC-cEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHH
Q 024810 122 LPELHQLMTEAAEILNLE-AP-DLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLK 192 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi~-~p-~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~ 192 (262)
.|.+.=+++++ +++|-+ .+ ..+....-..+ ...|+.+.++-|+|-..-+ -+.+++.-+|+|||-|.-
T Consensus 15 sp~v~fl~~~~-~~~gc~~~~~~~i~c~~C~~~-~~Ggf~p~~~~I~lC~N~~--~~~~~l~~~l~HELIHay 83 (173)
T PF09768_consen 15 SPTVRFLMEAL-KKLGCPPVPPRHIKCEPCDSS-VSGGFDPSKKGIVLCQNRI--RSQGHLEDTLTHELIHAY 83 (173)
T ss_pred CcHHHHHHHHH-HHcCCCCCCCCCeEEEECcCC-CcCCccCCCCCEEEeeCCC--CCHHHHHHHHHHHHHHHH
Confidence 45555555554 456755 33 33333221112 3345544456677766543 389999999999999987
No 47
>PF08325 WLM: WLM domain; InterPro: IPR013536 The WLM (WSS1-like metalloprotease) domain is a globular domain related to the zincin-like superfamily of Zn-dependent peptidase. Since the WLM domain contains all known active site residues of zincins, it is predicted to be a catalytically active peptidase domain. The WLM domain is a eukaryotic domain represented in plants, fungi, Plasmodium, and kinetoplastids. By contrast, it is absent in animals, Cryptosporidium, and Microsporidia, suggesting that it has been lost on multiple occasions during the evolution of eukaryotes. The WLM domain is found either in stand-alone form or in association with other domains such as the RanBP2 zinc finger , the ubiquitin domain, or the PUB/PUG domain. This domain could function as a specific de-SUMOylating domain of distinct protein complexes in the nucleus and the cytoplasm []. It has been suggested to form a segregated alpha/beta structure with eight helices and five strands. Proteins containign this domain include yeast WSS1 (a weak suppressor of the Ub-related protein SMT3), and various putative metalloproteases from plant and fungal species.
Probab=77.86 E-value=2.4 Score=36.55 Aligned_cols=23 Identities=22% Similarity=0.297 Sum_probs=19.6
Q ss_pred hCCHHHHHHHHHHHHHHHHccch
Q 024810 174 LLTRKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 174 ~L~~dEL~aVlaHElgHi~~~H~ 196 (262)
-++-+++..|+.|||+|+.++..
T Consensus 76 fl~~~~i~~t~lHELaH~~~~~H 98 (186)
T PF08325_consen 76 FLPYETILGTMLHELAHNVHGPH 98 (186)
T ss_pred EeeHHHHHHHHHHHHHhcccCCc
Confidence 35889999999999999997643
No 48
>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=77.15 E-value=1.7 Score=35.16 Aligned_cols=21 Identities=43% Similarity=0.707 Sum_probs=16.2
Q ss_pred CHHHHHHHHHHHHHHHH-ccch
Q 024810 176 TRKELQAVLAHELGHLK-CDHG 196 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~-~~H~ 196 (262)
+..++..|+.||+||.. .+|.
T Consensus 101 ~~~~~~~v~~HEiGHaLGL~H~ 122 (154)
T PF00413_consen 101 SGNDLQSVAIHEIGHALGLDHS 122 (154)
T ss_dssp SSEEHHHHHHHHHHHHTTBESS
T ss_pred hhhhhhhhhhhccccccCcCcC
Confidence 34579999999999996 3454
No 49
>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=77.01 E-value=1.6 Score=35.77 Aligned_cols=16 Identities=50% Similarity=0.713 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
..++..|+.||+||..
T Consensus 101 ~~~~~~~~~HEiGHaL 116 (156)
T cd04279 101 AENLQAIALHELGHAL 116 (156)
T ss_pred chHHHHHHHHHhhhhh
Confidence 5689999999999998
No 50
>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=76.77 E-value=1.7 Score=38.75 Aligned_cols=28 Identities=39% Similarity=0.428 Sum_probs=19.3
Q ss_pred EECHHHHhh------CCHHHHHHHHHHHHHHHHc
Q 024810 166 VVHTSLVEL------LTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 166 vi~~~Ll~~------L~~dEL~aVlaHElgHi~~ 193 (262)
..+.|+... +...+.+.++||||||-..
T Consensus 147 ~~n~gl~t~~~~~~~~~~~~~a~t~AHElGHnlG 180 (244)
T cd04270 147 YLNTGLTTTVNYGKRVPTKESDLVTAHELGHNFG 180 (244)
T ss_pred eeecceEeeeccCCccchhHHHHHHHHHHHHhcC
Confidence 445555532 3345688999999999874
No 51
>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=75.75 E-value=1.8 Score=35.46 Aligned_cols=32 Identities=19% Similarity=0.228 Sum_probs=21.2
Q ss_pred CcEEEECHHHHhh----CCHHHHHHHHHHHHHHHHc
Q 024810 162 KPFVVVHTSLVEL----LTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 162 ~~~Ivi~~~Ll~~----L~~dEL~aVlaHElgHi~~ 193 (262)
+..|.+...-+.. .+.+++.+++.||+||...
T Consensus 72 ~g~i~~~~~~~~~~~~~~~~~~~~~~~~HEiGHaLG 107 (165)
T cd04268 72 TGEILLARVYLYSSFVEYSGARLRNTAEHELGHALG 107 (165)
T ss_pred CccEEeeEEEEchhHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455555543321 2446899999999999883
No 52
>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=74.44 E-value=3.7 Score=41.23 Aligned_cols=46 Identities=28% Similarity=0.437 Sum_probs=30.0
Q ss_pred EEEeCCCCcEEEEeccC-CCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 144 YVRQSPVPNAYTLAISG-KKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 144 yv~~~~~~NAfa~G~~~-~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
+-..+....||++|+.+ ..|+|.++=. . +-+++ ..|+||+||..|.
T Consensus 343 ~~r~gK~~Ga~~~~~~~~~~p~i~~N~~--~--~~~~v-~TL~HE~GHa~H~ 389 (587)
T TIGR02290 343 EPRPGKRGGAFCTGFPPSKEPRVLMNYD--G--SRRDV-STLAHELGHAYHS 389 (587)
T ss_pred CCCCCCCCCcccCCCCCCCCCEEEEecC--C--CchhH-HHHHHHhhHHHHH
Confidence 33455678899988654 3488777511 1 23343 4689999999964
No 53
>PF14891 Peptidase_M91: Effector protein
Probab=74.13 E-value=10 Score=32.00 Aligned_cols=16 Identities=38% Similarity=0.235 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHc
Q 024810 178 KELQAVLAHELGHLKC 193 (262)
Q Consensus 178 dEL~aVlaHElgHi~~ 193 (262)
.+=..+|+|||+|..+
T Consensus 101 ~~p~v~L~HEL~HA~~ 116 (174)
T PF14891_consen 101 RPPFVVLYHELIHAYD 116 (174)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4557899999999983
No 54
>COG3864 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.84 E-value=4.8 Score=37.63 Aligned_cols=35 Identities=20% Similarity=0.197 Sum_probs=32.4
Q ss_pred cEEEECHHHHhhCCHHHHHHHHHHHHHHHHccchH
Q 024810 163 PFVVVHTSLVELLTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 163 ~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
-.++++...+-.++.+++++.|-||+-|+...|..
T Consensus 52 ~~~y~NPei~~~~p~~~~~aLl~HEV~Hi~l~Hi~ 86 (396)
T COG3864 52 FTMYFNPEIFLNCPISEMKALLKHEVYHIMLNHIK 86 (396)
T ss_pred eEEEeCHHHHccCCHHHHHHHHHHHHHHHHHHHHH
Confidence 37999999999999999999999999999999974
No 55
>cd06460 M32_Taq Peptidase family M32 is a subclass of metallocarboxypeptidases which are distributed mainly in bacteria and archaea, and contain a HEXXH motif that coordinates a divalent cation such as Zn2+ or Co2+, so far only observed in the active site of neutral metallopeptidases but not in carboxypeptidases. M32 includes the thermostable carboxypeptidases (E.C. 3.4.17.19) from Thermus aquaticus (TaqCP) and Pyrococcus furiosus (PfuCP), which have broad specificities toward a wide range of C-terminal substrates that include basic, aromatic, neutral and polar amino acids. These enzymes have a similar fold to the M3 peptidases such as neurolysin and the M2 angiotensin converting enzyme (ACE). Novel peptidases from protozoa Trypanosoma cruzi, a causative agent of Chagas' disease, and Leishmania major, a parasite that causes leishmaniasis, are the first eukaryotic M32 enzymes identified so far, thus making these enzymes an attractive potential target for drug development against these o
Probab=70.88 E-value=31 Score=33.23 Aligned_cols=64 Identities=19% Similarity=0.154 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHH-HHH--HHHHHHHHHHHccch
Q 024810 125 LHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRK-ELQ--AVLAHELGHLKCDHG 196 (262)
Q Consensus 125 L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~d-EL~--aVlaHElgHi~~~H~ 196 (262)
-.+.-+++++.+|.+..+-++-.+ +++|++|+++..++|. +. .+++ =+. +-++||+||-.+...
T Consensus 109 Q~~~~~~~~~~~g~df~~griD~s--~hpF~~~~~~~dvRIt--t~----y~~~d~~~~l~t~iHE~GHalye~~ 175 (396)
T cd06460 109 QEALGRELLEALGFDFDRGRLDVS--AHPFTGGLGPGDVRIT--TR----YDENDFRSALFSTIHETGHALYEQG 175 (396)
T ss_pred HHHHHHHHHHHhCCcccCCeeecC--CCCCCCCCCCCCceEE--ee----eCCcchHHHHHHHHHHhhHHHHHhc
Confidence 344556788888877544444333 3569988755555553 32 2221 123 457899999997763
No 56
>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=70.41 E-value=2.3 Score=35.98 Aligned_cols=17 Identities=29% Similarity=0.346 Sum_probs=14.1
Q ss_pred CHHHHHHHHHHHHHHHH
Q 024810 176 TRKELQAVLAHELGHLK 192 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~ 192 (262)
+...-.-++|||+||..
T Consensus 138 ~~~~~~~~~AHEiGH~l 154 (196)
T PF13688_consen 138 PTYNGAITFAHEIGHNL 154 (196)
T ss_dssp -HHHHHHHHHHHHHHHT
T ss_pred CCCceehhhHHhHHHhc
Confidence 45778899999999987
No 57
>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=69.73 E-value=3.7 Score=38.89 Aligned_cols=43 Identities=33% Similarity=0.542 Sum_probs=27.6
Q ss_pred eCCCCcEEEEecc-CCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 147 QSPVPNAYTLAIS-GKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 147 ~~~~~NAfa~G~~-~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
.+....||+.++. +..|+|..+-. . +-++ -..++||+||..|.
