Query 020589
Match_columns 324
No_of_seqs 257 out of 539
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:36:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020589.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020589hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08325 WLM: WLM domain; Int 100.0 4.6E-54 1E-58 387.0 19.8 180 8-203 2-186 (186)
2 KOG4842 Protein involved in si 99.9 1E-23 2.2E-28 196.5 5.7 194 7-215 30-237 (278)
3 KOG4842 Protein involved in si 99.5 4E-15 8.6E-20 139.3 5.4 115 10-126 119-241 (278)
4 PF01863 DUF45: Protein of unk 99.5 2.6E-14 5.6E-19 127.7 8.4 64 55-124 137-200 (205)
5 COG1451 Predicted metal-depend 99.3 1.1E-11 2.5E-16 114.9 8.0 65 54-124 147-211 (223)
6 PF00641 zf-RanBP: Zn-finger i 98.0 1.5E-06 3.2E-11 56.5 0.7 28 283-310 3-30 (30)
7 smart00731 SprT SprT homologue 97.9 4.8E-06 1E-10 72.1 1.8 59 56-118 31-95 (146)
8 PF10263 SprT-like: SprT-like 97.4 0.00027 5.9E-09 60.9 5.5 66 50-119 23-99 (157)
9 smart00547 ZnF_RBZ Zinc finger 96.8 0.00056 1.2E-08 42.7 1.1 24 284-307 2-25 (26)
10 PRK04351 hypothetical protein; 95.4 0.017 3.6E-07 51.0 3.7 46 66-115 43-95 (149)
11 KOG4477 RING1 interactor RYBP 94.1 0.017 3.8E-07 52.8 0.7 29 280-308 20-48 (228)
12 COG3091 SprT Zn-dependent meta 93.9 0.053 1.2E-06 48.2 3.1 32 85-116 58-96 (156)
13 PRK04860 hypothetical protein; 93.7 0.09 1.9E-06 47.0 4.3 33 83-115 58-97 (160)
14 PRK03982 heat shock protein Ht 92.0 0.28 6.1E-06 47.0 5.4 67 34-105 74-142 (288)
15 PF04450 BSP: Peptidase of pla 91.5 0.17 3.7E-06 46.8 3.3 100 21-124 24-132 (205)
16 PRK03001 M48 family peptidase; 91.2 0.3 6.4E-06 46.7 4.6 68 31-103 70-139 (283)
17 PRK04897 heat shock protein Ht 90.7 0.33 7.1E-06 47.0 4.5 71 30-105 82-154 (298)
18 PF00641 zf-RanBP: Zn-finger i 90.2 0.13 2.9E-06 33.1 0.9 27 262-295 3-29 (30)
19 COG0501 HtpX Zn-dependent prot 90.2 0.41 8.8E-06 45.0 4.5 74 26-105 101-174 (302)
20 PRK03072 heat shock protein Ht 89.5 0.62 1.3E-05 44.9 5.3 71 30-105 72-144 (288)
21 PRK01265 heat shock protein Ht 89.0 0.81 1.8E-05 45.2 5.8 68 32-104 87-156 (324)
22 KOG3931 Uncharacterized conser 89.0 0.75 1.6E-05 46.2 5.5 60 64-125 83-168 (484)
23 PF05569 Peptidase_M56: BlaR1 88.8 0.52 1.1E-05 44.9 4.2 26 82-107 190-215 (299)
24 PF06114 DUF955: Domain of unk 88.2 0.67 1.5E-05 36.6 3.9 61 56-124 16-78 (122)
25 PF08325 WLM: WLM domain; Int 88.2 1.2 2.6E-05 40.7 5.9 79 86-165 84-185 (186)
26 PRK02870 heat shock protein Ht 88.0 1.6 3.4E-05 43.4 7.0 73 22-103 116-188 (336)
27 PF04810 zf-Sec23_Sec24: Sec23 87.2 0.14 3.1E-06 35.4 -0.5 32 265-296 4-36 (40)
28 cd00350 rubredoxin_like Rubred 86.6 0.35 7.6E-06 32.0 1.1 26 284-309 1-28 (33)
29 PRK05457 heat shock protein Ht 86.3 1 2.3E-05 43.3 4.7 68 24-103 80-149 (284)
30 PRK01345 heat shock protein Ht 86.1 1 2.2E-05 44.2 4.5 63 36-103 75-139 (317)
31 PF10026 DUF2268: Predicted Zn 85.2 2.1 4.6E-05 38.8 5.9 83 27-118 5-98 (195)
32 KOG4198 RNA-binding Ran Zn-fin 85.2 0.62 1.3E-05 45.3 2.5 53 260-312 112-168 (280)
33 PRK02391 heat shock protein Ht 85.2 1.4 3.1E-05 42.7 5.0 65 34-103 82-148 (296)
34 cd04270 ZnMc_TACE_like Zinc-de 83.9 0.83 1.8E-05 42.9 2.7 27 82-108 161-187 (244)
35 PF01435 Peptidase_M48: Peptid 83.7 0.76 1.6E-05 41.0 2.3 38 66-107 71-108 (226)
36 cd00729 rubredoxin_SM Rubredox 83.0 0.77 1.7E-05 30.8 1.5 26 284-309 2-29 (34)
37 PF13485 Peptidase_MA_2: Pepti 82.7 1.5 3.3E-05 34.8 3.5 23 83-105 20-42 (128)
38 COG4219 MecR1 Antirepressor re 81.0 0.9 2E-05 45.1 1.8 24 80-103 182-205 (337)
39 COG1592 Rubrerythrin [Energy p 78.2 1.2 2.6E-05 40.3 1.5 27 284-310 134-161 (166)
40 COG5100 NPL4 Nuclear pore prot 77.5 0.59 1.3E-05 47.7 -0.7 25 284-308 546-570 (571)
41 cd00730 rubredoxin Rubredoxin; 77.3 1.5 3.2E-05 32.1 1.6 30 263-292 1-42 (50)
42 KOG3854 SPRT-like metalloprote 77.0 1.6 3.4E-05 45.3 2.2 53 66-124 335-397 (505)
43 cd04271 ZnMc_ADAM_fungal Zinc- 75.0 1.2 2.7E-05 41.5 0.8 18 90-107 147-164 (228)
44 PF13248 zf-ribbon_3: zinc-rib 74.6 2 4.3E-05 27.0 1.4 24 284-307 2-25 (26)
45 COG4900 Predicted metallopepti 72.5 5.8 0.00012 34.1 4.1 55 56-114 44-114 (133)
46 KOG4477 RING1 interactor RYBP 72.3 1.4 3E-05 40.7 0.4 30 256-292 17-46 (228)
47 PF12388 Peptidase_M57: Dual-a 72.2 3.6 7.7E-05 38.6 3.1 38 65-108 116-153 (211)
48 PF01447 Peptidase_M4: Thermol 70.9 3 6.4E-05 36.8 2.1 23 78-100 125-147 (150)
49 cd04272 ZnMc_salivary_gland_MP 69.2 2.7 5.8E-05 38.5 1.6 19 89-107 146-164 (220)
50 PF00301 Rubredoxin: Rubredoxi 68.3 2.5 5.4E-05 30.5 0.9 30 263-292 1-42 (47)
51 PF13203 DUF2201_N: Putative m 68.0 5 0.00011 38.2 3.2 58 56-118 33-100 (292)
52 COG1773 Rubredoxin [Energy pro 67.6 3.5 7.6E-05 30.9 1.6 31 262-292 2-44 (55)
53 PRK14559 putative protein seri 67.5 4.6 0.0001 43.5 3.1 48 263-310 1-53 (645)
54 PF12773 DZR: Double zinc ribb 67.4 5.6 0.00012 28.0 2.6 25 281-305 26-50 (50)
55 TIGR02414 pepN_proteo aminopep 67.0 16 0.00035 40.7 7.2 21 84-104 279-299 (863)
56 cd04267 ZnMc_ADAM_like Zinc-de 66.3 3.1 6.6E-05 36.9 1.3 22 86-107 131-152 (192)
57 cd00730 rubredoxin Rubredoxin; 65.6 4 8.8E-05 29.8 1.6 27 284-310 1-46 (50)
58 PF13582 Reprolysin_3: Metallo 65.3 2.7 5.8E-05 34.4 0.7 16 90-105 109-124 (124)
59 cd04269 ZnMc_adamalysin_II_lik 64.3 5.1 0.00011 35.6 2.3 23 85-107 128-150 (194)
60 PF13688 Reprolysin_5: Metallo 63.8 4.6 0.0001 35.7 1.9 98 7-107 48-161 (196)
61 PF09768 Peptidase_M76: Peptid 63.3 9.5 0.00021 34.6 3.9 19 82-100 65-83 (173)
62 PF12725 DUF3810: Protein of u 63.3 2.3 5E-05 41.7 -0.0 46 83-128 191-238 (318)
63 COG0308 PepN Aminopeptidase N 62.8 4.7 0.0001 44.7 2.2 24 82-105 301-324 (859)
64 PF11682 DUF3279: Protein of u 62.7 6.3 0.00014 34.2 2.5 47 264-311 61-123 (128)
65 PRK05452 anaerobic nitric oxid 62.7 4.9 0.00011 41.5 2.2 39 254-292 416-466 (479)
66 PF13699 DUF4157: Domain of un 62.3 5.4 0.00012 31.5 1.8 33 65-102 43-75 (79)
67 PF14521 Aspzincin_M35: Lysine 60.7 4.5 9.7E-05 35.3 1.2 39 68-108 78-116 (148)
68 PF13574 Reprolysin_2: Metallo 60.6 4.1 8.8E-05 36.2 1.0 20 88-107 111-130 (173)
69 PRK13267 archaemetzincin-like 60.0 23 0.00051 32.1 5.8 84 20-107 52-144 (179)
70 KOG4345 NF-kappa B regulator A 59.9 2 4.4E-05 46.3 -1.2 29 280-308 87-115 (774)
71 PF13240 zinc_ribbon_2: zinc-r 59.8 5.7 0.00012 24.4 1.3 22 286-307 1-22 (23)
72 KOG4198 RNA-binding Ran Zn-fin 59.7 6.4 0.00014 38.4 2.2 54 257-310 134-207 (280)
73 PF01421 Reprolysin: Reprolysi 59.2 7.1 0.00015 34.9 2.3 25 83-107 126-150 (199)
74 PF02102 Peptidase_M35: Deuter 58.7 5.2 0.00011 40.3 1.5 22 86-107 295-318 (359)
75 KOG1244 Predicted transcriptio 58.5 5.3 0.00011 39.1 1.4 34 286-319 283-319 (336)
76 KOG4345 NF-kappa B regulator A 58.0 3.5 7.5E-05 44.6 0.1 27 284-310 185-211 (774)
77 PRK14015 pepN aminopeptidase N 57.1 23 0.0005 39.6 6.3 19 85-103 293-311 (875)