T Consensus 193 ~gK~~gaf~~~~~~~~~p~i~~n~~--~--~~~~-v~tl~HE~GHa~h~ 236 (427)
T cd06459 193 KGKRSGAYCTGLPPGKHPFILMNFN--G--TLDD-VFTLAHELGHAFHS 236 (427)
T ss_pred CCCCCCeecCCCCCCCCCeEEecCC--C--Chhh-HHHHHHHhhHHHHH
Confidence 3446678998875 45677755421 1 3344 45689999997643
No 58
>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=69.17 E-value=2.6 Score=35.03 Aligned_cols=42 Identities=21% Similarity=0.126 Sum_probs=21.0
Q ss_pred eCCCCcEEEEeccCCCcEEEECHHHHhhCCH-HHHHHHHHHHHHHHHc
Q 024810 147 QSPVPNAYTLAISGKKPFVVVHTSLVELLTR-KELQAVLAHELGHLKC 193 (262)
Q Consensus 147 ~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~-dEL~aVlaHElgHi~~ 193 (262)
.....|||=-| . .++..+|--..+.+ -.=.=|+|||++|-.-
T Consensus 106 g~~~~NAfW~g---~--~m~yGdG~~~~f~~~~~~lDVvaHEltHGVt 148 (150)
T PF01447_consen 106 GKNYNNAFWNG---S--QMVYGDGDGQIFKPFASSLDVVAHELTHGVT 148 (150)
T ss_dssp SSSTT-EEE-S---S--SEEEE---SSSBS-GGG-HHHHHHHHHHHHH
T ss_pred CCCccCccccC---C--EEEEECCCCcccccCccccceeeeccccccc
Confidence 34578999433 2 47777664322221 1112399999999653
No 59
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=69.07 E-value=2.7 Score=32.77 Aligned_cols=12 Identities=42% Similarity=0.625 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHH
Q 024810 181 QAVLAHELGHLK 192 (262)
Q Consensus 181 ~aVlaHElgHi~ 192 (262)
..+++||+||..
T Consensus 108 ~~~~~HEiGH~l 119 (124)
T PF13582_consen 108 VDTFAHEIGHNL 119 (124)
T ss_dssp TTHHHHHHHHHT
T ss_pred ceEeeehhhHhc
Confidence 389999999975
No 60
>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=68.73 E-value=3.3 Score=35.41 Aligned_cols=36 Identities=25% Similarity=0.301 Sum_probs=25.3
Q ss_pred CCcEEEECHHHHhh--CC--------HHHHHHHHHHHHHHHHccch
Q 024810 161 KKPFVVVHTSLVEL--LT--------RKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 161 ~~~~Ivi~~~Ll~~--L~--------~dEL~aVlaHElgHi~~~H~ 196 (262)
....|+|+.++++. .+ -.-|-+|||||+.|.--.+.
T Consensus 7 ~~N~i~ip~~~l~~P~f~~~~p~~~~yg~lG~ilahel~hafd~~g 52 (206)
T PF01431_consen 7 RFNSIVIPAGILQPPFFDPNYPPALNYGGLGFILAHELMHAFDPEG 52 (206)
T ss_dssp TTTEEEEEGGGSSTTT--TTS-HHHHHHTHHHHHHHHHHHCTSTTG
T ss_pred ccCEEEecHHHhCCccCCCCCCHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 45578888887763 11 13588999999999886544
No 61
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=68.30 E-value=14 Score=34.31 Aligned_cols=67 Identities=15% Similarity=0.169 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHcCCCC--CcEEEEeCCC--CcEEEEeccCCCcEEEECHHHH-hh--C----CHHHHHHHHHHHHHHHHc
Q 024810 125 LHQLMTEAAEILNLEA--PDLYVRQSPV--PNAYTLAISGKKPFVVVHTSLV-EL--L----TRKELQAVLAHELGHLKC 193 (262)
Q Consensus 125 L~~~v~~l~~~lgi~~--p~vyv~~~~~--~NAfa~G~~~~~~~Ivi~~~Ll-~~--L----~~dEL~aVlaHElgHi~~ 193 (262)
..+.++-+.+..|++- +++-++.-|. .++.. .-..|.+....+ .. . ...++..++|||++|.--
T Consensus 234 ~~~~l~~~~~~~g~~yp~~k~~~v~~p~~~~~~me-----~~g~i~~~~~~l~~~~~~~~~~~~~~~~~~iahElahqWf 308 (390)
T PF01433_consen 234 APKALEYYEEYFGIPYPFKKLDIVAVPDFPFGGME-----NWGLITYRESYLLYDPDISTIGDKQEIASLIAHELAHQWF 308 (390)
T ss_dssp HHHHHHHHHHHHTS--SSSEEEEEEEST-SSSEE-------TTEEEEEGGGTS-STTTS-HHHHHHHHHHHHHHHHTTTB
T ss_pred hHHHHHHHHhhccccceecceeEEEEecccccccc-----ccccccccccccccCcccccchhhhhhHHHHHHHHHHHHh
Confidence 3444445556678663 4444443333 33332 223566665543 11 1 135799999999999987
Q ss_pred cch
Q 024810 194 DHG 196 (262)
Q Consensus 194 ~H~ 196 (262)
|+.
T Consensus 309 Gn~ 311 (390)
T PF01433_consen 309 GNL 311 (390)
T ss_dssp TTT
T ss_pred ccC
Confidence 764
No 62
>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=67.48 E-value=4 Score=34.62 Aligned_cols=16 Identities=38% Similarity=0.441 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
......++|||+||..
T Consensus 128 ~~~~a~~~AHElGH~l 143 (194)
T cd04269 128 LLLFAVTMAHELGHNL 143 (194)
T ss_pred hHHHHHHHHHHHHhhc
Confidence 4577899999999998
No 63
>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=67.34 E-value=4.3 Score=39.22 Aligned_cols=45 Identities=20% Similarity=0.399 Sum_probs=26.3
Q ss_pred CCCCcEEEEeccCC-------CcEEEECHHHHh-------hCCHHHHHHHHHHHHHHHHc
Q 024810 148 SPVPNAYTLAISGK-------KPFVVVHTSLVE-------LLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 148 ~~~~NAfa~G~~~~-------~~~Ivi~~~Ll~-------~L~~dEL~aVlaHElgHi~~ 193 (262)
+....||+.++.+. .|..+|...+-. .|+-+++ ..|+||+||..|
T Consensus 197 gK~~ga~~~~~~~~~~~~~~~~~~~~i~~n~~~~~~~~~~ll~~~~v-~tLfHE~GHa~H 255 (458)
T PF01432_consen 197 GKRSGAFCFTLRPSRSDGERQLPVPYIFCNFTGPSAGKPSLLSHDDV-ETLFHEFGHAMH 255 (458)
T ss_dssp TS-SS-EEEEEEC-BTTSTCECEEEEEEEEE-S-BTTC--B-SHHHH-HHHHHHHHHHHH
T ss_pred CCCCCceeCCccCccccccCCCCceEEEecCCCCCCCCCCccChhhH-HHHHHHHhHHHH
Confidence 34577888887553 144444433333 3477788 678999999985
No 64
>TIGR02414 pepN_proteo aminopeptidase N, Escherichia coli type. The M1 family of zinc metallopeptidases contains a number of distinct, well-separated clades of proteins with aminopeptidase activity. Several are designated aminopeptidase N, EC 3.4.11.2, after the Escherichia coli enzyme, suggesting a similar activity profile. This family consists of all aminopeptidases closely related to E. coli PepN and presumed to have similar (not identical) function. Nearly all are found in Proteobacteria, but members are found also in Cyanobacteria, plants, and apicomplexan parasites. This family differs greatly in sequence from the family of aminopeptidases typified by Streptomyces lividans PepN (TIGR02412), from the membrane bound aminopeptidase N family in animals, etc.
Probab=65.19 E-value=9.1 Score=40.50 Aligned_cols=19 Identities=26% Similarity=0.344 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHccch
Q 024810 178 KELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 178 dEL~aVlaHElgHi~~~H~ 196 (262)
+.+..|++||++|-=.|+.
T Consensus 281 ~~i~~VIaHElaHqWfGNl 299 (863)
T TIGR02414 281 ERIESVIAHEYFHNWTGNR 299 (863)
T ss_pred HHHHHHHHHHHHHHHhcce
Confidence 3478999999999887764
No 65
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=65.09 E-value=4.6 Score=36.94 Aligned_cols=34 Identities=21% Similarity=0.342 Sum_probs=26.3
Q ss_pred ECHHHHhhC---CHHHHHHHHHHHHHHHH---ccchHHHH
Q 024810 167 VHTSLVELL---TRKELQAVLAHELGHLK---CDHGVWLT 200 (262)
Q Consensus 167 i~~~Ll~~L---~~dEL~aVlaHElgHi~---~~H~~~~~ 200 (262)
+.++|++.+ ++.+|+..|=||++|.+ ++|...+-
T Consensus 181 FdDPlLstmlr~dd~~lA~LIFHELAHQk~Y~~~DtAFNE 220 (376)
T COG4324 181 FDDPLLSTMLRQDDTYLASLIFHELAHQKIYVNNDTAFNE 220 (376)
T ss_pred cccHHHHHHhcCChHHHHHHHHHHHhhheEeecCcchHhH
Confidence 445677654 88999999999999987 57776553
No 66
>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=64.94 E-value=3.5 Score=34.73 Aligned_cols=14 Identities=43% Similarity=0.437 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHc
Q 024810 180 LQAVLAHELGHLKC 193 (262)
Q Consensus 180 L~aVlaHElgHi~~ 193 (262)
-.-++|||+||..-
T Consensus 111 ~~~~~aHElGH~lG 124 (173)
T PF13574_consen 111 GIDTFAHELGHQLG 124 (173)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred eeeeehhhhHhhcC
Confidence 34459999999873
No 67
>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=64.76 E-value=5.8 Score=36.98 Aligned_cols=46 Identities=17% Similarity=0.309 Sum_probs=30.6
Q ss_pred CCCCcEEEEeccC----CCcEEEECHHHHhh-------CCHHHHHHHHHHHHHHHHcc
Q 024810 148 SPVPNAYTLAISG----KKPFVVVHTSLVEL-------LTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 148 ~~~~NAfa~G~~~----~~~~Ivi~~~Ll~~-------L~~dEL~aVlaHElgHi~~~ 194 (262)
+....|+++++.+ ..|.+.|....-.. ++-+++.+ +.||+||..+.
T Consensus 112 gK~~~a~~~~~~~~~~~~~~~~~i~~n~~~~~~~~~~ll~~~~v~t-l~HE~GHa~h~ 168 (365)
T cd06258 112 GKYPHGFCTGLDPGFNRQDKDVRILANFTSPAAPDPVLLGHDDINT-LFHEFGHAVHF 168 (365)
T ss_pred CCCCCCeeccccCCCCCCCCeEEEEccCCCCCCCCCCcCCHHHHHH-HHHHHhHHHHH
Confidence 4456889888642 24666666655442 46677754 78999999964
No 68
>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=63.57 E-value=5.1 Score=39.16 Aligned_cols=45 Identities=20% Similarity=0.332 Sum_probs=26.2
Q ss_pred CCCcEEEEeccCCC---------cEEEECHHHHh-------hCCHHHHHHHHHHHHHHHHcc
Q 024810 149 PVPNAYTLAISGKK---------PFVVVHTSLVE-------LLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 149 ~~~NAfa~G~~~~~---------~~Ivi~~~Ll~-------~L~~dEL~aVlaHElgHi~~~ 194 (262)
....|++.++.+.+ |.++|-..+-. .|+-+++ ..|+||+||..|.
T Consensus 217 K~~Ga~~~~~~~~~~~~~g~~~~P~~~i~~Nf~~~~~~~p~ll~~~~V-~TLfHEfGHalH~ 277 (472)
T cd06455 217 KYGHAANFGLQPGFLLPDGSRQYPVAALVCNFPKPTADKPSLLRHDEV-ETFFHEFGHVIHH 277 (472)
T ss_pred CCCCccccccccceecCCCCEeCCEEEEECcCCCCCCCCCCCCCHHHH-HHHHHHHHHHHHH
Confidence 35678887764443 43344222211 2345676 4589999999963
No 69
>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=62.70 E-value=6.5 Score=33.48 Aligned_cols=18 Identities=33% Similarity=0.514 Sum_probs=15.3
Q ss_pred CCHHHHHHHHHHHHHHHH
Q 024810 175 LTRKELQAVLAHELGHLK 192 (262)
Q Consensus 175 L~~dEL~aVlaHElgHi~ 192 (262)
-+......++|||+||..
T Consensus 126 ~~~~~~a~~~AHelGH~l 143 (199)
T PF01421_consen 126 RSGLSFAVIIAHELGHNL 143 (199)
T ss_dssp SSHHHHHHHHHHHHHHHT
T ss_pred chhHHHHHHHHHHHHHhc
Confidence 356788999999999986
No 70
>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=62.32 E-value=3.8 Score=33.63 Aligned_cols=20 Identities=40% Similarity=0.586 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHc-cch
Q 024810 177 RKELQAVLAHELGHLKC-DHG 196 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~~-~H~ 196 (262)
...+..|+.||+||..- +|.
T Consensus 104 ~~~~~~~~~HEiGHaLGL~H~ 124 (157)
T cd04278 104 GTDLFSVAAHEIGHALGLGHS 124 (157)
T ss_pred cchHHHHHHHHhccccccCCC
Confidence 35699999999999873 444
No 71
>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=61.89 E-value=3.3 Score=35.01 Aligned_cols=16 Identities=38% Similarity=0.387 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
.-+...++|||+||..
T Consensus 130 ~~~~~~~~aHElGH~l 145 (192)
T cd04267 130 TLLTALTMAHELGHNL 145 (192)
T ss_pred ceeehhhhhhhHHhhc
Confidence 3567889999999998
No 72
>cd06456 M3A_DCP_Oligopeptidase_A Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and proteins, the smallest substrate being N-blocked tripeptides and unblocked tetrapeptides. DCP from E. coli is inhibited by the anti-hypertensive drug captopril, an inhibitor of the mammalian angiotensin converting enzyme (ACE, also called peptidyl dipeptidase A). Oligopeptidase A (OpdA) may play a specific role in the degradation of signal peptides after they are released from precursor forms of secreted proteins. It can also cleave N-acetyl-L-Ala.
Probab=60.01 E-value=8.1 Score=37.36 Aligned_cols=44 Identities=27% Similarity=0.429 Sum_probs=27.9
Q ss_pred CCcEEEEeccCC-------CcEEEECHHHHh-------hCCHHHHHHHHHHHHHHHHcc
Q 024810 150 VPNAYTLAISGK-------KPFVVVHTSLVE-------LLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 150 ~~NAfa~G~~~~-------~~~Ivi~~~Ll~-------~L~~dEL~aVlaHElgHi~~~ 194 (262)
..+|++.++.+. .|.+++.-.+-. .|+-+|+.. |.||+||..|.
T Consensus 165 ~~ga~~~~~~~~~~~~~~~~P~~~l~~nf~~~~~~~p~lL~~~~v~t-LfHEfGHalH~ 222 (422)
T cd06456 165 RGGAWMNNLRSQSKNGLGQKPVAYLVCNFTKPAGGKPALLTHDEVTT-LFHEFGHALHH 222 (422)
T ss_pred CCCceeecccccccCCCCCCCEEEEECCCCCCCCCCCCccCHHHHHH-HHHHHHHHHHH
Confidence 356777766432 376666443322 346777764 78999999964
No 73
>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=59.79 E-value=3.1 Score=36.82 Aligned_cols=11 Identities=55% Similarity=0.848 Sum_probs=10.3
Q ss_pred HHHHHHHHHHH
Q 024810 182 AVLAHELGHLK 192 (262)
Q Consensus 182 aVlaHElgHi~ 192 (262)
.++|||+||..
T Consensus 147 ~t~AHElGHnL 157 (228)
T cd04271 147 QVFAHEIGHTF 157 (228)
T ss_pred eehhhhhhhhc
Confidence 69999999988
No 74
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=59.22 E-value=5.4 Score=37.55 Aligned_cols=33 Identities=21% Similarity=0.324 Sum_probs=25.6
Q ss_pred CHHHHhhC---CHHHHHHHHHHHHHHHH---ccchHHHH
Q 024810 168 HTSLVELL---TRKELQAVLAHELGHLK---CDHGVWLT 200 (262)
Q Consensus 168 ~~~Ll~~L---~~dEL~aVlaHElgHi~---~~H~~~~~ 200 (262)
.+++++.+ ++.||+.+|=|||+|-. .+|+..|=
T Consensus 150 ~DPlLSt~l~~~~~~LA~LIfHELaHq~~Yv~~dt~FNE 188 (337)
T PF10023_consen 150 DDPLLSTMLRYPDGELARLIFHELAHQTLYVKGDTAFNE 188 (337)
T ss_pred CCcccccccCCCchHHHHHHHHHHhhceeecCCCchhhH
Confidence 45666654 78999999999999965 57776653
No 75
>KOG3314 consensus Ku70-binding protein [Replication, recombination and repair]
Probab=58.24 E-value=27 Score=29.68 Aligned_cols=67 Identities=16% Similarity=0.165 Sum_probs=36.4
Q ss_pred HHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHccch
Q 024810 127 QLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 127 ~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H~ 196 (262)
..+.+.-+++|....+-++.-.+-....+-|+.+++. |++-..-+ -+.+++.-|+.|||-|.--.+-
T Consensus 41 kfl~~am~k~~c~~~d~~isc~~C~~~~~GGy~~~~g-IvlCqN~l--~~q~h~n~vv~HElIH~fDd~r 107 (194)
T KOG3314|consen 41 KFLMEAMEKSGCRVGDNFISCVVCTGPVAGGYTPGRG-IVLCQNRL--TIQDHVNQVVIHELIHAFDDCR 107 (194)
T ss_pred HHHHHHHHHcCCCccCCceEEeeCCCCccCCccCCCc-eEEecccc--chHHHHHHHHHHHHHHHHHhhh
Confidence 3344445566765332233221111112223333444 66665533 2789999999999999985443
No 76
>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=58.22 E-value=5.8 Score=32.97 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=14.6
Q ss_pred CHHHHHHHHHHHHHHHHc-cchH
Q 024810 176 TRKELQAVLAHELGHLKC-DHGV 197 (262)
Q Consensus 176 ~~dEL~aVlaHElgHi~~-~H~~ 197 (262)
+.....-++.||+||+.. .|+.
T Consensus 65 ~~~~~g~TltHEvGH~LGL~HtF 87 (154)
T PF05572_consen 65 SQYNFGKTLTHEVGHWLGLYHTF 87 (154)
T ss_dssp TTS-SSHHHHHHHHHHTT---TT
T ss_pred Cccccccchhhhhhhhhcccccc
Confidence 344567899999999983 4544
No 77
>TIGR02412 pepN_strep_liv aminopeptidase N, Streptomyces lividans type. This family is a subset of the members of the zinc metallopeptidase family M1 (pfam01433), with a single member characterized in Streptomyces lividans 66 and designated aminopeptidase N. The spectrum of activity may differ somewhat from the aminopeptidase N clade of E. coli and most other Proteobacteria, well separated phylogenetically within the M1 family. The M1 family also includes leukotriene A-4 hydrolase/aminopeptidase (with a bifunctional active site).
Probab=58.07 E-value=20 Score=37.73 Aligned_cols=66 Identities=15% Similarity=0.105 Sum_probs=35.9
Q ss_pred HHHHHHHHcCCCCC--cEEEEeCCCCcEEEEeccCCCcEEEECHHHHhh--CC---HHHHHHHHHHHHHHHHccch
Q 024810 128 LMTEAAEILNLEAP--DLYVRQSPVPNAYTLAISGKKPFVVVHTSLVEL--LT---RKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 128 ~v~~l~~~lgi~~p--~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~--L~---~dEL~aVlaHElgHi~~~H~ 196 (262)
.++-+-+..|+|-| +.-++--|..++-+ + .+-..|.+...++.. .+ .+.+..|++||++|-=-|+.
T Consensus 231 ~l~~~e~~fg~pYP~~k~d~V~vP~f~~Ga--M-En~Glit~~e~~l~~~~~~~~~~~~~~~viaHElAHqWFGnl 303 (831)
T TIGR02412 231 GLAFFHRKFGYPYPFKKYDQIFVPEFNAGA--M-ENAGCVTFAENFLHRAEATRAEKENRAGVILHEMAHMWFGDL 303 (831)
T ss_pred HHHHHHHHhCCCCCcccCCEEEcCCCCCCc--c-cccceeeechhhccCCcCCHHHHHHHHHHHHHHHHHHHhCCE
Confidence 34445556787643 33333334333221 1 122366666665421 12 23577899999999887764
No 78
>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=57.81 E-value=4.7 Score=32.88 Aligned_cols=16 Identities=50% Similarity=0.623 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
..+...+++||+||..