78 COG4324 Predicted aminopeptida 57.0 17 0.00037 35.8 4.6 48 84-131 193-241 (376)
79 cd04273 ZnMc_ADAMTS_like Zinc- 55.7 2.9 6.4E-05 37.8 -0.8 20 88-107 140-159 (207)
80 PRK15410 DgsA anti-repressor M 55.1 11 0.00025 36.3 3.1 62 58-124 117-189 (260)
81 PF06262 DUF1025: Possibl zinc 53.2 9.2 0.0002 31.5 1.9 16 86-101 71-86 (97)
82 TIGR02412 pepN_strep_liv amino 53.2 7.7 0.00017 42.7 1.8 19 85-103 284-302 (831)
83 PF01433 Peptidase_M1: Peptida 52.3 11 0.00023 36.6 2.5 19 85-103 292-310 (390)
84 PF06167 Peptidase_M90: Glucos 51.4 15 0.00033 35.1 3.3 93 30-125 78-202 (253)
85 PF13058 DUF3920: Protein of u 50.2 8.2 0.00018 33.0 1.1 20 82-101 70-89 (126)
86 PRK11788 tetratricopeptide rep 49.5 10 0.00023 36.1 1.9 30 281-310 351-380 (389)
87 PF10023 DUF2265: Predicted am 49.5 27 0.0006 34.9 4.8 42 83-124 160-202 (337)
88 PF05191 ADK_lid: Adenylate ki 48.3 11 0.00025 25.6 1.4 23 285-307 2-30 (36)
89 KOG1046 Puromycin-sensitive am 47.8 11 0.00023 42.1 1.8 19 85-103 321-339 (882)
90 PF00413 Peptidase_M10: Matrix 47.6 11 0.00023 31.8 1.4 24 83-106 100-123 (154)
91 cd00203 ZnMc Zinc-dependent me 47.3 9.6 0.00021 32.4 1.1 22 86-107 94-115 (167)
92 PF10460 Peptidase_M30: Peptid 46.8 9.4 0.0002 38.5 1.2 85 18-103 35-154 (366)
93 TIGR02411 leuko_A4_hydro leuko 45.7 10 0.00023 40.3 1.3 16 88-103 279-294 (601)
94 PRK05452 anaerobic nitric oxid 45.5 11 0.00024 38.9 1.5 30 281-310 422-470 (479)
95 PF15639 Tox-MPTase3: Metallop 44.9 9 0.00019 33.5 0.6 41 58-99 62-111 (135)
96 cd04276 ZnMc_MMP_like_2 Zinc-d 44.1 1.6E+02 0.0034 27.2 8.6 85 21-105 20-133 (197)
97 cd06258 Peptidase_M3_like The 43.2 34 0.00073 33.3 4.4 22 19-40 35-56 (365)
98 PLN00162 transport protein sec 42.5 11 0.00024 41.3 0.9 33 264-296 54-87 (761)
99 cd04277 ZnMc_serralysin_like Z 42.5 39 0.00085 29.8 4.3 39 66-106 93-131 (186)
100 PF12773 DZR: Double zinc ribb 42.1 15 0.00033 25.7 1.4 23 287-309 1-23 (50)
101 cd04268 ZnMc_MMP_like Zinc-dep 42.0 18 0.0004 30.8 2.1 22 86-107 92-113 (165)
102 PF10463 Peptidase_U49: Peptid 42.0 18 0.00038 33.8 2.1 33 88-120 101-133 (206)
103 cd04278 ZnMc_MMP Zinc-dependen 39.3 35 0.00076 29.3 3.4 23 84-106 103-125 (157)
104 KOG3607 Meltrins, fertilins an 39.2 17 0.00036 39.8 1.7 22 85-106 320-341 (716)
105 TIGR00311 aIF-2beta translatio 37.6 16 0.00034 31.8 1.0 16 295-310 115-130 (133)
106 COG2856 Predicted Zn peptidase 36.9 70 0.0015 29.9 5.2 40 84-123 68-113 (213)
107 KOG2719 Metalloprotease [Gener 36.7 36 0.00078 35.2 3.5 67 34-103 223-295 (428)
108 PRK09672 phage exclusion prote 36.4 27 0.00058 34.6 2.4 19 87-105 164-182 (305)
109 cd04279 ZnMc_MMP_like_1 Zinc-d 36.0 25 0.00055 30.1 2.0 23 85-107 101-123 (156)
110 cd00491 4Oxalocrotonate_Tautom 35.9 1.4E+02 0.003 20.9 5.6 47 9-55 2-49 (58)
111 PRK03988 translation initiatio 35.2 19 0.0004 31.6 1.0 17 294-310 119-135 (138)
112 COG4888 Uncharacterized Zn rib 33.4 24 0.00052 29.7 1.4 38 281-318 19-66 (104)
113 PF13583 Reprolysin_4: Metallo 32.7 23 0.00051 32.4 1.3 18 90-107 139-156 (206)
114 PF10058 DUF2296: Predicted in 32.4 24 0.00053 26.1 1.1 29 266-294 25-54 (54)
115 KOG3658 Tumor necrosis factor- 32.1 60 0.0013 35.6 4.4 102 7-108 280-412 (764)
116 COG1592 Rubrerythrin [Energy p 31.9 24 0.00051 32.0 1.2 23 263-291 134-156 (166)
117 smart00235 ZnMc Zinc-dependent 31.9 23 0.0005 29.6 1.1 18 90-107 88-105 (140)
118 PF14891 Peptidase_M91: Effect 31.2 16 0.00036 32.4 0.1 19 89-107 104-122 (174)
119 PHA02456 zinc metallopeptidase 31.2 22 0.00048 30.6 0.8 15 87-101 78-92 (141)
120 PRK09928 choline transport pro 30.8 1.1E+02 0.0025 33.4 6.3 54 17-71 539-599 (679)
121 COG1655 Uncharacterized protei 30.7 15 0.00032 35.3 -0.4 10 283-292 61-70 (267)
122 KOG3965 Uncharacterized conser 30.2 2.6E+02 0.0057 25.2 7.4 36 20-64 34-69 (160)
123 PRK12496 hypothetical protein; 30.0 32 0.00069 30.7 1.7 23 285-307 128-152 (164)
124 PF10571 UPF0547: Uncharacteri 28.7 37 0.00079 21.5 1.3 22 286-307 2-23 (26)
125 PF10103 DUF2342: Uncharacteri 27.6 39 0.00085 33.8 2.0 38 83-120 152-189 (342)
126 PF05548 Peptidase_M11: Gameto 27.4 31 0.00068 34.0 1.3 43 57-107 127-169 (314)
127 PF07998 Peptidase_M54: Peptid 27.4 41 0.00088 31.1 1.9 23 85-107 142-164 (194)
128 PF01457 Peptidase_M8: Leishma 27.3 43 0.00093 35.0 2.3 20 84-103 206-225 (521)
129 PRK12336 translation initiatio 27.0 30 0.00064 31.9 1.0 17 294-310 115-131 (201)
130 cd04327 ZnMc_MMP_like_3 Zinc-d 25.6 41 0.00089 30.3 1.6 19 87-105 91-109 (198)
131 PF13398 Peptidase_M50B: Pepti 25.2 41 0.00088 30.7 1.5 15 87-101 21-35 (200)
132 PF14247 DUF4344: Domain of un 24.2 50 0.0011 31.1 1.9 22 85-106 89-110 (220)
133 KOG1047 Bifunctional leukotrie 23.8 37 0.00079 36.4 1.0 18 87-104 287-304 (613)
134 TIGR03624 putative hydrolase. 23.6 70 0.0015 32.1 3.0 37 83-119 151-187 (345)
135 PF01400 Astacin: Astacin (Pep 23.3 41 0.0009 30.3 1.2 16 89-104 80-95 (191)
136 TIGR03883 DUF2342_F420 unchara 23.0 76 0.0016 31.9 3.1 37 83-119 155-191 (346)
137 PF07227 DUF1423: Protein of u 22.6 38 0.00082 35.2 0.9 26 285-310 129-158 (446)
138 KOG0593 Predicted protein kina 22.4 67 0.0014 32.5 2.5 38 83-120 78-115 (396)
139 COG4783 Putative Zn-dependent 21.9 50 0.0011 34.7 1.6 20 84-103 126-145 (484)
140 cd06158 S2P-M50_like_1 Unchara 20.7 60 0.0013 29.2 1.7 14 87-100 8-21 (181)
141 KOG1299 Vacuolar sorting prote 20.5 2.8E+02 0.006 29.5 6.5 68 20-101 178-245 (549)
142 PF02163 Peptidase_M50: Peptid 20.2 60 0.0013 28.5 1.6 14 87-100 6-19 (192)
No 1
>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=100.00 E-value=4.6e-54 Score=387.02 Aligned_cols=180 Identities=53% Similarity=0.836 Sum_probs=162.7
Q ss_pred ceEEEecCC-CCCHHHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCCCcEEEEEecCCCCCCCCCCHH
Q 020589 8 KVWEVKALK-KIGEDDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGGGAEVKLRLRRPNREWDFFPYE 86 (324)
Q Consensus 8 ~v~~I~~L~-~p~~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~ 86 (324)
+|++|++|+ +|++++|++||+|||++|+|||++|+|+|++|+||+|.++++||+|+|+|++|.||||++++ ..|+||+
T Consensus 2 ~v~~I~~L~~~p~~~~A~~lL~rlA~~v~pIM~~~~~~V~~L~E~~P~~~~llG~N~N~G~~I~lrLR~~~~-~~fl~~~ 80 (186)
T PF08325_consen 2 HVHFIKVLPNLPDEEEALELLERLAADVKPIMRKHGWRVGSLEEFYPNGERLLGLNVNKGEKICLRLRTPDD-GGFLPYE 80 (186)
T ss_pred ceeEEeeCCCCcCHHHHHHHHHHHHHHHHHHHHHcCcccCeeeccCCCCCCCcceecCCCcEEEEEeCCCCC-CCEeeHH
Confidence 699999999 99999999999999999999999999999999999999999999999999999999999988 8999999
Q ss_pred HHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHHccccCCCCcccCCCccccCCcCCCCchHHHHHHHHHHHHHhh
Q 020589 87 QILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMAKGITGTGKGFDLPGRRLGGFSRQPPLSQLRQSALAAAENRAR 166 (324)
Q Consensus 87 ~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~~G~~g~g~gf~~~G~rLGG~~~~~~~~~~r~~a~~aaekR~~ 166 (324)
.|++|||||||||+|++||++||+++++|..||++|+++||+ +||++.|++|||.....+ +.+..