T Consensus 93 ~~~~~~~~~HElGH~L 108 (167)
T cd00203 93 TKEGAQTIAHELGHAL 108 (167)
T ss_pred cccchhhHHHHHHHHh
Confidence 4578999999999998
No 79
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=57.54 E-value=6.2 Score=34.33 Aligned_cols=14 Identities=36% Similarity=0.349 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHH
Q 024810 179 ELQAVLAHELGHLK 192 (262)
Q Consensus 179 EL~aVlaHElgHi~ 192 (262)
.-..++|||+||..
T Consensus 144 ~~~~~~AHElGH~l 157 (220)
T cd04272 144 YGVYTMTHELAHLL 157 (220)
T ss_pred ccHHHHHHHHHHHh
Confidence 45899999999988
No 80
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=55.21 E-value=6.3 Score=34.22 Aligned_cols=15 Identities=40% Similarity=0.620 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHc-cch
Q 024810 182 AVLAHELGHLKC-DHG 196 (262)
Q Consensus 182 aVlaHElgHi~~-~H~ 196 (262)
.+++||+||... +|.
T Consensus 139 ~~~aHEiGH~lGl~H~ 154 (206)
T PF13583_consen 139 QTFAHEIGHNLGLRHD 154 (206)
T ss_pred hHHHHHHHHHhcCCCC
Confidence 459999999883 444
No 81
>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=54.67 E-value=6.2 Score=39.47 Aligned_cols=33 Identities=27% Similarity=0.482 Sum_probs=24.4
Q ss_pred CCcEE-EECHHHHhhCCHHHHHHHHHHHHHHHHccc
Q 024810 161 KKPFV-VVHTSLVELLTRKELQAVLAHELGHLKCDH 195 (262)
Q Consensus 161 ~~~~I-vi~~~Ll~~L~~dEL~aVlaHElgHi~~~H 195 (262)
.+|.+ .++..|+. .+.-+.-|||||++|--.|-
T Consensus 270 ENPcltF~TpTlla--GDrsl~~vIaHEIAHSWtGN 303 (613)
T KOG1047|consen 270 ENPCLTFVTPTLLA--GDRSLVDVIAHEIAHSWTGN 303 (613)
T ss_pred cCcceeeecchhhc--CCcchhhHHHHHhhhhhccc
Confidence 66766 45555553 67778999999999977654
No 82
>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=54.12 E-value=12 Score=32.58 Aligned_cols=30 Identities=27% Similarity=0.376 Sum_probs=23.1
Q ss_pred cEEEECHHHHhhCC-------HHHHHHHHHHHHHHHH
Q 024810 163 PFVVVHTSLVELLT-------RKELQAVLAHELGHLK 192 (262)
Q Consensus 163 ~~Ivi~~~Ll~~L~-------~dEL~aVlaHElgHi~ 192 (262)
..|.+..+.+.... .+-++.+++||+||..
T Consensus 92 a~V~l~~~~~~~~~~~~~~~~~~~~~~~~~he~gh~l 128 (197)
T cd04276 92 ADVILYSGFLRQDQLWYEDLLAASLRYLLAHEVGHTL 128 (197)
T ss_pred EEEEeCchhhccchhHHHHHHHHHHHHHHHHHHHHHh
Confidence 46788888876532 2458999999999987
No 83
>KOG3624 consensus M13 family peptidase [Amino acid transport and metabolism]
Probab=52.97 E-value=10 Score=38.85 Aligned_cols=50 Identities=28% Similarity=0.335 Sum_probs=34.0
Q ss_pred EEEeCCCCcEEEEeccCCCcEEEECHHHHhh----------CCHHHHHHHHHHHHHHHHccch
Q 024810 144 YVRQSPVPNAYTLAISGKKPFVVVHTSLVEL----------LTRKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 144 yv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~----------L~~dEL~aVlaHElgHi~~~H~ 196 (262)
++......|||-.. .+..|+++.++++. ++-.-+-+|||||++|---.++
T Consensus 475 ~~~~~~~~na~Y~~---~~N~i~~pa~ilq~P~f~~~~P~~~nyg~iG~vigHEl~H~FD~~G 534 (687)
T KOG3624|consen 475 WVGSPAQVNAFYSP---EKNEIVFPAGLLQPPFFDLSYPDYLNYGGIGFVIGHELTHGFDDQG 534 (687)
T ss_pred cccccceeeccccC---CCceEEEehhcccCCCCCcccchhhhhHHHHHHHHHHHhhcccccc
Confidence 33334467776542 45678999998874 3445688999999999764443
No 84
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=52.52 E-value=45 Score=24.58 Aligned_cols=54 Identities=24% Similarity=0.255 Sum_probs=30.9
Q ss_pred CcHHHHHHH----HHHHHHcCCCCC---cEEEEeCCCCcE-EEEeccCCCcEEEECHHHHhhCCHHHHHHHHH
Q 024810 121 QLPELHQLM----TEAAEILNLEAP---DLYVRQSPVPNA-YTLAISGKKPFVVVHTSLVELLTRKELQAVLA 185 (262)
Q Consensus 121 ~~p~L~~~v----~~l~~~lgi~~p---~vyv~~~~~~NA-fa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVla 185 (262)
.+|+..+.+ ...++.+|+..| ++.|+++..-+- ++.+ .+|- + .+|++||.+|-|
T Consensus 15 ~Dp~Fr~~Ll~DPraaL~e~G~~~P~~~~i~VvE~t~~~~~lVlP---~~P~-----~---~lse~~L~~vag 76 (77)
T TIGR03793 15 EDEAFKQALLTNPKEALEREGVQVPAEVEVKVVEESPTVLYLVLP---VNPD-----I---ELTDEQLDAVAG 76 (77)
T ss_pred cCHHHHHHHHHCHHHHHHHhCCCCCCceEEEEEEcCCCeEEEEec---CCCC-----C---CCCHHHHHHhhC
Confidence 355555544 456667798755 566666543222 2222 2222 2 799999999854
No 85
>PRK14015 pepN aminopeptidase N; Provisional
Probab=51.06 E-value=21 Score=37.89 Aligned_cols=19 Identities=32% Similarity=0.382 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHccchH
Q 024810 179 ELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 179 EL~aVlaHElgHi~~~H~~ 197 (262)
.+..|++||++|-=.|+..
T Consensus 295 ~i~~vIaHElaHqWFGNlV 313 (875)
T PRK14015 295 RIESVIAHEYFHNWTGNRV 313 (875)
T ss_pred HHHHHHHHHHHHHHHhCcc
Confidence 4889999999998877653
No 86
>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=50.84 E-value=8.3 Score=30.76 Aligned_cols=12 Identities=58% Similarity=0.778 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHH
Q 024810 181 QAVLAHELGHLK 192 (262)
Q Consensus 181 ~aVlaHElgHi~ 192 (262)
.+|+.||+||..
T Consensus 87 ~~~~~HEigHaL 98 (140)
T smart00235 87 TGVAAHELGHAL 98 (140)
T ss_pred cccHHHHHHHHh
Confidence 359999999987
No 87
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=48.91 E-value=9.6 Score=38.58 Aligned_cols=34 Identities=24% Similarity=0.331 Sum_probs=21.6
Q ss_pred CCcEEE-ECHHHHhhCCHHHHHHHHHHHHHHHHccch
Q 024810 161 KKPFVV-VHTSLVELLTRKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 161 ~~~~Iv-i~~~Ll~~L~~dEL~aVlaHElgHi~~~H~ 196 (262)
.++.+. .+..++. .+.+...|+|||++|-=-|+.
T Consensus 261 EN~~ltf~~~~ll~--~d~s~~~viaHElAHqWfGNl 295 (601)
T TIGR02411 261 ENPNLTFATPTLIA--GDRSNVDVIAHELAHSWSGNL 295 (601)
T ss_pred ccccceeecccccc--CChhhhhhHHHHHHhhccCce
Confidence 344443 3344432 345567899999999887754
No 88
>KOG1046 consensus Puromycin-sensitive aminopeptidase and related aminopeptidases [Amino acid transport and metabolism; Posttranslational modification, protein turnover, chaperones]
Probab=46.98 E-value=42 Score=35.69 Aligned_cols=20 Identities=30% Similarity=0.433 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHccch
Q 024810 177 RKELQAVLAHELGHLKCDHG 196 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~~~H~ 196 (262)
...++-|+|||++|-=-|..
T Consensus 321 k~~va~vIaHElAHQWFGNL 340 (882)
T KOG1046|consen 321 KQRVAEVIAHELAHQWFGNL 340 (882)
T ss_pred HHHHHHHHHHHHHHHHhcCc
Confidence 45699999999999887754
No 89
>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=46.69 E-value=15 Score=31.47 Aligned_cols=16 Identities=38% Similarity=0.573 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHc
Q 024810 178 KELQAVLAHELGHLKC 193 (262)
Q Consensus 178 dEL~aVlaHElgHi~~ 193 (262)
.+..+++.||+||..-
T Consensus 90 ~~~~~~i~HElgHaLG 105 (198)
T cd04327 90 PEFSRVVLHEFGHALG 105 (198)
T ss_pred hhHHHHHHHHHHHHhc
Confidence 4667899999999983
No 90
>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=45.77 E-value=14 Score=31.07 Aligned_cols=35 Identities=17% Similarity=0.069 Sum_probs=23.2
Q ss_pred cEEEECHHHHhhC--CHHHHHHHHHHHHHHHHc-cchH
Q 024810 163 PFVVVHTSLVELL--TRKELQAVLAHELGHLKC-DHGV 197 (262)
Q Consensus 163 ~~Ivi~~~Ll~~L--~~dEL~aVlaHElgHi~~-~H~~ 197 (262)
..|.+........ .......++.||+||..- +|+.
T Consensus 94 g~i~~~~~~~~~~~~~g~~~~~t~~HEiGHaLGL~H~~ 131 (186)
T cd04277 94 GDIWFNSSYDTNSDSPGSYGYQTIIHEIGHALGLEHPG 131 (186)
T ss_pred ceeEEecCcccccCCCChhhHHHHHHHHHHHhcCCCCC
Confidence 4566665544322 246689999999999983 5553
No 91
>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=45.33 E-value=15 Score=30.92 Aligned_cols=14 Identities=43% Similarity=0.721 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHc
Q 024810 180 LQAVLAHELGHLKC 193 (262)
Q Consensus 180 L~aVlaHElgHi~~ 193 (262)
+-+++.||+||...
T Consensus 7 ~i~i~~HE~gH~~~ 20 (192)
T PF02163_consen 7 LISIVLHELGHALA 20 (192)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cccccccccccccc
Confidence 35789999999873
No 92
>TIGR02421 QEGLA conserved hypothetical protein. Members of this family include a possible metal-binding motif HEXXXH and, nearby, a perfectly conserved motif QEGLA. All members belong to the Proteobacteria, including Agrobacterium tumefaciens and several species of Vibrio and Pseudomonas, and are found in only one copy per chromosome (Vibrio vulnificus, with two chromosomes, has two). The function is unknown.
Probab=41.15 E-value=47 Score=31.73 Aligned_cols=61 Identities=15% Similarity=0.247 Sum_probs=42.0
Q ss_pred cHHHHHHHHHHHHHcCCCC-CcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHH
Q 024810 122 LPELHQLMTEAAEILNLEA-PDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELG 189 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi~~-p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElg 189 (262)
..+..+.+++.++..+... ..|-+.++-..+|.+.| + .|.|+++- .+++.++.+.+-||+|
T Consensus 136 A~~a~~~~~~~~~~y~~~~~~~V~~sd~l~a~a~v~~---~--~l~i~~~a--~fs~~~l~~L~~HEig 197 (366)
T TIGR02421 136 ATEAAEILQQRLEDYFGEETIRVTLSDDLPAGAMVSG---D--KLKLNSDA--MFSERDLEALIHHEIG 197 (366)
T ss_pred HHHHHHHHHHHHHHhCCCCceEEEECcchhHHHhccC---C--eEEECCCC--CcCHHHHHHHHHHhHH
Confidence 3467778888888777652 23333333345676643 2 68888873 4799999999999998
No 93
>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=40.80 E-value=5.1 Score=34.51 Aligned_cols=13 Identities=46% Similarity=0.680 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
...++|||+||..
T Consensus 140 ~a~~~aHElGH~L 152 (207)
T cd04273 140 SAFTIAHELGHVL 152 (207)
T ss_pred eEEeeeeechhhc
Confidence 5789999999987
No 94
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=40.53 E-value=16 Score=33.97 Aligned_cols=19 Identities=32% Similarity=0.361 Sum_probs=15.5
Q ss_pred CCHHHHHHHHHHHHHHHHc
Q 024810 175 LTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 175 L~~dEL~aVlaHElgHi~~ 193 (262)
+.+-++-+.++||+||.+.
T Consensus 191 ~p~~~~P~T~~HElAHq~G 209 (318)
T PF12725_consen 191 LPPYSLPFTICHELAHQLG 209 (318)
T ss_pred CCcccccHHHHHHHHHHhC
Confidence 3455789999999999983
No 95
>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=39.39 E-value=20 Score=29.84 Aligned_cols=12 Identities=50% Similarity=0.675 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHH
Q 024810 181 QAVLAHELGHLK 192 (262)
Q Consensus 181 ~aVlaHElgHi~ 192 (262)
-.|+.||+||..
T Consensus 9 i~i~iHE~gH~~ 20 (180)
T cd05709 9 ISVTVHELGHAL 20 (180)
T ss_pred HHHHHHHHHHHH
Confidence 468999999987
No 96
>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=39.13 E-value=18 Score=30.88 Aligned_cols=11 Identities=45% Similarity=0.911 Sum_probs=9.5
Q ss_pred HHHHHHHHHHH
Q 024810 182 AVLAHELGHLK 192 (262)
Q Consensus 182 aVlaHElgHi~ 192 (262)
.|+-||+||+.
T Consensus 11 ~v~iHElGH~~ 21 (182)
T cd06163 11 LIFVHELGHFL 21 (182)
T ss_pred HHHHHHHHHHH
Confidence 57899999986
No 97
>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=38.42 E-value=21 Score=30.90 Aligned_cols=13 Identities=54% Similarity=0.784 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
+-.|+.||+||..
T Consensus 38 ~~~v~iHElgH~~ 50 (208)
T cd06161 38 FLSVLLHELGHAL 50 (208)
T ss_pred HHHHHHHHHHHHH
Confidence 5689999999986
No 98
>PF08014 DUF1704: Domain of unknown function (DUF1704); InterPro: IPR012548 This family contains many hypothetical proteins.
Probab=37.28 E-value=63 Score=30.59 Aligned_cols=66 Identities=18% Similarity=0.260 Sum_probs=41.9
Q ss_pred cHHHHHHHHHHHHHcCC-C--CCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHH-HHHcc
Q 024810 122 LPELHQLMTEAAEILNL-E--APDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELG-HLKCD 194 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi-~--~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElg-Hi~~~ 194 (262)
..+....+++.+++..- . ...|-+.++-..+|.+.+ + .|.|+.+. .+++.++.+.+-||+| |+...
T Consensus 111 a~~~~~~~~~~~~~y~~~~~~~~~V~~sddl~a~A~v~~---~--~l~I~~~~--~fs~~~l~~L~~HEigvH~lt~ 180 (349)
T PF08014_consen 111 AEEAVSRLQERLKKYFGKEGFEVKVELSDDLLARAMVSG---D--RLKINKNA--MFSERDLEALLHHEIGVHLLTT 180 (349)
T ss_pred HHHHHHHHHHHHHHHhcccCceEEEEEcCCcchhhcccC---C--eeEEcCCC--CcCHHHHHHHHHHhhhhhhccc
Confidence 34566677776666521 1 223444444456776643 2 38888862 3699999999999994 76643
No 99
>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen
Probab=35.72 E-value=38 Score=24.30 Aligned_cols=52 Identities=19% Similarity=0.165 Sum_probs=35.7
Q ss_pred HHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHH
Q 024810 127 QLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLA 185 (262)
Q Consensus 127 ~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVla 185 (262)
+.++.+.+.++++ .+.+. .+++.|.....|.+.|+......++++.+..++.
T Consensus 19 ~l~~~l~~~L~~~--~v~l~-----~~~ClG~C~~gP~v~V~~~~~~~~t~~~i~~~~~ 70 (72)
T cd03082 19 ELLAALEAGLGPE--GVRVV-----RAPCVGRCERAPAALVGQRPVDGATPAAVAAAVE 70 (72)
T ss_pred HHHHHHHHHhCCC--eEEEE-----ecCcCCccCCCCeEEECCEEeCCcCHHHHHHHHh
Confidence 3444444555554 23332 3457787788899999999999999998887653
No 100
>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=35.52 E-value=25 Score=31.04 Aligned_cols=13 Identities=54% Similarity=0.797 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
.-.|+-||+||..
T Consensus 53 ~~~v~iHElgH~~ 65 (227)
T cd06164 53 FASVLLHELGHSL 65 (227)
T ss_pred HHHHHHHHHHHHH
Confidence 5678999999986
No 101
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=35.01 E-value=31 Score=32.95 Aligned_cols=30 Identities=20% Similarity=0.315 Sum_probs=22.8
Q ss_pred EEEECHHHHhhC---CHHHHHHHHHHHHHHHHc
Q 024810 164 FVVVHTSLVELL---TRKELQAVLAHELGHLKC 193 (262)
Q Consensus 164 ~Ivi~~~Ll~~L---~~dEL~aVlaHElgHi~~ 193 (262)
++++....+..- +.+...+.||||+-|..+
T Consensus 120 ~~YiD~~~~~~~~~~~~~~~~sTlAHEfQHmIn 152 (366)
T PF10460_consen 120 YFYIDSETLYLGGNSGPDTVYSTLAHEFQHMIN 152 (366)
T ss_pred EEEEecHHhhccCCccHHHHHHHHHHHHHHHHH
Confidence 667777666432 357899999999999984
No 102
>PF02074 Peptidase_M32: Carboxypeptidase Taq (M32) metallopeptidase; InterPro: IPR001333 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 M32 (carboxypeptidase Taq 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. Carboxypeptidase Taq is a zinc-containing thermostable metallopeptidase. It was originally discovered and purified from Thermus aquaticus; optimal enzymatic activity occurs at 80 celcius. Although very little is known about this enzyme, it is thought either to be associated with a membrane or to be particle bound.; GO: 0004181 metallocarboxypeptidase activity, 0006508 proteolysis; PDB: 1K9X_A 1KA4_A 1KA2_A 3DWC_A 1WGZ_A 3HQ2_A 3HOA_B.
Probab=34.94 E-value=1.3e+02 Score=29.83 Aligned_cols=65 Identities=18% Similarity=0.121 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHHcc
Q 024810 125 LHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 125 L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~ 194 (262)
-.+.-.++++.+|++...-.+-. ..-+|++|+++ .-|-|++..-+.--..-|.+ ..||.||-...
T Consensus 209 Q~~~~~~~~~~~G~d~~~grld~--s~HPFt~~~~~--~DvRiTTry~e~d~~~~l~s-~iHE~GHalYE 273 (494)
T PF02074_consen 209 QKAFSRELLEYLGFDFDRGRLDE--SAHPFTTGFGP--NDVRITTRYDEDDFLSALFS-TIHETGHALYE 273 (494)
T ss_dssp HHHHHHHHHHHHT--GCGEEEEE---SS-EEEEEET--TEEEEEE--BTTBTHHHHHH-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCccceEEec--CCCCCCCCCCC--CceeeecccccccHHHHHHH-HHHHHHHHHHH
Confidence 34556678888999866555533 34567777643 36888887665422333433 35999998754
No 103
>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=33.98 E-value=9.6 Score=34.79 Aligned_cols=12 Identities=58% Similarity=0.769 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHH
Q 024810 181 QAVLAHELGHLK 192 (262)
Q Consensus 181 ~aVlaHElgHi~ 192 (262)
-.|++||+||..
T Consensus 166 igv~~HE~gH~l 177 (286)
T TIGR03296 166 VGVIAHELGHDL 177 (286)
T ss_pred eeeeehhhhccc
Confidence 599999999965
No 104
>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=33.91 E-value=34 Score=30.09 Aligned_cols=20 Identities=40% Similarity=0.297 Sum_probs=16.7
Q ss_pred hCCHHHHHHHHHHHHHHHHc
Q 024810 174 LLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 174 ~L~~dEL~aVlaHElgHi~~ 193 (262)
.|+..-.-+|+|||+.|.-.