T Consensus 81 ~i~~t~lHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~~G~~---~gf~~~G~~l~~~~~~~~------------~~~~~ 145 (186)
T PF08325_consen 81 TILGTMLHELAHNVHGPHDDKFWKLLDELRKECEELDAKGYT---EGFWSSGRRLGGSSGQPS------------EEREL 145 (186)
T ss_pred HHHHHHHHHHHhcccCCccHHHHHHHHHHHHHHHHHHhcCCc---cccCCCCcccCCCCcccc------------hhhhh
Confidence 999999999999999999999999999999999999999998 899999999999755433 11111
Q ss_pred hCCcCCCCCcccCCCCCC----CCCCCHHHHHHHHHHHHhh
Q 020589 167 HGALLPSGPNRIGGDSSI----KAALSPIQAAAMAAERRLH 203 (324)
Q Consensus 167 ~~~~~~sgg~rLGG~~~~----~~~~s~re~aa~AAERR~~ 203 (324)
....+.+++++|||++.. .+..++||++|+|||||++
T Consensus 146 ~~~~~~~~~~~LgG~s~~~~~~~~~~~~Re~~a~AAerR~~ 186 (186)
T PF08325_consen 146 RGNGLSGGGQRLGGGSSSRPRKAQPKSPREAAAAAAERRLR 186 (186)
T ss_pred hccccCCCCeeCCCCCCCCCCcCCCcCHHHHHHHHHHhhcC
Confidence 223456778999998752 4688999999999999975
No 2
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=99.89 E-value=1e-23 Score=196.51 Aligned_cols=194 Identities=29% Similarity=0.361 Sum_probs=151.0
Q ss_pred cceEEEecCC-CCCHHHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCCCcEEEEEecCCCCCCCCCCH
Q 020589 7 NKVWEVKALK-KIGEDDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGGGAEVKLRLRRPNREWDFFPY 85 (324)
Q Consensus 7 ~~v~~I~~L~-~p~~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~ 85 (324)
+.+..|..+. .|..+.+..+|+++|+.+.|||++|+|.|..+.++++.|..++|+|||+|.+|.|+||...+..+|+|+
T Consensus 30 ~~l~K~~~vss~~~kll~~~llk~iahl~~p~mkEh~f~vti~~Dk~irnq~~sg~nvn~gski~lslr~~~~e~~~lp~ 109 (278)
T KOG4842|consen 30 PHLQKVAVVSSKPNKLLALNLLKEIAHLVSPLMKEHHFKVTILVDKYIRNQRLSGMNVNHGSKIMLSLRCSTDEFQFLPM 109 (278)
T ss_pred cccceeeeeccchHHHHhhhhhhhhhhhhhhhhccccceeEEeehhHHHhhhhhccccCCcceEEEEeeccccccccccc
Confidence 4556666666 779999999999999999999999999999999999999999999999999999999966677789999
Q ss_pred HHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHHccccCCCCcccCCCccccCCcCCCCchHHHHHHHHHHHHHh
Q 020589 86 EQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMAKGITGTGKGFDLPGRRLGGFSRQPPLSQLRQSALAAAENRA 165 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~~G~~g~g~gf~~~G~rLGG~~~~~~~~~~r~~a~~aaekR~ 165 (324)
+.++.|++|||+|+..+||+++|++.|+.|+.+...+..+|+. .=|.+-+..|||.....-- + +.
T Consensus 110 e~pmgtylhel~h~lqgPhd~rfl~~L~~Lrad~gii~~mg~h---rW~vg~l~el~g~~nt~v~---~---------~~ 174 (278)
T KOG4842|consen 110 ECPMGTYLHELTHNLQGPHDKRFLNKLDELRADQGIIEQMGLH---RWFVGNLQELGGRANTRVN---R---------YP 174 (278)
T ss_pred cccchhhhhhhhhhhcCCChHHHHHHHHHHhhchhHHHHhccc---ceechhhhhcccccceeec---C---------cc
Confidence 9999999999999999999999999999999999999999987 3466777888875321000 0 00
Q ss_pred hhC-CcCCC------C-CcccCC-----CCCCCCCCCHHHHHHHHHHHHhhhccccCCCCCCC
Q 020589 166 RHG-ALLPS------G-PNRIGG-----DSSIKAALSPIQAAAMAAERRLHDDMWCGSKSLNS 215 (324)
Q Consensus 166 ~~~-~~~~s------g-g~rLGG-----~~~~~~~~s~re~aa~AAERR~~d~k~C~s~~~~~ 215 (324)
..| +...+ + .++.|= -+++...-.+|+++++++|++.+++.||+-.....
T Consensus 175 tLg~stnqG~i~lrlrtdrkkgfR~y~tissTl~heLtr~v~~ehde~fyrLdrql~kek~~a 237 (278)
T KOG4842|consen 175 TLGISTNQGVIVLRLRTDRKKGFRHYETISSTLRHELTREVAAEHDERFYRLDRQLGKEKNNA 237 (278)
T ss_pred ceeeccccceEEEecccchhcccccCCCchHHHHhhhhhhHhhhhhhHHHHHHHHhCcccchh
Confidence 000 00001 0 111221 11222344568899999999999999998765443
No 3
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=99.55 E-value=4e-15 Score=139.34 Aligned_cols=115 Identities=26% Similarity=0.315 Sum_probs=104.6
Q ss_pred EEEecCCCCCHHHHHHHHHHHHH--HHHHHHhhcCceeeeecccCCC------CCCceeeecCCCcEEEEEecCCCCCCC
Q 020589 10 WEVKALKKIGEDDARQILEKVAK--QVQPIMRKHKWKVRILSEFCPA------NPSLLGINIGGGAEVKLRLRRPNREWD 81 (324)
Q Consensus 10 ~~I~~L~~p~~~~A~~~L~rlA~--~v~pIMr~~~w~V~~L~Ef~P~------~~~llGlN~N~G~~I~LRLR~~~~~~~ 81 (324)
.....|+.|.+..|+..|.+|++ .|..+|-.|.|.|+.|.|+-|. +..+||+|.|.| +|.+|||++. ...
T Consensus 119 el~h~lqgPhd~rfl~~L~~Lrad~gii~~mg~hrW~vg~l~el~g~~nt~v~~~~tLg~stnqG-~i~lrlrtdr-kkg 196 (278)
T KOG4842|consen 119 ELTHNLQGPHDKRFLNKLDELRADQGIIEQMGLHRWFVGNLQELGGRANTRVNRYPTLGISTNQG-VIVLRLRTDR-KKG 196 (278)
T ss_pred hhhhhhcCCChHHHHHHHHHHhhchhHHHHhcccceechhhhhcccccceeecCccceeeccccc-eEEEecccch-hcc
Confidence 33445678999999999999998 4999999999999999999996 467899999999 9999999974 558
Q ss_pred CCCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHHcc
Q 020589 82 FFPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMAKG 126 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~~G 126 (324)
|+.|+.|-.|+.|||+|+++.-|+..||++-.++-+|-..+++-+
T Consensus 197 fR~y~tissTl~heLtr~v~~ehde~fyrLdrql~kek~~ad~~~ 241 (278)
T KOG4842|consen 197 FRHYETISSTLRHELTREVAAEHDERFYRLDRQLGKEKNNADQII 241 (278)
T ss_pred cccCCCchHHHHhhhhhhHhhhhhhHHHHHHHHhCcccchhhhhc
Confidence 999999999999999999999999999999999999999998754
No 4
>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=99.52 E-value=2.6e-14 Score=127.69 Aligned_cols=64 Identities=25% Similarity=0.306 Sum_probs=59.1
Q ss_pred CCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHH
Q 020589 55 NPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMA 124 (324)
Q Consensus 55 ~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~ 124 (324)
.++.||.+ +....|.|++|. .++|.+.|+||++|||||++|+||+++||+++.+++|+|++...
T Consensus 137 ~ksrWGsc-~~~~~I~ln~~L-----~~~P~~~idYVvvHEL~Hl~~~nHs~~Fw~~v~~~~Pd~k~~~~ 200 (205)
T PF01863_consen 137 MKSRWGSC-SSKGNITLNWRL-----VMAPPEVIDYVVVHELCHLRHPNHSKRFWALVEKYMPDYKERRK 200 (205)
T ss_pred hhhccccC-CCCCcEEeeccc-----ccCCccHHHHHHHHHHHHhccCCCCHHHHHHHHHHCcCHHHHHH
Confidence 47889999 666699999999 58999999999999999999999999999999999999998763
No 5
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=99.26 E-value=1.1e-11 Score=114.93 Aligned_cols=65 Identities=22% Similarity=0.280 Sum_probs=60.1
Q ss_pred CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHH
Q 020589 54 ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMA 124 (324)
Q Consensus 54 ~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~ 124 (324)
..++.||.+.-+| .|.|+++.. .+|.+.|+||++|||||+.++||+++||+++..++|+|+++..
T Consensus 147 ~~k~~WGScs~~~-~i~~~~~l~-----~~p~~~i~YVvvHELaHLke~nHs~~Fw~lv~~~~P~~~~~~~ 211 (223)
T COG1451 147 NMKRRWGSCSKAG-EIRFNWRLV-----MAPEEVIDYVVVHELAHLKEKNHSKRFWRLVEKYMPDYRAAKR 211 (223)
T ss_pred eccceeeeecCCC-cEEeehhhh-----cCCHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHCCChHHHHH
Confidence 3688999998888 999999984 7999999999999999999999999999999999999998864
No 6
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=98.03 E-value=1.5e-06 Score=56.51 Aligned_cols=28 Identities=36% Similarity=0.846 Sum_probs=23.5
Q ss_pred CCccccCCCCCCCCCCccccccCCcccC
Q 020589 283 KGWSCKFCTLDNSSLSERCLACGEWRYS 310 (324)
Q Consensus 283 ~~W~C~~CT~~N~~~~~~C~~Cg~~r~~ 310 (324)
..|.|+.||+.|+.....|.+|+++||+
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~~rp~ 30 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGAPRPG 30 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--BTTB
T ss_pred cCccCCCCcCCchHHhhhhhCcCCCCcC
Confidence 4799999999999999999999999985
No 7
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=97.90 E-value=4.8e-06 Score=72.14 Aligned_cols=59 Identities=20% Similarity=0.281 Sum_probs=47.1
Q ss_pred CCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcC------CCchhHHHHHHHHHHH
Q 020589 56 PSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYG------PHNADFYKLWDEIRKE 118 (324)
Q Consensus 56 ~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~------~H~~~F~~l~~~l~~e 118 (324)
+..+|....+...|.|+.+.. .-.|.+.|++||+|||||.... +|++.|++++.++...
T Consensus 31 ~~~~G~~~~~~~~I~ln~~l~----~~~~~~~l~~~l~HEm~H~~~~~~g~~~~Hg~~f~~~~~~~~~~ 95 (146)
T smart00731 31 RKTGGRCLLKSAEIRLNPKLL----TENGRDRLRETLLHELCHAALYLFGRGYGHGDEWKRWMRQVNGL 95 (146)
T ss_pred hhhhHHhhcCCCEEEeCHHHH----hhccHHHHHhhHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHcCC
Confidence 344677665566888887663 2368899999999999999988 9999999999988644
No 8
>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=97.40 E-value=0.00027 Score=60.88 Aligned_cols=66 Identities=23% Similarity=0.264 Sum_probs=48.9
Q ss_pred ccCCCCCCceeeecCCCc---EEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCc--------CCCchhHHHHHHHHHHH
Q 020589 50 EFCPANPSLLGINIGGGA---EVKLRLRRPNREWDFFPYEQILDTMLHELCHNEY--------GPHNADFYKLWDEIRKE 118 (324)
Q Consensus 50 Ef~P~~~~llGlN~N~G~---~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~--------~~H~~~F~~l~~~l~~e 118 (324)
+|-....+-+|...-.+. .|.|+...- ...+.+.|..||+|||||... .+|++.|.+++.++...
T Consensus 23 ~~~~~~~~~~G~~~~~~~~~~~I~ls~~~~----~~~~~~~~~~tL~HEm~H~~~~~~~~~~~~~Hg~~fk~~~~~ig~~ 98 (157)
T PF10263_consen 23 TWSKRMKRTAGRCRYKRRSPCEIRLSPKLL----DRNPEEELIDTLLHEMAHAAAYVFGGGRRRGHGKEFKQWARRIGAS 98 (157)
T ss_pred EEECCCCCceEEEEECCCCceEEEECHHHH----HhhHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHCCc
Confidence 343456778888655544 677665553 236799999999999999876 79999999999887553
Q ss_pred H
Q 020589 119 C 119 (324)
Q Consensus 119 ~ 119 (324)
.
T Consensus 99 ~ 99 (157)
T PF10263_consen 99 P 99 (157)
T ss_pred c
Confidence 3
No 9
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=96.79 E-value=0.00056 Score=42.66 Aligned_cols=24 Identities=38% Similarity=0.927 Sum_probs=22.7
Q ss_pred CccccCCCCCCCCCCccccccCCc
Q 020589 284 GWSCKFCTLDNSSLSERCLACGEW 307 (324)
Q Consensus 284 ~W~C~~CT~~N~~~~~~C~~Cg~~ 307 (324)
.|.|+.||+.|.+....|..|+++
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 599999999999999999999985
No 10
>PRK04351 hypothetical protein; Provisional
Probab=95.36 E-value=0.017 Score=51.00 Aligned_cols=46 Identities=22% Similarity=0.537 Sum_probs=32.8
Q ss_pred CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhc------C-cCCCchhHHHHHHHH
Q 020589 66 GAEVKLRLRRPNREWDFFPYEQILDTMLHELCHN------E-YGPHNADFYKLWDEI 115 (324)
Q Consensus 66 G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~------~-~~~H~~~F~~l~~~l 115 (324)
...|.|+-..- .-.+.+.|..|+.|||||. . +.+|+++|..++.++
T Consensus 43 ~~~I~lnp~ll----~~~~~~~l~~vv~HElcH~~~~~~g~g~~h~g~~fk~~~~~v 95 (149)
T PRK04351 43 DHHIEFNPKML----EEYGLEELIGIIKHELCHYHLHLEGKGYQHRDRDFKELLKQV 95 (149)
T ss_pred CCeEEeCHHHH----hhccHHHHHhhHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHh
Confidence 34566664431 1235789999999999997 3 567889998777765
No 11
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=94.15 E-value=0.017 Score=52.84 Aligned_cols=29 Identities=28% Similarity=0.782 Sum_probs=24.6
Q ss_pred CCCCCccccCCCCCCCCCCccccccCCcc
Q 020589 280 GNLKGWSCKFCTLDNSSLSERCLACGEWR 308 (324)
Q Consensus 280 ~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r 308 (324)
+....|.|+.|||.|.....+|-+|+.-+
T Consensus 20 ~Deg~WdCsvCTFrNsAeAfkC~vCdvRK 48 (228)
T KOG4477|consen 20 DDEGKWDCSVCTFRNSAEAFKCFVCDVRK 48 (228)
T ss_pred cccCceeeeeeeecchhhhhheeeecccc
Confidence 34457999999999999999999998754
No 12
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=93.86 E-value=0.053 Score=48.23 Aligned_cols=32 Identities=28% Similarity=0.472 Sum_probs=26.8
Q ss_pred HHHHHHHHHHhhhhcC-------cCCCchhHHHHHHHHH
Q 020589 85 YEQILDTMLHELCHNE-------YGPHNADFYKLWDEIR 116 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~-------~~~H~~~F~~l~~~l~ 116 (324)
-+.|..|+.|||||+. +.+||.+|-.+|.++.
T Consensus 58 ~~f~~~vV~HELaHl~ly~~~gr~~phg~ewk~lm~qV~ 96 (156)
T COG3091 58 EDFIEQVVPHELAHLHLYQEFGRYKPHGKEWKLLMQQVL 96 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHhC
Confidence 4578999999999985 5699999998887763
No 13
>PRK04860 hypothetical protein; Provisional
Probab=93.65 E-value=0.09 Score=46.96 Aligned_cols=33 Identities=24% Similarity=0.400 Sum_probs=26.7
Q ss_pred CCHHHHHHHHHHhhhhcC-c------CCCchhHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNE-Y------GPHNADFYKLWDEI 115 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~-~------~~H~~~F~~l~~~l 115 (324)
.+.+.+..|+.|||||.+ | .+||++|-.++.++
T Consensus 58 ~~~~~l~~~v~HEl~H~~~~~~~g~~~~Hg~ewk~lm~~v 97 (160)
T PRK04860 58 NQQAFIDEVVPHELAHLLVYQLFGRVAPHGKEWQWMMESV 97 (160)
T ss_pred CcHHHHHhHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHh
Confidence 367899999999999975 2 38999888877764
No 14
>PRK03982 heat shock protein HtpX; Provisional
Probab=91.98 E-value=0.28 Score=47.01 Aligned_cols=67 Identities=12% Similarity=0.081 Sum_probs=37.7
Q ss_pred HHHHHhhcCceeeeecccCC--CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCc
Q 020589 34 VQPIMRKHKWKVRILSEFCP--ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 34 v~pIMr~~~w~V~~L~Ef~P--~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~ 105 (324)
|..+.++.++....+.-+.- .|.=.+|++.+++ .|.|.--. ...++.++|..|+.|||.|.+|++.-
T Consensus 74 v~~la~~~g~~~p~v~v~~~~~~NAfa~G~~~~~~-~V~vt~gL----l~~l~~~El~AVlAHElgHi~~~h~~ 142 (288)
T PRK03982 74 VERLAERANIPKPKVAIVPTQTPNAFATGRDPKHA-VVAVTEGI----LNLLNEDELEGVIAHELTHIKNRDTL 142 (288)
T ss_pred HHHHHHHcCCCCCeEEEEeCCCcceEEeccCCCCe-EEEeehHH----HhhCCHHHHHHHHHHHHHHHHcCCHH
Confidence 33344445554443332211 1344566655444 34332221 13468899999999999999998643
No 15
>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=91.53 E-value=0.17 Score=46.83 Aligned_cols=100 Identities=19% Similarity=0.186 Sum_probs=60.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcC---ceeeeecccCCCCCCceeeecCCC----cEEEEEecCCCCCCC-CCCHHHHHHHH
Q 020589 21 DDARQILEKVAKQVQPIMRKHK---WKVRILSEFCPANPSLLGINIGGG----AEVKLRLRRPNREWD-FFPYEQILDTM 92 (324)
Q Consensus 21 ~~A~~~L~rlA~~v~pIMr~~~---w~V~~L~Ef~P~~~~llGlN~N~G----~~I~LRLR~~~~~~~-flp~~~I~~vm 92 (324)
++|.++|+.....|..++-..- -.|..+.=.. ...=|.-...| .+|.|.++...+... -..-..|..||
T Consensus 24 ~~a~~~L~~a~~~V~~~ly~~~~~~~~v~~Vt~~~---~~~~gVA~t~gd~~~~~I~~S~~~i~~~~~~~~~~~Ei~Gvl 100 (205)
T PF04450_consen 24 PDAEQVLRDASRFVWRLLYQSPADRKPVRSVTLIL---DDMDGVAYTSGDDDHKEIHFSARYIAKYPADGDVRDEIIGVL 100 (205)
T ss_pred cCHHHHHHHHHHHHHHHhCCCCCCCCcccEEEEEE---ECCCeeEEEecCCCccEEEEeHHHHhhcccccchHHHHHHHH
Confidence 3566777777777777765431 0000000000 01123333345 799999887643211 12236899999
Q ss_pred HHhhhhcCc-CCCchhHHHHHHHHHHHHHHHHH
Q 020589 93 LHELCHNEY-GPHNADFYKLWDEIRKECDELMA 124 (324)
Q Consensus 93 lHELaH~~~-~~H~~~F~~l~~~l~~e~~~l~~ 124 (324)
.|||+|++. .+++..++-|++-+. +|-.|.+
T Consensus 101 ~HE~~H~~Q~~~~~~~P~~liEGIA-DyVRl~a 132 (205)
T PF04450_consen 101 YHEMVHCWQWDGRGTAPGGLIEGIA-DYVRLKA 132 (205)
T ss_pred HHHHHHHhhcCCCCCCChhheecHH-HHHHHHc
Confidence 999999997 458899999988764 5777765
No 16
>PRK03001 M48 family peptidase; Provisional
Probab=91.17 E-value=0.3 Score=46.73 Aligned_cols=68 Identities=16% Similarity=0.103 Sum_probs=40.2
Q ss_pred HHHHHHHHhhcCceeeeecccCC--CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 31 AKQVQPIMRKHKWKVRILSEFCP--ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 31 A~~v~pIMr~~~w~V~~L~Ef~P--~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
.+.|.-+.++.|+.++.+.-+-- .|.=..|.+.+++ .|-|.--.- .-+.-++|..||.|||+|.+|++
T Consensus 70 ~~~v~~la~~~g~~~p~v~v~~~~~~NAfa~G~~~~~~-~Ivvt~gLl----~~l~~~El~aVlAHElgHi~~~h 139 (283)
T PRK03001 70 YRMVRELAQRAGLPMPKVYLINEDQPNAFATGRNPEHA-AVAATTGIL----RVLSEREIRGVMAHELAHVKHRD 139 (283)
T ss_pred HHHHHHHHHHcCCCCCeEEEecCCCcceEEecCCCCCe-EEEecHHHH----hhCCHHHHHHHHHHHHHHHhCCC
Confidence 34444455566666655544421 1444567665544 343322221 23578899999999999999874
No 17
>PRK04897 heat shock protein HtpX; Provisional
Probab=90.72 E-value=0.33 Score=46.96 Aligned_cols=71 Identities=11% Similarity=0.013 Sum_probs=44.1
Q ss_pred HHHHHHHHHhhcCceeeeecccCC--CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCc
Q 020589 30 VAKQVQPIMRKHKWKVRILSEFCP--ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 30 lA~~v~pIMr~~~w~V~~L~Ef~P--~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~ 105 (324)
|...|..+.++.|+.++.+..+-- .|.=..|.+.+++ .|.+.--. ...++.++|..||.|||+|++|++.-
T Consensus 82 L~~~v~~la~~~gip~p~v~v~~~~~~NAfa~G~~~~~~-~v~vt~gL----l~~l~~~El~aVlAHElgHi~~~d~~ 154 (298)
T PRK04897 82 LWHIVEDMAMVAQIPMPRVFIIDDPSPNAFATGSSPKNA-AVAVTTGL----LAIMNREELEGVIGHEISHIRNYDIR 154 (298)
T ss_pred HHHHHHHHHHHcCCCCCcEEEecCCCCceEEeccCCCCc-EEEeehHH----HhhCCHHHHHHHHHHHHHHHhcCCHH
Confidence 445555666677777766665521 1344556555444 44444211 12467899999999999999977643
No 18
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=90.21 E-value=0.13 Score=33.12 Aligned_cols=27 Identities=26% Similarity=0.693 Sum_probs=18.1
Q ss_pred ccccccccccccCCCCCCCCCCCccccCCCCCCC
Q 020589 262 QMWQCNMCTLLNQRNKSVGNLKGWSCKFCTLDNS 295 (324)
Q Consensus 262 ~~W~c~~cTl~N~~pk~~~~~~~W~C~~CT~~N~ 295 (324)
..|.|+.||+.|++- ...|..|.-..|
T Consensus 3 g~W~C~~C~~~N~~~-------~~~C~~C~~~rp 29 (30)
T PF00641_consen 3 GDWKCPSCTFMNPAS-------RSKCVACGAPRP 29 (30)
T ss_dssp SSEEETTTTEEEESS-------SSB-TTT--BTT
T ss_pred cCccCCCCcCCchHH-------hhhhhCcCCCCc
Confidence 479999999999872 456777765443
No 19
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=90.19 E-value=0.41 Score=44.96 Aligned_cols=74 Identities=26% Similarity=0.206 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCc
Q 020589 26 ILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 26 ~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~ 105 (324)
.+.++...+.+..-.+.|+|.....=.| |.=-+|.+.+.| +|-|.--.- ..+.-++|..||.||++|.++++.=
T Consensus 101 ~~~~v~~~a~~~~~~~~~~v~i~~~~~~-NAFa~g~~~~~~-~V~vt~gLl----~~l~~dEl~aVlaHElgHi~~rd~~ 174 (302)
T COG0501 101 LLLKVAELARQAGIPHMPEVYILETPQP-NAFALGGGPKNG-RVVVTTGLL----DLLNDDELEAVLAHELGHIKNRHTL 174 (302)