T Consensus 87 GLPrll~gsiLAHE~mHa~L 106 (212)
T PF12315_consen 87 GLPRLLTGSILAHELMHAWL 106 (212)
T ss_pred CCCHHHHhhHHHHHHHHHHh
Confidence 46777789999999999764
No 105
>PRK10911 oligopeptidase A; Provisional
Probab=33.85 E-value=29 Score=35.79 Aligned_cols=19 Identities=37% Similarity=0.485 Sum_probs=15.1
Q ss_pred CCHHHHHHHHHHHHHHHHcc
Q 024810 175 LTRKELQAVLAHELGHLKCD 194 (262)
Q Consensus 175 L~~dEL~aVlaHElgHi~~~ 194 (262)
|+-+|+. .|.||+||..|+
T Consensus 459 L~~~~v~-tlfHEfGHalH~ 477 (680)
T PRK10911 459 FTHDEVI-TLFHEFGHGLHH 477 (680)
T ss_pred cCHHHHH-HHHHHHhHHHHH
Confidence 4668886 678999999964
No 106
>PRK11767 SpoVR family protein; Provisional
Probab=33.71 E-value=52 Score=32.65 Aligned_cols=69 Identities=23% Similarity=0.251 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHcCCC-CC-cEEEEeCC-CCcEEE-------------------------EeccCCCcEEEECH-----H
Q 024810 124 ELHQLMTEAAEILNLE-AP-DLYVRQSP-VPNAYT-------------------------LAISGKKPFVVVHT-----S 170 (262)
Q Consensus 124 ~L~~~v~~l~~~lgi~-~p-~vyv~~~~-~~NAfa-------------------------~G~~~~~~~Ivi~~-----~ 170 (262)
+..+.++++|+.+|++ -| ++-|+... ...+++ .|..|.-.=|||++ -
T Consensus 19 ~~~~~I~~iA~~~GLD~yp~~~EIi~~eqml~~~as~GmP~rY~HWsfGk~y~~~~~~Y~~gl~glaYEiVINSnPciAy 98 (498)
T PRK11767 19 RYLDEIERVAKEYGLDTYPNQIEVITAEQMMDAYSSVGMPINYRHWSFGKHFIETEQLYRRGQMGLAYEIVINSNPCIAY 98 (498)
T ss_pred HHHHHHHHHHHHcCCCCCCceEEEECHHHHHHHHHhcCCCCCCCcccccHHHHHHHHHHhcCCCCCceEEEecCchHHHH
Confidence 3456667777778877 34 44455433 233332 23222213467765 4
Q ss_pred HHhhCCHHHHHHHHHH-HHHHHH
Q 024810 171 LVELLTRKELQAVLAH-ELGHLK 192 (262)
Q Consensus 171 Ll~~L~~dEL~aVlaH-ElgHi~ 192 (262)
|++.-+.-.-+-|||| ++||.-
T Consensus 99 Lme~Ntl~~q~LViAHv~yGHnd 121 (498)
T PRK11767 99 LMEENTMTMQALVIAHACYGHNS 121 (498)
T ss_pred HhccCcHHHHHHHHHHHHHhhhh
Confidence 5666677788999999 699963
No 107
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=33.63 E-value=39 Score=25.97 Aligned_cols=34 Identities=21% Similarity=0.201 Sum_probs=21.9
Q ss_pred CcEEEECHHHHhhC--CH----HHHHHHHHHHHHHHHccc
Q 024810 162 KPFVVVHTSLVELL--TR----KELQAVLAHELGHLKCDH 195 (262)
Q Consensus 162 ~~~Ivi~~~Ll~~L--~~----dEL~aVlaHElgHi~~~H 195 (262)
...|+|+..=+... ++ ++++-++-||+||+-.-+
T Consensus 49 p~rI~lyR~pl~~~~~~~~eL~~~I~~tlvhEiah~fG~~ 88 (97)
T PF06262_consen 49 PDRIVLYRRPLERRARSREELAELIRDTLVHEIAHHFGIS 88 (97)
T ss_dssp -EEEEEEHHHHHHT-SSHHHHHHHHHHHHHHHHHHHTT--
T ss_pred CCEEEEehHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCCC
Confidence 35677777655543 44 467788899999987543
No 108
>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=32.24 E-value=31 Score=29.48 Aligned_cols=14 Identities=36% Similarity=0.470 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHH
Q 024810 179 ELQAVLAHELGHLK 192 (262)
Q Consensus 179 EL~aVlaHElgHi~ 192 (262)
=+..+..||+||..
T Consensus 40 l~~~l~iHElgH~~ 53 (183)
T cd06160 40 LLAILGIHEMGHYL 53 (183)
T ss_pred HHHHHHHHHHHHHH
Confidence 35677899999986
No 109
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=31.95 E-value=31 Score=29.71 Aligned_cols=15 Identities=40% Similarity=0.547 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHH
Q 024810 178 KELQAVLAHELGHLK 192 (262)
Q Consensus 178 dEL~aVlaHElgHi~ 192 (262)
-.+-.++.||+||..
T Consensus 20 ~~~l~t~~HE~gHal 34 (200)
T PF13398_consen 20 FRLLVTFVHELGHAL 34 (200)
T ss_pred HHHHHHHHHHHHHHH
Confidence 356679999999987
No 110
>PF14521 Aspzincin_M35: Lysine-specific metallo-endopeptidase ; PDB: 2X3C_A 2X3A_A 2X3B_A 1GE7_B 1GE6_A 1GE5_A 1G12_A.
Probab=31.67 E-value=68 Score=26.26 Aligned_cols=29 Identities=14% Similarity=0.244 Sum_probs=21.8
Q ss_pred cEEEECHHHHhh--CCHHHHHHHHHHHHHHH
Q 024810 163 PFVVVHTSLVEL--LTRKELQAVLAHELGHL 191 (262)
Q Consensus 163 ~~Ivi~~~Ll~~--L~~dEL~aVlaHElgHi 191 (262)
..|.|-....+. -..+--..+|.||++|+
T Consensus 77 ~~IyLc~~F~~~p~~g~~Sk~~TLiHE~SHf 107 (148)
T PF14521_consen 77 YTIYLCPAFFSAPTTGKDSKEGTLIHEWSHF 107 (148)
T ss_dssp TEEEE-HHHHHS-SSSTT-HHHHHHHHHHHS
T ss_pred eEEEEChhhcCCCCCCCCchHHHHHHhhhhh
Confidence 489999999884 23467789999999993
No 111
>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=30.27 E-value=31 Score=31.33 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
.+....|+.||+||--
T Consensus 213 ~~~~~~v~vHE~GHsf 228 (264)
T PF09471_consen 213 NPSFKQVVVHEFGHSF 228 (264)
T ss_dssp STTHHHHHHHHHHHHT
T ss_pred cccccceeeeeccccc
Confidence 3378899999999954
No 112
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=30.07 E-value=1.8e+02 Score=22.03 Aligned_cols=68 Identities=13% Similarity=0.120 Sum_probs=46.6
Q ss_pred cHHHHHHHHHHHHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEEC--HH--HHhhCCHHHHHHHHHHHHHHHHccchH
Q 024810 122 LPELHQLMTEAAEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVH--TS--LVELLTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 122 ~p~L~~~v~~l~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~--~~--Ll~~L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
..++++.+++..++.|+ ++-+.... +.|++...|.|.|. .+ +....+++....++..-+.- ...|+.
T Consensus 16 A~~V~~al~~ei~~~gl---~v~v~~tG-----C~G~C~~ePlV~V~~p~g~v~Y~~V~~edv~~Iv~~~~~~-~~~h~~ 86 (92)
T cd03063 16 ADEVAEAIEAEAAARGL---AATIVRNG-----SRGMYWLEPLVEVETPGGRVAYGPVTPADVASLLDAGALE-GGEHPL 86 (92)
T ss_pred HHHHHHHHHHHHHHcCC---eEEEEEec-----CceecCCCCEEEEEeCCCcEEEEeCCHHHHHHHHHHHhhc-CCcCch
Confidence 45788888888888787 45555433 44666678999884 33 45668999999988765553 256776
Q ss_pred H
Q 024810 198 W 198 (262)
Q Consensus 198 ~ 198 (262)
+
T Consensus 87 ~ 87 (92)
T cd03063 87 C 87 (92)
T ss_pred h
Confidence 5
No 113
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=28.43 E-value=30 Score=27.96 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=19.8
Q ss_pred EEEECHH-HHhhCCH------HHHHHHHHHHHHHHH
Q 024810 164 FVVVHTS-LVELLTR------KELQAVLAHELGHLK 192 (262)
Q Consensus 164 ~Ivi~~~-Ll~~L~~------dEL~aVlaHElgHi~ 192 (262)
.|.++.. +++...+ |++.-|+-||+||.-
T Consensus 86 rItlYRrailDywae~eetlgd~vthvliHEIgHhF 121 (136)
T COG3824 86 RITLYRRALLDYWAENEETLGDQVTHVLIHEIGHHF 121 (136)
T ss_pred eeeeeHHHHHHHHhhhhhhHhhHhhhhhhhhhhhhc
Confidence 4666654 5554433 468899999999964
No 114
>PF06861 BALF1: BALF1 protein; InterPro: IPR010677 Epstein-Barr virus (strain GD1) (HHV-4), a human tumour DNA virus and a prominent member of gamma-herpesviruses, encodes homologues of cellular antiapoptotic viral Bcl-2 proteins BALF1 and BHRF1. They protect the virus from apoptosis in its host cell during virus synthesis [, ]. The virus infects B lymphocytes to establish a latent infection and yield proliferating, growth-transformed B cells in vitro. Bcl-2 genes are essential for the initial evasion of apoptosis which allows it to establish a latent infection or cause cellular transformation, or both []. Bcl-2 family proteins can inhibit or induce programmed cell death in part by counteracting the activity of other BCL-2 family members. BALF1, inhibits the antiapoptotic activity of EBV BHRF1 and of KSBcl-2 in several transfected cell lines. BALF1 fails, however, to inhibit the cellular BCL-2 family member, BCL-x(L). Thus, BALF1 acts as a negative regulator of the survival function of BHRF1, similar to the counterbalance observed between cellular BCL-2 family members [].
Probab=27.70 E-value=40 Score=28.77 Aligned_cols=23 Identities=22% Similarity=0.297 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHHHHHHHHccchH
Q 024810 175 LTRKELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 175 L~~dEL~aVlaHElgHi~~~H~~ 197 (262)
.+++|-.++++|++||+..+|-.
T Consensus 127 ~~d~e~~s~v~~~lA~Fy~~~r~ 149 (182)
T PF06861_consen 127 LNDHENASLVSHALAHFYLRYRR 149 (182)
T ss_pred cCchHHHHHHHHHHHHHHHHHHH
Confidence 48899999999999999988754
No 115
>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=27.62 E-value=40 Score=30.56 Aligned_cols=13 Identities=38% Similarity=0.503 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
.-+|+.||+||..
T Consensus 118 ~isv~iHElgHa~ 130 (263)
T cd06159 118 VVGVVVHELSHGI 130 (263)
T ss_pred HHHHHHHHHHHHH
Confidence 5579999999986
No 116
>PF01457 Peptidase_M8: Leishmanolysin This Prosite motif covers only the active site. This is family M8 in the peptidase classification. ; InterPro: IPR001577 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M8 (leishmanolysin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Leishmanolysin is an enzyme found in the eukaryotes including Leishmania and related parasitic protozoa []. The endopeptidase is the most abundant protein on the cell surface during the promastigote stage of the parasite, and is attached to the membrane by a glycosylphosphatidylinositol anchor []. In the amastigote form, the parasite lives in lysosomes of host macrophages, producing a form of the protease that has an acidic pH optimum []. This differs from most other metalloproteases and may be an adaptation to the environment in which the organism survives [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0007155 cell adhesion, 0016020 membrane; PDB: 1LML_A.