T ss_pred HHHHHHHHHHHCCCCCCCeeEEecCCCc-cceecCCCCCCe-eEEecHHHH----hhCCHHHHHHHHHHHHHHHhcccHH
Confidence 4445556666666666788888874444 555556555444 555544432 3688999999999999999998654
No 20
>PRK03072 heat shock protein HtpX; Provisional
Probab=89.52 E-value=0.62 Score=44.91 Aligned_cols=71 Identities=15% Similarity=0.014 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhcCceeeeecccCCC--CCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCc
Q 020589 30 VAKQVQPIMRKHKWKVRILSEFCPA--NPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 30 lA~~v~pIMr~~~w~V~~L~Ef~P~--~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~ 105 (324)
|.+.|.-+.++-|+.++.+..+--. |.=..|.+.+.. .|.+--.. ...++.++|..||.|||+|+++++--
T Consensus 72 L~~~v~~la~~~g~p~p~vyv~~~~~~NAFa~G~~~~~~-~v~vt~gL----l~~l~~~El~aVlAHElgHi~~~d~~ 144 (288)
T PRK03072 72 MYRIVRELSTAARQPMPRLYISPTAAPNAFATGRNPRNA-AVCCTEGI----LQILNERELRGVLGHELSHVYNRDIL 144 (288)
T ss_pred HHHHHHHHHHHcCCCCCCEEEecCCCCceEEecCCCCCc-EEEecHHH----HHhCCHHHHHHHHHHHHHHHhcCCHH
Confidence 3445555666667776666655322 333445332221 23222111 13568899999999999999997643
No 21
>PRK01265 heat shock protein HtpX; Provisional
Probab=89.04 E-value=0.81 Score=45.20 Aligned_cols=68 Identities=18% Similarity=0.138 Sum_probs=40.5
Q ss_pred HHHHHHHhhcCceeeeecccCC--CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCC
Q 020589 32 KQVQPIMRKHKWKVRILSEFCP--ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPH 104 (324)
Q Consensus 32 ~~v~pIMr~~~w~V~~L~Ef~P--~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H 104 (324)
..|.-+.++.++.++.+..+.- .|.-..|.+..+ ..|.|---. ...++.++|..|+.|||.|++|++=
T Consensus 87 ~~v~~la~~~g~~~p~vyv~~~~~~NAfa~G~~~~~-~~Ivvt~gL----l~~l~~~El~aVlAHElgHik~~d~ 156 (324)
T PRK01265 87 SIVAEVAKYNGIRVPKVYIADVPFPNAFAYGSPIAG-KRIAITLPL----LKILNRDEIKAVAGHELGHLKHRDV 156 (324)
T ss_pred HHHHHHHHHcCCCCCeEEEecCCCCCeEEeccCCCC-CEEEEehHH----HhhCCHHHHHHHHHHHHHHHHcccH
Confidence 3344444455665555544421 144455655444 355554333 2357889999999999999987653
No 22
>KOG3931 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.99 E-value=0.75 Score=46.19 Aligned_cols=60 Identities=27% Similarity=0.454 Sum_probs=48.4
Q ss_pred CCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcC---------cCCCchhHHHHHHHHH-----------------H
Q 020589 64 GGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNE---------YGPHNADFYKLWDEIR-----------------K 117 (324)
Q Consensus 64 N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~---------~~~H~~~F~~l~~~l~-----------------~ 117 (324)
.+|.-..|||-.| -+-.+|..+++.|||||+-|-- .+.|.++|-+.+..+. +
T Consensus 83 g~gg~csIRLSeP--LLkLRPRkDLVETLLHEMIHAYlFV~n~~~dr~GHGP~F~~hMhrIN~~~GtNITvYHtFHDEV~ 160 (484)
T KOG3931|consen 83 GKGGMCSIRLSEP--LLKLRPRKDLVETLLHEMIHAYLFVTNNDKDREGHGPEFCKHMHRINSLTGTNITVYHTFHDEVD 160 (484)
T ss_pred cccceEEEEecch--hhccCchHHHHHHHHHHHHHHheeEecccccCCCCChHHHHHHHHHhhccCceeEEEeechHHHH
Confidence 3566788888876 4578999999999999999942 3579999999998764 4
Q ss_pred HHHHHHHc
Q 020589 118 ECDELMAK 125 (324)
Q Consensus 118 e~~~l~~~ 125 (324)
+|+..+|+
T Consensus 161 ~Yr~HwWR 168 (484)
T KOG3931|consen 161 EYRRHWWR 168 (484)
T ss_pred HHHhhhhh
Confidence 78888876
No 23
>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=88.83 E-value=0.52 Score=44.88 Aligned_cols=26 Identities=23% Similarity=0.181 Sum_probs=21.2
Q ss_pred CCCHHHHHHHHHHhhhhcCcCCCchh
Q 020589 82 FFPYEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
-+..+++.+++.|||+|+.+++.=..
T Consensus 190 ~~~~~el~~il~HEl~Hikr~D~~~~ 215 (299)
T PF05569_consen 190 DLSEEELRAILLHELAHIKRRDLLWK 215 (299)
T ss_pred ccCHHHHHHHHHHHHHHHHCCChHHH
Confidence 46778999999999999998875433
No 24
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=88.20 E-value=0.67 Score=36.56 Aligned_cols=61 Identities=21% Similarity=0.131 Sum_probs=35.2
Q ss_pred CCceeeecCC--CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHHHH
Q 020589 56 PSLLGINIGG--GAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDELMA 124 (324)
Q Consensus 56 ~~llGlN~N~--G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l~~ 124 (324)
..+.|..... ...|.|+-+ ++...-..|++|||.|.....+...+.........+..+..+
T Consensus 16 ~~~~~~~~~~~~~~~I~in~~--------~~~~~~~f~laHELgH~~~~~~~~~~~~~~~~~~~~~~E~~A 78 (122)
T PF06114_consen 16 KDLGGFSIPKENNPIIFINSN--------LSPERQRFTLAHELGHILLHHGDETFNYYLNYFFNERQEREA 78 (122)
T ss_dssp --EEEETT----TTEEEEESS--------S-HHHHHHHHHHHHHHHHHHH-HHHHHHHHHH--THHHHHHH
T ss_pred CCcCEEEEecCcCCEEEECCC--------CCHHHHHHHHHHHHHHHHhhhccccchhhccccchhhHHHHH
Confidence 3344444443 567777655 356677899999999999888887654444444444444443
No 25
>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=88.19 E-value=1.2 Score=40.71 Aligned_cols=79 Identities=27% Similarity=0.310 Sum_probs=55.0
Q ss_pred HHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHHHH-HHccccCCC------------------CcccCCCccccCCcC
Q 020589 86 EQILDTMLHELCHNEYGPHNADFYKLWDEIRKECDEL-MAKGITGTG------------------KGFDLPGRRLGGFSR 146 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~~l-~~~G~~g~g------------------~gf~~~G~rLGG~~~ 146 (324)
...+.=|.| ..|--|..---++|+.+.+-..+.+.- ...|+.+.| .++.+.|++|||.+.
T Consensus 84 ~t~lHELaH-~~~~~H~~~F~~l~~~l~~e~~~l~~~G~~~gf~~~G~~l~~~~~~~~~~~~~~~~~~~~~~~~LgG~s~ 162 (186)
T PF08325_consen 84 GTMLHELAH-NVHGPHDDKFWKLLDELRKECEELDAKGYTEGFWSSGRRLGGSSGQPSEERELRGNGLSGGGQRLGGGSS 162 (186)
T ss_pred HHHHHHHHh-cccCCccHHHHHHHHHHHHHHHHHHhcCCccccCCCCcccCCCCcccchhhhhhccccCCCCeeCCCCCC
Confidence 466788888 568889888888888888777766663 102222211 235578899999765
Q ss_pred C----CCchHHHHHHHHHHHHHh
Q 020589 147 Q----PPLSQLRQSALAAAENRA 165 (324)
Q Consensus 147 ~----~~~~~~r~~a~~aaekR~ 165 (324)
. ....+.|+.+++||++|.
T Consensus 163 ~~~~~~~~~~~Re~~a~AAerR~ 185 (186)
T PF08325_consen 163 SRPRKAQPKSPREAAAAAAERRL 185 (186)
T ss_pred CCCCcCCCcCHHHHHHHHHHhhc
Confidence 3 345678999999999985
No 26
>PRK02870 heat shock protein HtpX; Provisional
Probab=87.95 E-value=1.6 Score=43.40 Aligned_cols=73 Identities=18% Similarity=0.181 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCc
Q 020589 22 DARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEY 101 (324)
Q Consensus 22 ~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~ 101 (324)
+-.+++++++.... + ...++|..+..=. .|.=.+|.+.+.+ .|.+---.- ..++.++|..||.|||+|++|
T Consensus 116 ~L~~~ve~La~~ag--~-p~~p~V~vi~~~~-~NAFA~G~~~~~~-~Ivvt~GLL----~~L~~dEL~aVlAHELgHik~ 186 (336)
T PRK02870 116 QLYNVVEELLVAAG--L-RFMPKVYIIDAPY-MNAFASGYSEKSA-MVAITTGLL----EKLDRDELQAVMAHELSHIRH 186 (336)
T ss_pred HHHHHHHHHHHHcC--C-CCCCeEEEEcCCC-CceEEecCCCCCc-EEEEehHHh----hhCCHHHHHHHHHHHHHHHHc
Confidence 44445555555431 0 1123454443322 2555667665444 454432221 246889999999999999977
Q ss_pred CC
Q 020589 102 GP 103 (324)
Q Consensus 102 ~~ 103 (324)
++
T Consensus 187 ~d 188 (336)
T PRK02870 187 GD 188 (336)
T ss_pred cc
Confidence 54
No 27
>PF04810 zf-Sec23_Sec24: Sec23/Sec24 zinc finger; InterPro: IPR006895 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger, an alpha/beta trunk domain (IPR006896 from INTERPRO), an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes an approximately 55-residue Sec23/24 zinc-binding domain, which lies against the beta-barrel at the periphery of the complex. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EFO_B 3EG9_B 3EGD_A 2YRC_A 2NUP_A 2YRD_A 3EGX_A 2NUT_A 3EH1_A 1PD0_A ....
Probab=87.24 E-value=0.14 Score=35.38 Aligned_cols=32 Identities=31% Similarity=0.664 Sum_probs=16.8
Q ss_pred ccccc-ccccCCCCCCCCCCCccccCCCCCCCC
Q 020589 265 QCNMC-TLLNQRNKSVGNLKGWSCKFCTLDNSS 296 (324)
Q Consensus 265 ~c~~c-Tl~N~~pk~~~~~~~W~C~~CT~~N~~ 296 (324)
-|..| +|+||=-+-......|+|.+|...|+.
T Consensus 4 rC~~C~aylNp~~~~~~~~~~w~C~~C~~~N~l 36 (40)
T PF04810_consen 4 RCRRCRAYLNPFCQFDDGGKTWICNFCGTKNPL 36 (40)
T ss_dssp B-TTT--BS-TTSEEETTTTEEEETTT--EEE-
T ss_pred ccCCCCCEECCcceEcCCCCEEECcCCCCcCCC
Confidence 36666 678876332234467999999887764
No 28
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=86.62 E-value=0.35 Score=32.03 Aligned_cols=26 Identities=19% Similarity=0.483 Sum_probs=18.6
Q ss_pred CccccCCCCC-CCC-CCccccccCCccc
Q 020589 284 GWSCKFCTLD-NSS-LSERCLACGEWRY 309 (324)
Q Consensus 284 ~W~C~~CT~~-N~~-~~~~C~~Cg~~r~ 309 (324)
.|.|..|.|. .+. ..|.|-.||..+.