Probab=27.22 E-value=57 Score=32.41 Aligned_cols=32 Identities=16% Similarity=0.198 Sum_probs=19.0
Q ss_pred EEEECHHHHhhCCHHHHHHHHHHHHHHHHccc
Q 024810 164 FVVVHTSLVELLTRKELQAVLAHELGHLKCDH 195 (262)
Q Consensus 164 ~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~~H 195 (262)
.|-+....+.....++...++.||++|..--.
T Consensus 194 ~in~~p~~i~~~~~~~~~~~~~HEi~HaLGFs 225 (521)
T PF01457_consen 194 VININPSYIPSFYFQEFFRTVIHEIAHALGFS 225 (521)
T ss_dssp EEE--GGG---S--HHHHHHHHHHHHHHTT-S
T ss_pred EEEEchhHccchhhhcccceeeeeeeeeeeec
Confidence 45666666655556788899999999998533
No 117
>KOG3607 consensus Meltrins, fertilins and related Zn-dependent metalloproteinases of the ADAMs family [Posttranslational modification, protein turnover, chaperones]
Probab=25.39 E-value=93 Score=32.41 Aligned_cols=16 Identities=50% Similarity=0.594 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGHLK 192 (262)
Q Consensus 177 ~dEL~aVlaHElgHi~ 192 (262)
....+.|+||||||..
T Consensus 320 ~~~~a~v~AhelgH~l 335 (716)
T KOG3607|consen 320 LLAFAVVLAHELGHNL 335 (716)
T ss_pred chhHHHHHHHHHHhhc
Confidence 5678999999999987
No 118
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=25.18 E-value=52 Score=34.84 Aligned_cols=20 Identities=35% Similarity=0.479 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHccchH
Q 024810 178 KELQAVLAHELGHLKCDHGV 197 (262)
Q Consensus 178 dEL~aVlaHElgHi~~~H~~ 197 (262)
+..+.|++||++|-=.|+-+
T Consensus 305 ~~~~~viaHElaHqWfGnlV 324 (859)
T COG0308 305 ENVEEVIAHELAHQWFGNLV 324 (859)
T ss_pred HHHHHHHHHHHhhhccccee
Confidence 56777999999998877653
No 119
>COG1905 NuoE NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]
Probab=25.16 E-value=1.4e+02 Score=25.24 Aligned_cols=58 Identities=17% Similarity=0.338 Sum_probs=41.9
Q ss_pred HHHHHHHHHHcCCCCCcEEEEeC---CCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHH
Q 024810 126 HQLMTEAAEILNLEAPDLYVRQS---PVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLA 185 (262)
Q Consensus 126 ~~~v~~l~~~lgi~~p~vyv~~~---~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVla 185 (262)
.++++.+-+++|+..-+. ..| .-.+..+.|-++.-|.+.|+......+++|.+.-+|.
T Consensus 94 ~~l~~~l~~~lgi~~get--t~DG~ftl~~v~ClGaC~~AP~vmind~~~~~lt~e~l~eil~ 154 (160)
T COG1905 94 EALLKALEKKLGIKPGET--TADGKFTLEPVECLGACGQAPVVMINDDVYGRLTPEKLEEILE 154 (160)
T ss_pred HHHHHHHHHHhCCCCCCc--CCCCeEEEeeeeeecccccCCEEEECCchhccCCHHHHHHHHH
Confidence 566677777888764321 011 0135678888889999999999999999998887764
No 120
>PF13402 M60-like: Peptidase M60-like family; PDB: 4FCA_A.
Probab=25.09 E-value=2.7e+02 Score=24.99 Aligned_cols=32 Identities=25% Similarity=0.177 Sum_probs=17.8
Q ss_pred EEEECHHHHh-hCCHHHH---HHHHHHHHHHHHccc
Q 024810 164 FVVVHTSLVE-LLTRKEL---QAVLAHELGHLKCDH 195 (262)
Q Consensus 164 ~Ivi~~~Ll~-~L~~dEL---~aVlaHElgHi~~~H 195 (262)
.|..+.+..+ .++.+.+ -=-+.||+||..+.-
T Consensus 199 ~i~~~~~~~~~~l~~~~~~~~~WG~~HE~GH~~Q~~ 234 (307)
T PF13402_consen 199 PIGFPPNWMNELLNPNPLRKGGWGPWHELGHNHQQG 234 (307)
T ss_dssp EEEEETT--HHHH-HHHHHHH-HHHHHHHHHHH-BG
T ss_pred cEEeeCcHHhcccCHhHcCCCCeeehhhhhhhcCcc
Confidence 3444444333 3466665 446899999999765
No 121
>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=24.90 E-value=46 Score=30.52 Aligned_cols=13 Identities=38% Similarity=0.532 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
+-+|+.||+||..
T Consensus 135 ~isvvvHElgHal 147 (277)
T cd06162 135 LISGVVHEMGHGV 147 (277)
T ss_pred HHHHHHHHHHHHH
Confidence 6689999999986
No 122
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=24.83 E-value=1.1e+02 Score=25.36 Aligned_cols=56 Identities=20% Similarity=0.262 Sum_probs=41.2
Q ss_pred HHHHHHHHHHcCCCCCc-----EEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHH
Q 024810 126 HQLMTEAAEILNLEAPD-----LYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLA 185 (262)
Q Consensus 126 ~~~v~~l~~~lgi~~p~-----vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVla 185 (262)
.+.++.+.+.+|++.-+ .+-+ ....+.|.++..|.+.|+..+...++++.+..++.
T Consensus 92 ~~ll~~l~~~Lgi~~gett~Dg~ftL----~~~~ClG~C~~aP~~~in~~~~~~lt~~~~~~il~ 152 (156)
T PRK05988 92 DALAAHAKARLGIDFHQTTADGAVTL----EPVYCLGLCACSPAAMLDGEVHGRLDPQRLDALLA 152 (156)
T ss_pred HHHHHHHHHHhCCCCCCcCCCCeEEE----EeeeecCccCCCCeEEECCEEeCCCCHHHHHHHHH
Confidence 56667777788876321 1212 23457788888999999999999999999988875
No 123
>COG4823 AbiF Abortive infection bacteriophage resistance protein [Defense mechanisms]
Probab=23.86 E-value=49 Score=30.20 Aligned_cols=14 Identities=43% Similarity=0.707 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHH
Q 024810 177 RKELQAVLAHELGH 190 (262)
Q Consensus 177 ~dEL~aVlaHElgH 190 (262)
|-+++.||||++||
T Consensus 89 Et~iKs~iAyllg~ 102 (299)
T COG4823 89 ETEIKSVIAYLLGH 102 (299)
T ss_pred HHHHHHHHHHHhcc
Confidence 35799999999999
No 124
>COG5504 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=23.27 E-value=1.7e+02 Score=26.75 Aligned_cols=19 Identities=32% Similarity=0.274 Sum_probs=16.9
Q ss_pred CCHHHHHHHHHHHHHHHHc
Q 024810 175 LTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 175 L~~dEL~aVlaHElgHi~~ 193 (262)
.|..++.+.||||+-|..+
T Consensus 135 ~~~~~v~aliaHE~HH~~R 153 (280)
T COG5504 135 STITSVPALIAHEYHHNCR 153 (280)
T ss_pred CCccchHHHHHHHHHhhhe
Confidence 6788999999999999875
No 125
>cd04283 ZnMc_hatching_enzyme Zinc-dependent metalloprotease, hatching enzyme-like subfamily. Hatching enzymes are secreted by teleost embryos to digest the egg envelope or chorion. In some teleosts, the hatching enzyme may be a system consisting of two evolutionary related metalloproteases, high choriolytic enzyme and low choriolytic enzyme (HCE and LCE), which may have different substrate specificities and cooperatively digest the chorion.
Probab=22.97 E-value=44 Score=28.62 Aligned_cols=12 Identities=33% Similarity=0.545 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHH
Q 024810 181 QAVLAHELGHLK 192 (262)
Q Consensus 181 ~aVlaHElgHi~ 192 (262)
.+++.||++|..
T Consensus 78 ~G~i~HEl~HaL 89 (182)
T cd04283 78 KGIIQHELLHAL 89 (182)
T ss_pred cchHHHHHHHHh
Confidence 589999999998
No 126
>COG4307 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.89 E-value=67 Score=29.54 Aligned_cols=43 Identities=16% Similarity=0.305 Sum_probs=25.4
Q ss_pred CCCcEEEEeccCCCcEEEECHHHHhhCCHHHHH-----------HHHHHHHHHHHc
Q 024810 149 PVPNAYTLAISGKKPFVVVHTSLVELLTRKELQ-----------AVLAHELGHLKC 193 (262)
Q Consensus 149 ~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~-----------aVlaHElgHi~~ 193 (262)
+..-+..+|- ++..|.++-.=-+...+||++ +=+-||+||+.-
T Consensus 131 p~~e~vmTGH--d~GlItln~AEaDda~REq~Rvem~EpYRTlLGHFRHE~GHy~~ 184 (349)
T COG4307 131 PAGENVMTGH--DNGLITLNLAEADDAHREQLRVEMGEPYRTLLGHFRHEIGHYYF 184 (349)
T ss_pred CCCccccccc--cCceEEEeccccchHHHHHHHHHhCCcHHHHHhhhhhhhhhHHH
Confidence 3333344564 667888876655544555544 444578888763
No 127
>PF01400 Astacin: Astacin (Peptidase family M12A) This Prosite motif covers only the active site.; InterPro: IPR001506 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12A (astacin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The astacin () family of metalloendopeptidases encompasses a range of proteins found in hydra to humans, in mature and developmental systems []. Their functions include activation of growth factors, degradation of polypeptides, and processing of extracellular proteins []. The proteins are synthesised with N-terminal signal and pro-enzyme sequences, and many contain multiple domains C-terminal to the protease domain. They are either secreted from cells, or are associated with the plasma membrane. The astacin molecule adopts a kidney shape, with a deep active-site cleft between its N- and C-terminal domains []. The zinc ion, which lies at the bottom of the cleft, exhibits a unique penta-coordinated mode of binding, involving 3 histidine residues, a tyrosine and a water molecule (which is also bound to the carboxylate side chain of Glu93) []. The N-terminal domain comprises 2 alpha-helices and a 5-stranded beta-sheet. The overall topology of this domain is shared by the archetypal zinc-endopeptidase thermolysin. Astacin protease domains also share common features with serralysins, matrix metalloendopeptidases, and snake venom proteases; they cleave peptide bonds in polypeptides such as insulin B chain and bradykinin, and in proteins such as casein and gelatin; and they have arylamidase activity [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3LQB_A 3EDH_A 3EDG_A 3EDI_A 1IAE_A 1IAB_A 1IAA_A 1AST_A 1IAC_A 1QJJ_A ....