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~~~~ 28 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGAPKD 28 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCCcHH
Confidence 3888888874 332 5788888887653
No 29
>PRK05457 heat shock protein HtpX; Provisional
Probab=86.34 E-value=1 Score=43.35 Aligned_cols=68 Identities=13% Similarity=0.189 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHhhcCceeeeecccC-C-CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCc
Q 020589 24 RQILEKVAKQVQPIMRKHKWKVRILSEFC-P-ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEY 101 (324)
Q Consensus 24 ~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~-P-~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~ 101 (324)
.++++++|. +.|+.++.+.-+- + .|.-..|.+.+++ .|.+-.-. ...++.++|..|+.|||.|.++
T Consensus 80 ~~~v~~la~-------~~g~p~p~v~v~~~~~~NAfa~G~~~~~~-~V~vt~gL----l~~L~~~El~aVlAHElgHi~~ 147 (284)
T PRK05457 80 VETVARQAR-------QAGIGMPEVAIYHSPEINAFATGASKNNS-LVAVSTGL----LQNMSRDEVEAVLAHEISHIAN 147 (284)
T ss_pred HHHHHHHHH-------hCCCCCCCEEEEeCCCceEEEecCCCCCe-EEEeehHH----hhhCCHHHHHHHHHHHHHHHHc
Confidence 345555554 4455544433221 1 1444566665443 34443211 1246889999999999999999
Q ss_pred CC
Q 020589 102 GP 103 (324)
Q Consensus 102 ~~ 103 (324)
++
T Consensus 148 ~d 149 (284)
T PRK05457 148 GD 149 (284)
T ss_pred CC
Confidence 75
No 30
>PRK01345 heat shock protein HtpX; Provisional
Probab=86.11 E-value=1 Score=44.15 Aligned_cols=63 Identities=19% Similarity=0.159 Sum_probs=36.4
Q ss_pred HHHhhcCceeeeecccC-C-CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 36 PIMRKHKWKVRILSEFC-P-ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 36 pIMr~~~w~V~~L~Ef~-P-~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
-+.++.++.+..+.-+- + .|.=..|.+.+++ .|.+.--.- ..++-++|..||.|||.|+++++
T Consensus 75 ~La~~agi~~p~v~vid~~~~NAFa~G~~~~~~-~V~vt~gLL----~~L~~dEL~aVlAHElgHi~~~d 139 (317)
T PRK01345 75 DLARRAGLPMPKVYIIDNPQPNAFATGRNPENA-AVAATTGLL----QRLSPEEVAGVMAHELAHVKNRD 139 (317)
T ss_pred HHHHHcCCCCCcEEEEcCCCcceEEecCCCCCe-EEEechHHH----hhCCHHHHHHHHHHHHHHHHcCC
Confidence 33344555544443331 1 1444556654443 455542221 23678999999999999999855
No 31
>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=85.23 E-value=2.1 Score=38.79 Aligned_cols=83 Identities=20% Similarity=0.162 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCC--------CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhh
Q 020589 27 LEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGG--------GAEVKLRLRRPNREWDFFPYEQILDTMLHELCH 98 (324)
Q Consensus 27 L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~--------G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH 98 (324)
+++.-..++-++......|. ++|.++.--.+..+. ...|.|-| .++ -...+.|..++.||+-|
T Consensus 5 i~~~~~~~~~~~~~~~i~v~----i~p~~~~~~~~~~~~g~~g~~~~~~~i~l~~-~~~----~~~~~~l~~~iaHE~hH 75 (195)
T PF10026_consen 5 IEEALEKSIELLPGPDIPVF----IFPADPENPFLIPELGGKGGGAIPGYIFLFL-LPN----DYSLEELPALIAHEYHH 75 (195)
T ss_pred HHHHHHHHHHHcCCCCCCEE----EEeccCCCcccccccCcccccCCCCEEEEEe-cCC----cccHHHHHHHHHHHHHH
Confidence 34444445556666666666 445554332222221 34777776 432 24566999999999999
Q ss_pred cCcCCCch---hHHHHHHHHHHH
Q 020589 99 NEYGPHNA---DFYKLWDEIRKE 118 (324)
Q Consensus 99 ~~~~~H~~---~F~~l~~~l~~e 118 (324)
++...+-. .=..|++.++-|
T Consensus 76 ~~r~~~~~~~~~~~TLld~~I~E 98 (195)
T PF10026_consen 76 NCRYEQIGWDPEDTTLLDSLIME 98 (195)
T ss_pred HHHHhccCCCCCCCCHHHHHHHh
Confidence 98654332 335566666544
No 32
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=85.20 E-value=0.62 Score=45.27 Aligned_cols=53 Identities=25% Similarity=0.516 Sum_probs=39.6
Q ss_pred ccccccccccccccCC----CCCCCCCCCccccCCCCCCCCCCccccccCCcccCCC
Q 020589 260 VGQMWQCNMCTLLNQR----NKSVGNLKGWSCKFCTLDNSSLSERCLACGEWRYSNG 312 (324)
Q Consensus 260 ~~~~W~c~~cTl~N~~----pk~~~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r~~~~ 312 (324)
...-|.|+.|...|-. |+-.-.+-.|.|+.|+|+|-.....|--|++.|+--.
T Consensus 112 ~~~~~~~~~~~g~~~~~n~~~~r~~~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a 168 (280)
T KOG4198|consen 112 FKGDWLCPRCPGLGFSRNNKPKRPWRSGDWECPGCNFHNFARNSECFRCGAKRPLAA 168 (280)
T ss_pred ccCCCCCCCCCCCcccccccccCCccccCcccCCCCceeccccchhhhcCCcCcccc
Confidence 3467899999654422 2211234569999999999999999999999999843
No 33
>PRK02391 heat shock protein HtpX; Provisional
Probab=85.19 E-value=1.4 Score=42.69 Aligned_cols=65 Identities=12% Similarity=0.022 Sum_probs=37.1
Q ss_pred HHHHHhhcCceeeeecccC-C-CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 34 VQPIMRKHKWKVRILSEFC-P-ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 34 v~pIMr~~~w~V~~L~Ef~-P-~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
|..+.++.++.++.+.-+- + .|.=..|.+.+++ .|.+.--. ...++.+++..|+.|||+|+++++
T Consensus 82 v~~la~~~~~~~p~v~v~~~~~~NAfa~G~~~~~~-~V~vt~gL----l~~L~~~El~aVlaHElgHi~~~d 148 (296)
T PRK02391 82 VERLCALADLPKPRVAVADSDVPNAFATGRSPKNA-VVCVTTGL----MRRLDPDELEAVLAHELSHVKNRD 148 (296)
T ss_pred HHHHHHHcCCCCCcEEEEeCCCCceEEecCCCCCc-EEEecHHH----HhhCCHHHHHHHHHHHHHHHHcCC
Confidence 3334445555444443331 1 1444556655443 34432111 124678999999999999999886
No 34
>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=83.87 E-value=0.83 Score=42.91 Aligned_cols=27 Identities=33% Similarity=0.367 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHHHhhhhcCcCCCchhH
Q 020589 82 FFPYEQILDTMLHELCHNEYGPHNADF 108 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~~~~H~~~F 108 (324)
..|...+..||.|||-|+.-++||..-
T Consensus 161 ~~~~~~~a~t~AHElGHnlGm~HD~~~ 187 (244)
T cd04270 161 RVPTKESDLVTAHELGHNFGSPHDPDI 187 (244)
T ss_pred ccchhHHHHHHHHHHHHhcCCCCCCCC
Confidence 456777889999999999999999864
No 35
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=83.71 E-value=0.76 Score=40.99 Aligned_cols=38 Identities=11% Similarity=0.072 Sum_probs=28.2
Q ss_pred CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchh
Q 020589 66 GAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 66 G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
+..|.|....- ..++.+++..||.|||+|+.+++.-..
T Consensus 71 ~~~I~v~~~ll----~~~~~~el~aVlaHElgH~~~~h~~~~ 108 (226)
T PF01435_consen 71 RKRIVVTSGLL----ESLSEDELAAVLAHELGHIKHRHILKS 108 (226)
T ss_dssp --EEEEEHHHH----HHSSHHHHHHHHHHHHHHHHTTHCCCC
T ss_pred CcEEEEeChhh----hcccHHHHHHHHHHHHHHHHcCCcchH
Confidence 33466665542 358889999999999999998877655
No 36
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=83.01 E-value=0.77 Score=30.79 Aligned_cols=26 Identities=27% Similarity=0.719 Sum_probs=19.5
Q ss_pred CccccCCCCCCC--CCCccccccCCccc
Q 020589 284 GWSCKFCTLDNS--SLSERCLACGEWRY 309 (324)
Q Consensus 284 ~W~C~~CT~~N~--~~~~~C~~Cg~~r~ 309 (324)
.|.|..|.|.-. .....|.+||.++.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~~~ 29 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGAPKE 29 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCCchH
Confidence 599999998522 24579999998753
No 37
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=82.72 E-value=1.5 Score=34.79 Aligned_cols=23 Identities=22% Similarity=0.232 Sum_probs=18.5
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCc
Q 020589 83 FPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~ 105 (324)
.+.+.+..|+.|||+|..++...
T Consensus 20 ~~~~~~~~~l~HE~~H~~~~~~~ 42 (128)
T PF13485_consen 20 SDEDWLDRVLAHELAHQWFGNYF 42 (128)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHc
Confidence 45667889999999999877654
No 38
>COG4219 MecR1 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]
Probab=81.03 E-value=0.9 Score=45.06 Aligned_cols=24 Identities=29% Similarity=0.380 Sum_probs=20.5
Q ss_pred CCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 80 WDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 80 ~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
..-++-+.+.|+++|||+|+.+++
T Consensus 182 ~~r~~~ee~~yIilHEl~Hlk~gD 205 (337)
T COG4219 182 VERLTDEELKYIILHELSHLKRGD 205 (337)
T ss_pred HhhcCHHhhhhhHhHHHhhhhccc
Confidence 345778899999999999999875
No 39
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.18 E-value=1.2 Score=40.27 Aligned_cols=27 Identities=26% Similarity=0.687 Sum_probs=17.0
Q ss_pred CccccCCCC-CCCCCCccccccCCcccC
Q 020589 284 GWSCKFCTL-DNSSLSERCLACGEWRYS 310 (324)
Q Consensus 284 ~W~C~~CT~-~N~~~~~~C~~Cg~~r~~ 310 (324)
.|.|++|+| .---..+.|..||.++..
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~k~~ 161 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAPKEK 161 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCChHHH
Confidence 577777776 222555777777776643
No 40
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=77.50 E-value=0.59 Score=47.69 Aligned_cols=25 Identities=40% Similarity=0.844 Sum_probs=23.5
Q ss_pred CccccCCCCCCCCCCccccccCCcc
Q 020589 284 GWSCKFCTLDNSSLSERCLACGEWR 308 (324)
Q Consensus 284 ~W~C~~CT~~N~~~~~~C~~Cg~~r 308 (324)
.|.|++|||.|...+-+|++|-++|
T Consensus 546 ~we~~~~~~i~~~~~~t~~m~~~~~ 570 (571)
T COG5100 546 RWECKMCTFINEKNSCTCEMCNSTR 570 (571)
T ss_pred HHHHHHHHHhcccCceEEEeecccC
Confidence 5999999999999999999998876
No 41
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=77.30 E-value=1.5 Score=32.06 Aligned_cols=30 Identities=17% Similarity=0.658 Sum_probs=17.8
Q ss_pred cccccccccccCC----CCC-------C-CCCCCccccCCCC
Q 020589 263 MWQCNMCTLLNQR----NKS-------V-GNLKGWSCKFCTL 292 (324)
Q Consensus 263 ~W~c~~cTl~N~~----pk~-------~-~~~~~W~C~~CT~ 292 (324)
.|.|..|-|+-.+ |.. . .-+..|.|+.|.-
T Consensus 1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a 42 (50)
T cd00730 1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGA 42 (50)
T ss_pred CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCC
Confidence 4788888775544 210 0 2345788888863
No 42
>KOG3854 consensus SPRT-like metalloprotease [Function unknown]
Probab=76.99 E-value=1.6 Score=45.28 Aligned_cols=53 Identities=25% Similarity=0.276 Sum_probs=35.1
Q ss_pred CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhc-------CcCCCchhHHHHHHH---HHHHHHHHHH
Q 020589 66 GAEVKLRLRRPNREWDFFPYEQILDTMLHELCHN-------EYGPHNADFYKLWDE---IRKECDELMA 124 (324)
Q Consensus 66 G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~-------~~~~H~~~F~~l~~~---l~~e~~~l~~ 124 (324)
-.+|.|-+.- .---+.|..||+|||||. .+..|++.|-..=.+ .++|.-.+..
T Consensus 335 ~A~IeLs~kV------~tTAERir~TLiHEmCHaAaWv~dr~e~gHGd~wKrWa~ra~~~fPelP~i~~ 397 (505)
T KOG3854|consen 335 YAKIELSDKV------CTTAERIRDTLIHEMCHAAAWVFDREELGHGDNWKRWAYRANMAFPELPIIER 397 (505)
T ss_pred eeEEEehhhh------hhHHHHHHHHHHHHHHHHHHhhccccccCcchHHHHHHHHHhhcCCccchHHH
Confidence 4567776554 456788999999999994 278899876443333 3355554443
No 43
>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=75.03 E-value=1.2 Score=41.47 Aligned_cols=18 Identities=22% Similarity=0.329 Sum_probs=16.6
Q ss_pred HHHHHhhhhcCcCCCchh
Q 020589 90 DTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 90 ~vmlHELaH~~~~~H~~~ 107 (324)
.||.|||.|+.-++||..
T Consensus 147 ~t~AHElGHnLGm~HD~~ 164 (228)
T cd04271 147 QVFAHEIGHTFGAVHDCT 164 (228)
T ss_pred eehhhhhhhhcCCCCCCC
Confidence 699999999999999964
No 44
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=74.61 E-value=2 Score=26.95 Aligned_cols=24 Identities=21% Similarity=0.443 Sum_probs=21.6
Q ss_pred CccccCCCCCCCCCCccccccCCc
Q 020589 284 GWSCKFCTLDNSSLSERCLACGEW 307 (324)
Q Consensus 284 ~W~C~~CT~~N~~~~~~C~~Cg~~ 307 (324)
.+.|+.|...++....-|..||+.
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred cCCCcccCCcCCcccccChhhCCC
Confidence 368999999999999999999974
No 45
>COG4900 Predicted metallopeptidase [General function prediction only]
Probab=72.47 E-value=5.8 Score=34.10 Aligned_cols=55 Identities=16% Similarity=0.337 Sum_probs=38.1
Q ss_pred CCceeee--------cCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCc------CCCc--hhHHHHHHH
Q 020589 56 PSLLGIN--------IGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEY------GPHN--ADFYKLWDE 114 (324)
Q Consensus 56 ~~llGlN--------~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~------~~H~--~~F~~l~~~ 114 (324)
.++||.+ .|.+-.|.|--.. .--+|-+.=..||+|||.|+-. ..|+ .+||....-
T Consensus 44 ARIwg~pki~~e~lglnP~YviEl~sek----F~rLs~~ekvKviiHEllHIP~tfSGgLRaHg~~vn~rrv~kL 114 (133)
T COG4900 44 ARIWGIPKIFQEVLGLNPVYVIELLSEK----FKRLSCAEKVKVIIHELLHIPATFSGGLRAHGPLVNFRRVYKL 114 (133)
T ss_pred hhhhcccHHHHHHhCCCCeeeeeeehhh----cCCCChHHHHHHHHHHHhcCcccccCccccCCcchhHHHHHHH
Confidence 4677764 3566666653221 2347888899999999999974 3788 788876543
No 46
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=72.32 E-value=1.4 Score=40.70 Aligned_cols=30 Identities=30% Similarity=0.813 Sum_probs=23.4
Q ss_pred ccccccccccccccccccCCCCCCCCCCCccccCCCC
Q 020589 256 KAVDVGQMWQCNMCTLLNQRNKSVGNLKGWSCKFCTL 292 (324)
Q Consensus 256 ~~~~~~~~W~c~~cTl~N~~pk~~~~~~~W~C~~CT~ 292 (324)
.+..+..+|+|..|||-|.+ ..+-|.+|..
T Consensus 17 kp~~Deg~WdCsvCTFrNsA-------eAfkC~vCdv 46 (228)
T KOG4477|consen 17 KPNDDEGKWDCSVCTFRNSA-------EAFKCFVCDV 46 (228)
T ss_pred CCccccCceeeeeeeecchh-------hhhheeeecc
Confidence 45567789999999999976 3577777765
No 47
>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=72.17 E-value=3.6 Score=38.57 Aligned_cols=38 Identities=16% Similarity=0.107 Sum_probs=28.9
Q ss_pred CCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchhH
Q 020589 65 GGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNADF 108 (324)
Q Consensus 65 ~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~F 108 (324)
.+..|.| .- ..-.+...+..||.|||=|++-.-|..-|
T Consensus 116 P~~~I~I-~~-----~~~~~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 116 PYKFIQI-YG-----LSNYSVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred CCceEEE-Ee-----cCCCchhHHHHHHHHHhhhhccccccCcC
Confidence 3557777 22 23467788999999999999999997733
No 48
>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=70.88 E-value=3 Score=36.82 Aligned_cols=23 Identities=35% Similarity=0.492 Sum_probs=17.1
Q ss_pred CCCCCCCHHHHHHHHHHhhhhcC
Q 020589 78 REWDFFPYEQILDTMLHELCHNE 100 (324)
Q Consensus 78 ~~~~flp~~~I~~vmlHELaH~~ 100 (324)
+...|.||..=+.|+.|||+|=|
T Consensus 125 ~~~~f~~~~~~lDVvaHEltHGV 147 (150)
T PF01447_consen 125 DGQIFKPFASSLDVVAHELTHGV 147 (150)
T ss_dssp -SSSBS-GGG-HHHHHHHHHHHH
T ss_pred CCcccccCccccceeeecccccc
Confidence 33479999998999999999954
No 49
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=69.16 E-value=2.7 Score=38.46 Aligned_cols=19 Identities=42% Similarity=0.564 Sum_probs=17.6
Q ss_pred HHHHHHhhhhcCcCCCchh
Q 020589 89 LDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 89 ~~vmlHELaH~~~~~H~~~ 107 (324)
..||.|||.|+.-++||..
T Consensus 146 ~~~~AHElGH~lG~~HD~~ 164 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGS 164 (220)
T ss_pred HHHHHHHHHHHhCCCCCCC
Confidence 6999999999999999965
No 50
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=68.35 E-value=2.5 Score=30.52 Aligned_cols=30 Identities=20% Similarity=0.650 Sum_probs=17.2
Q ss_pred cccccccccccCC----CCC-------C-CCCCCccccCCCC
Q 020589 263 MWQCNMCTLLNQR----NKS-------V-GNLKGWSCKFCTL 292 (324)
Q Consensus 263 ~W~c~~cTl~N~~----pk~-------~-~~~~~W~C~~CT~ 292 (324)
.|.|..|-|+-.+ |+. . .-+..|+|+.|.-
T Consensus 1 ky~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 1 KYQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGA 42 (47)
T ss_dssp EEEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSS
T ss_pred CcCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCC
Confidence 4889999875544 221 1 3346799999874
No 51
>PF13203 DUF2201_N: Putative metallopeptidase domain
Probab=68.01 E-value=5 Score=38.16 Aligned_cols=58 Identities=14% Similarity=0.177 Sum_probs=37.5
Q ss_pred CCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC----------CchhHHHHHHHHHHH
Q 020589 56 PSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP----------HNADFYKLWDEIRKE 118 (324)
Q Consensus 56 ~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~----------H~~~F~~l~~~l~~e 118 (324)
..+...-++ |..|.++-..- .-++.+.+..+++||+-|++..+ .+...|.+=-.+.-+
T Consensus 33 ~~~~t~~tD-g~~l~~nP~~~----~~l~~~~~~~~l~HevlH~~~~H~~r~~~~~~~~d~~~wn~A~Di~VN 100 (292)
T PF13203_consen 33 DGIPTAATD-GRRLYYNPEFL----ESLSPEERVGLLLHEVLHCLLRHPWRRGGLRKRRDPELWNLACDIAVN 100 (292)
T ss_pred CCCceeeEc-CcEEEECcHHH----hcCCHHHHHHHHHHHHHHHHccchhhhccccccccHHHHHHHhHHHHH
Confidence 343344444 44777776653 34677889999999999999764 355566555444433
No 52
>COG1773 Rubredoxin [Energy production and conversion]
Probab=67.55 E-value=3.5 Score=30.91 Aligned_cols=31 Identities=19% Similarity=0.717 Sum_probs=21.0
Q ss_pred ccccccccccccCC----CCCC--------CCCCCccccCCCC
Q 020589 262 QMWQCNMCTLLNQR----NKSV--------GNLKGWSCKFCTL 292 (324)
Q Consensus 262 ~~W~c~~cTl~N~~----pk~~--------~~~~~W~C~~CT~ 292 (324)
.-|.|..|-|+--+ |+.. .-+..|.|+.|+.
T Consensus 2 ~~~~C~~CG~vYd~e~Gdp~~gi~pgT~fedlPd~w~CP~Cg~ 44 (55)
T COG1773 2 KRWRCSVCGYVYDPEKGDPRCGIAPGTPFEDLPDDWVCPECGV 44 (55)
T ss_pred CceEecCCceEeccccCCccCCCCCCCchhhCCCccCCCCCCC
Confidence 36999999986644 3311 3345788888885
No 53
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=67.47 E-value=4.6 Score=43.53 Aligned_cols=48 Identities=23% Similarity=0.419 Sum_probs=35.8
Q ss_pred cccccccccccCC-----CCCCCCCCCccccCCCCCCCCCCccccccCCcccC
Q 020589 263 MWQCNMCTLLNQR-----NKSVGNLKGWSCKFCTLDNSSLSERCLACGEWRYS 310 (324)
Q Consensus 263 ~W~c~~cTl~N~~-----pk~~~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r~~ 310 (324)
|-.|++|...||. |+=..+...=.|+-|..+|+....-|.-||+.-..