Probab=22.56 E-value=59 Score=27.70 Aligned_cols=30 Identities=20% Similarity=0.292 Sum_probs=17.7
Q ss_pred EeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHHHH
Q 024810 156 LAISGKKPFVVVHTSLVELLTRKELQAVLAHELGHLK 192 (262)
Q Consensus 156 ~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~ 192 (262)
.|..++...|.|..+-. -.+++.||++|..
T Consensus 62 vG~~~g~q~i~l~~~c~-------~~~~i~HEl~HaL 91 (191)
T PF01400_consen 62 VGRQGGEQTINLGDGCF-------SVGTILHELGHAL 91 (191)
T ss_dssp SS--SSEEEEEE-TTC--------SHHHHHHHHHHHH
T ss_pred hhhcCcceeEEecceeC-------CccchHHHHHHHH
Confidence 45544555666663321 3569999999987
No 128
>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat
Probab=21.89 E-value=2.8e+02 Score=19.96 Aligned_cols=34 Identities=18% Similarity=0.344 Sum_probs=27.9
Q ss_pred cEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHH
Q 024810 152 NAYTLAISGKKPFVVVHTSLVELLTRKELQAVLA 185 (262)
Q Consensus 152 NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVla 185 (262)
.+.+.|.....|.+.|.......++++.++-++.
T Consensus 45 ~~~ClG~C~~gP~~~v~~~~~~~~~~e~i~~il~ 78 (80)
T cd03081 45 PVYCLGLCACSPAAMIDGEVHGRVDPEKFDALLA 78 (80)
T ss_pred EeeecCccCCCCEEEECCEEECCCCHHHHHHHHH
Confidence 4457788888899999998888899998887764
No 129
>PF06884 DUF1264: Protein of unknown function (DUF1264); InterPro: IPR010686 This family contains a number of bacterial and eukaryotic proteins of unknown function that are approximately 200 residues long. Some family members are annotated as putative lipoproteins.
Probab=21.57 E-value=1.2e+02 Score=25.89 Aligned_cols=49 Identities=20% Similarity=0.284 Sum_probs=35.3
Q ss_pred HHHcCCCCCcEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHH
Q 024810 133 AEILNLEAPDLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAH 186 (262)
Q Consensus 133 ~~~lgi~~p~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaH 186 (262)
|..++-+.-+=.|++++.+||--+|+ . =.|+..+.+.|+++|-+.==.|
T Consensus 32 C~~vned~~QC~iyDs~~~~ArLIGv--E---YiISe~lf~tLP~eEkklWHsH 80 (171)
T PF06884_consen 32 CSHVNEDFRQCLIYDSNEPNARLIGV--E---YIISEKLFETLPEEEKKLWHSH 80 (171)
T ss_pred eeecCCcceEEEEecCCCCCcceeee--e---EEEcHHHHhhCCHHHHhccCCc
Confidence 33333334455678999999999997 2 5689999999999997654333
No 130
>KOG3714 consensus Meprin A metalloprotease [Posttranslational modification, protein turnover, chaperones]
Probab=21.53 E-value=44 Score=32.24 Aligned_cols=31 Identities=16% Similarity=0.164 Sum_probs=19.6
Q ss_pred EeccCCC-cEEEECHHHHhhCCHHHHHHHHHHHHHHHHc
Q 024810 156 LAISGKK-PFVVVHTSLVELLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 156 ~G~~~~~-~~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~ 193 (262)
.|..|++ -.+-+..+-.+ .+++.|||+|..-
T Consensus 141 VGr~gg~~q~~sl~~~C~~-------~G~i~HEl~HaLG 172 (411)
T KOG3714|consen 141 VGRRGGGQQLLSLGDGCDR-------FGTIVHELMHALG 172 (411)
T ss_pred eCccCCCccceecCCCcCc-------CchhHHHHHHHhh
Confidence 3544433 34445544433 8999999999983
No 131
>cd04281 ZnMc_BMP1_TLD Zinc-dependent metalloprotease; BMP1/TLD-like subfamily. BMP1 (Bone morphogenetic protein 1) and TLD (tolloid)-like metalloproteases play vital roles in extracellular matrix formation, by cleaving precursor proteins such as enzymes, structural proteins, and proteins involved in the mineralization of the extracellular matrix. The drosophila protein tolloid and its Xenopus homologue xolloid cleave and inactivate Sog and chordin, respectively, which are inhibitors of Dpp (the Drosophila decapentaplegic gene product) and its homologue BMP4, involved in dorso-ventral patterning.
Probab=21.52 E-value=48 Score=28.79 Aligned_cols=13 Identities=38% Similarity=0.687 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHc
Q 024810 181 QAVLAHELGHLKC 193 (262)
Q Consensus 181 ~aVlaHElgHi~~ 193 (262)
.+++.||++|...
T Consensus 88 ~Gti~HEl~HaLG 100 (200)
T cd04281 88 FGIVVHELGHVIG 100 (200)
T ss_pred CchHHHHHHHHhc
Confidence 4899999999883
No 132
>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=21.48 E-value=48 Score=31.94 Aligned_cols=11 Identities=45% Similarity=0.911 Sum_probs=9.4
Q ss_pred HHHHHHHHHHH
Q 024810 182 AVLAHELGHLK 192 (262)
Q Consensus 182 aVlaHElgHi~ 192 (262)
-|+-||+||+.
T Consensus 16 ~v~~HE~gH~~ 26 (420)
T TIGR00054 16 LIFVHELGHFL 26 (420)
T ss_pred HHHHHhHHHHH
Confidence 47889999987
No 133
>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=21.41 E-value=61 Score=27.48 Aligned_cols=13 Identities=38% Similarity=0.519 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHH
Q 024810 180 LQAVLAHELGHLK 192 (262)
Q Consensus 180 L~aVlaHElgHi~ 192 (262)
+-++..||++|-.
T Consensus 9 ~~~i~~HE~aHa~ 21 (181)
T cd06158 9 LLAITLHEFAHAY 21 (181)
T ss_pred HHHHHHHHHHHHH
Confidence 3478999999986
No 134
>cd03083 TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16. HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved
Probab=21.25 E-value=2.5e+02 Score=20.18 Aligned_cols=34 Identities=9% Similarity=0.220 Sum_probs=26.9
Q ss_pred EEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHH
Q 024810 153 AYTLAISGKKPFVVVHTSLVELLTRKELQAVLAH 186 (262)
Q Consensus 153 Afa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaH 186 (262)
..+.|.....|.+.|...+...++++.+..++.+
T Consensus 46 ~gClG~C~~~P~v~V~~~~y~~v~~~~v~~iv~~ 79 (80)
T cd03083 46 TSCTGLCDQGPALLINNRVFTRLTPGRIDQIAEL 79 (80)
T ss_pred eceecCcCCCCeEEECCEEECCCCHHHHHHHHhc
Confidence 3467888888999998777778899888877753
No 135
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=21.25 E-value=52 Score=26.23 Aligned_cols=26 Identities=23% Similarity=0.335 Sum_probs=16.6
Q ss_pred EEEECHHHHhhCCHHHHHHHHHHHHHHHHc
Q 024810 164 FVVVHTSLVELLTRKELQAVLAHELGHLKC 193 (262)
Q Consensus 164 ~Ivi~~~Ll~~L~~dEL~aVlaHElgHi~~ 193 (262)
.|.|...--+. .-+--++||+.|+-+
T Consensus 67 ~i~IDP~~~~K----GC~~TL~HEL~H~WQ 92 (141)
T PHA02456 67 WIEIDPDYANK----GCRDTLAHELNHAWQ 92 (141)
T ss_pred EEEECCccccc----chHHHHHHHHHHHHh
Confidence 56666554333 334457899999875
No 136
>PRK13267 archaemetzincin-like protein; Reviewed
Probab=20.48 E-value=77 Score=27.04 Aligned_cols=14 Identities=36% Similarity=0.634 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHH
Q 024810 179 ELQAVLAHELGHLK 192 (262)
Q Consensus 179 EL~aVlaHElgHi~ 192 (262)
-+.-...||+||..
T Consensus 124 R~~k~~~HElGH~l 137 (179)
T PRK13267 124 RVRKEVTHELGHTL 137 (179)
T ss_pred HHHHHHHHHHHHHc
Confidence 34555899999995
No 137
>PF10462 Peptidase_M66: Peptidase M66; InterPro: IPR019503 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 metallopeptidases belonging to MEROPS peptidase family M66 (StcE peptidase, clan MA). The StcE peptidase is a virulence factor found in Shiga toxigenic Escherichia coli strains. StcE peptidase cleaves C1 esterase inhibitor []. The SwissProt proteins in this entry have been name "Dictomallein". ; GO: 0004222 metalloendopeptidase activity; PDB: 3UJZ_A.
Probab=20.23 E-value=58 Score=30.29 Aligned_cols=17 Identities=35% Similarity=0.483 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHH-ccc
Q 024810 179 ELQAVLAHELGHLK-CDH 195 (262)
Q Consensus 179 EL~aVlaHElgHi~-~~H 195 (262)
....+++||+||-- .+|
T Consensus 192 s~~~~f~HE~GH~~GL~H 209 (305)
T PF10462_consen 192 SYGNEFSHELGHNFGLGH 209 (305)
T ss_dssp -SHHHHHHHHHHTTT--S
T ss_pred CccceeehhhhhhcCCCC
Confidence 36789999999976 355
No 138
>COG3930 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.19 E-value=1.9e+02 Score=27.69 Aligned_cols=47 Identities=17% Similarity=0.313 Sum_probs=30.1
Q ss_pred cEEEEeCCCCcEEEEeccCCCcEEEECHHHHhhCCHHHHHHHHHHHHHH
Q 024810 142 DLYVRQSPVPNAYTLAISGKKPFVVVHTSLVELLTRKELQAVLAHELGH 190 (262)
Q Consensus 142 ~vyv~~~~~~NAfa~G~~~~~~~Ivi~~~Ll~~L~~dEL~aVlaHElgH 190 (262)
++|..+.+..-|-+.--...-|.+.|+...+ ++++++++++.||+|=
T Consensus 210 ~~~~~~~~g~~Ara~v~~d~pp~lli~~~t~--~~~~~V~~Ll~HEigV 256 (434)
T COG3930 210 RVYESDTAGFVARAEVRDDLPPTLLIRRDTL--MEERRVRALLSHEIGV 256 (434)
T ss_pred eeeecCccchhhhHhhcCCCCcceeehhhhh--cCHHHHHHHHHhhhhe
Confidence 4555554444443321112335677887755 6999999999999984
Done!