T Consensus 1 M~~Cp~Cg~~n~~~akFC~~CG~~l~~~~Cp~CG~~~~~~~~fC~~CG~~~~~ 53 (645)
T PRK14559 1 MLICPQCQFENPNNNRFCQKCGTSLTHKPCPQCGTEVPVDEAHCPNCGAETGT 53 (645)
T ss_pred CCcCCCCCCcCCCCCccccccCCCCCCCcCCCCCCCCCcccccccccCCcccc
Confidence 4579999999987 33112212226999999999999999999987544
No 54
>PF12773 DZR: Double zinc ribbon
Probab=67.38 E-value=5.6 Score=27.97 Aligned_cols=25 Identities=24% Similarity=0.557 Sum_probs=19.3
Q ss_pred CCCCccccCCCCCCCCCCccccccC
Q 020589 281 NLKGWSCKFCTLDNSSLSERCLACG 305 (324)
Q Consensus 281 ~~~~W~C~~CT~~N~~~~~~C~~Cg 305 (324)
....+.|+.|...|+.....|..||
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCccc
Confidence 3456888888888888888888776
No 55
>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=67.01 E-value=16 Score=40.73 Aligned_cols=21 Identities=38% Similarity=0.539 Sum_probs=17.9
Q ss_pred CHHHHHHHHHHhhhhcCcCCC
Q 020589 84 PYEQILDTMLHELCHNEYGPH 104 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~~~~H 104 (324)
.+..|..|+.||++|+++||=
T Consensus 279 ~~~~i~~VIaHElaHqWfGNl 299 (863)
T TIGR02414 279 DYERIESVIAHEYFHNWTGNR 299 (863)
T ss_pred HHHHHHHHHHHHHHHHHhcce
Confidence 356789999999999999963
No 56
>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=66.25 E-value=3.1 Score=36.88 Aligned_cols=22 Identities=36% Similarity=0.287 Sum_probs=19.0
Q ss_pred HHHHHHHHHhhhhcCcCCCchh
Q 020589 86 EQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~~~H~~~ 107 (324)
.....|+.|||.|+.-+.||..
T Consensus 131 ~~~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 131 LLTALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred eeehhhhhhhHHhhcCCcCCCC
Confidence 3456799999999999999976
No 57
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=65.64 E-value=4 Score=29.78 Aligned_cols=27 Identities=19% Similarity=0.532 Sum_probs=20.5
Q ss_pred CccccCCCC-CCC------------------CCCccccccCCcccC
Q 020589 284 GWSCKFCTL-DNS------------------SLSERCLACGEWRYS 310 (324)
Q Consensus 284 ~W~C~~CT~-~N~------------------~~~~~C~~Cg~~r~~ 310 (324)
.|.|..|.| .++ +..|+|-.|+..+..
T Consensus 1 ~y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K~~ 46 (50)
T cd00730 1 KYECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGKDD 46 (50)
T ss_pred CcCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcHHH
Confidence 489999998 332 567899999987643
No 58
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=65.25 E-value=2.7 Score=34.38 Aligned_cols=16 Identities=44% Similarity=0.499 Sum_probs=11.7
Q ss_pred HHHHHhhhhcCcCCCc
Q 020589 90 DTMLHELCHNEYGPHN 105 (324)
Q Consensus 90 ~vmlHELaH~~~~~H~ 105 (324)
.|+.|||-|+.-.+||
T Consensus 109 ~~~~HEiGH~lGl~Hd 124 (124)
T PF13582_consen 109 DTFAHEIGHNLGLNHD 124 (124)
T ss_dssp THHHHHHHHHTT----
T ss_pred eEeeehhhHhcCCCCC
Confidence 9999999999999996
No 59
>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=64.26 E-value=5.1 Score=35.57 Aligned_cols=23 Identities=35% Similarity=0.244 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhhhhcCcCCCchh
Q 020589 85 YEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
+.....|+.|||.|+.-++||..
T Consensus 128 ~~~~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 128 LLLFAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred hHHHHHHHHHHHHhhcCCCcCCC
Confidence 34557899999999999999987
No 60
>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=63.83 E-value=4.6 Score=35.73 Aligned_cols=98 Identities=17% Similarity=0.139 Sum_probs=45.5
Q ss_pred cceEEEecCCCCC---------HHHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCC-------CcEEE
Q 020589 7 NKVWEVKALKKIG---------EDDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGG-------GAEVK 70 (324)
Q Consensus 7 ~~v~~I~~L~~p~---------~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~-------G~~I~ 70 (324)
..|..|.....++ ...+.++|++....+...-....-.+..|--....... ||+-+-. +.-+.
T Consensus 48 ~~i~~i~i~~~~~~~~~~~~~~~~~~~~~L~~f~~~~~~~~~~~~~dl~~l~t~~d~~~g-lGlA~~g~~~~~~~~~~~~ 126 (196)
T PF13688_consen 48 FQISGITIWTSSDPYTNNVSNSNIDAEDTLQDFNNDFSSWRDSSYYDLAHLFTGRDFSGG-LGLAYVGSSCSNTSGGICS 126 (196)
T ss_dssp EEEEEEEE--S-B---TT-TSSS--HHHHHHHH--HHHTHHHHTTSSEEEEEE----GGG-EEEESSSSSSTT-SSSSS-
T ss_pred EEEEEEEEecCCCCCcccccccccCHHHHHHHHhhhhhhccCCCCCCEEEEEecccCCCC-ceeEeccccCcCCccceec
Confidence 3566677776222 25778888888655555444455456666544322223 7774332 11222
Q ss_pred EEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchh
Q 020589 71 LRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 71 LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
-+.... .....+...-..|+.|||.|+.-.+||..
T Consensus 127 ~~~~~~--~~~~~~~~~~~~~~AHEiGH~lGa~HD~~ 161 (196)
T PF13688_consen 127 SSVSGS--YGQVPPTYNGAITFAHEIGHNLGAPHDGD 161 (196)
T ss_dssp -E-EEE--TTEE--HHHHHHHHHHHHHHHTT-----S
T ss_pred cCcccc--cceECCCCceehhhHHhHHHhcCCCCCCC
Confidence 221111 11235677888999999999999999865
No 61
>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=63.33 E-value=9.5 Score=34.61 Aligned_cols=19 Identities=32% Similarity=0.371 Sum_probs=16.5
Q ss_pred CCCHHHHHHHHHHhhhhcC
Q 020589 82 FFPYEQILDTMLHELCHNE 100 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~ 100 (324)
+.....+..||.|||.|.-
T Consensus 65 ~~~~~~l~~~l~HELIHay 83 (173)
T PF09768_consen 65 IRSQGHLEDTLTHELIHAY 83 (173)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 5678899999999999964
No 62
>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=63.31 E-value=2.3 Score=41.74 Aligned_cols=46 Identities=22% Similarity=0.258 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHhhhhcC-cCCC-chhHHHHHHHHHHHHHHHHHcccc
Q 020589 83 FPYEQILDTMLHELCHNE-YGPH-NADFYKLWDEIRKECDELMAKGIT 128 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~-~~~H-~~~F~~l~~~l~~e~~~l~~~G~~ 128 (324)
+|.-.+=.|++|||||-. ++.= .++|+..+.-...+=..++..||.
T Consensus 191 ~p~~~~P~T~~HElAHq~G~a~E~EANFiayLac~~s~d~~frYSgy~ 238 (318)
T PF12725_consen 191 LPPYSLPFTICHELAHQLGFASEDEANFIAYLACINSPDPYFRYSGYL 238 (318)
T ss_pred CCcccccHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCChheeHHHHH
Confidence 444455579999999998 3333 488999998776665555555554
No 63
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=62.84 E-value=4.7 Score=44.66 Aligned_cols=24 Identities=29% Similarity=0.440 Sum_probs=20.0
Q ss_pred CCCHHHHHHHHHHhhhhcCcCCCc
Q 020589 82 FFPYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~~~~H~ 105 (324)
-..|+.|..|++|||+|++.||==
T Consensus 301 ~~~~~~~~~viaHElaHqWfGnlV 324 (859)
T COG0308 301 DSDYENVEEVIAHELAHQWFGNLV 324 (859)
T ss_pred hHHHHHHHHHHHHHHhhhccccee
Confidence 345588889999999999999854
No 64
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=62.72 E-value=6.3 Score=34.24 Aligned_cols=47 Identities=26% Similarity=0.516 Sum_probs=32.8
Q ss_pred ccccccccccCCCC----------------CCCCCCCccccCCCCCCCCCCccccccCCcccCC
Q 020589 264 WQCNMCTLLNQRNK----------------SVGNLKGWSCKFCTLDNSSLSERCLACGEWRYSN 311 (324)
Q Consensus 264 W~c~~cTl~N~~pk----------------~~~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r~~~ 311 (324)
=....|.|+||-.| |+.....|-|.+|...=.. -..|..|++.-||-
T Consensus 61 ~~l~~C~yl~pe~k~~~ri~~L~~~i~~~~pv~~~~~W~Cv~C~~~Y~G-eK~C~~C~tGiYS~ 123 (128)
T PF11682_consen 61 NGLMQCPYLDPEEKERRRIKRLRRMIADLDPVPRKTDWHCVMCGNHYHG-EKYCPKCGTGIYSI 123 (128)
T ss_pred hhcccCceECcccchHHHHHHHHHhccccCCCCcCceEEEecCCCccCc-CEecCCCCCcccce
Confidence 34556777777522 2234468999999964443 48999999998883
No 65
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=62.69 E-value=4.9 Score=41.48 Aligned_cols=39 Identities=21% Similarity=0.486 Sum_probs=25.4
Q ss_pred CCccccccccccccccccccCC----CCC-------C-CCCCCccccCCCC
Q 020589 254 GQKAVDVGQMWQCNMCTLLNQR----NKS-------V-GNLKGWSCKFCTL 292 (324)
Q Consensus 254 ~~~~~~~~~~W~c~~cTl~N~~----pk~-------~-~~~~~W~C~~CT~ 292 (324)
...++.....|.|..|-|+-.| |.. . .-+..|+|+.|..
T Consensus 416 ~~~~~~~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~ 466 (479)
T PRK05452 416 ATTTADLGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSL 466 (479)
T ss_pred cccccCCCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCC
Confidence 3445566788999999886655 221 0 3345788888874
No 66
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=62.26 E-value=5.4 Score=31.48 Aligned_cols=33 Identities=18% Similarity=0.099 Sum_probs=19.2
Q ss_pred CCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcC
Q 020589 65 GGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYG 102 (324)
Q Consensus 65 ~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~ 102 (324)
.|..|.|+--... ..-..=..+|.|||+|.+.-
T Consensus 43 ~G~~I~f~~g~~~-----~~s~~~~~llaHEl~Hv~Qq 75 (79)
T PF13699_consen 43 VGNDIYFAPGKYN-----PDSPEGRALLAHELAHVVQQ 75 (79)
T ss_pred ECCEEEEcCCCcC-----CCCCCcchhHhHHHHHHHhh
Confidence 4888988422100 00011247899999998754
No 67
>PF14521 Aspzincin_M35: Lysine-specific metallo-endopeptidase ; PDB: 2X3C_A 2X3A_A 2X3B_A 1GE7_B 1GE6_A 1GE5_A 1G12_A.
Probab=60.66 E-value=4.5 Score=35.29 Aligned_cols=39 Identities=15% Similarity=0.026 Sum_probs=19.6
Q ss_pred EEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchhH
Q 020589 68 EVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNADF 108 (324)
Q Consensus 68 ~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~F 108 (324)
+|.|--.--..+. .-...-..||+|||+|+.-.-+..++
T Consensus 78 ~IyLc~~F~~~p~--~g~~Sk~~TLiHE~SHf~~~~~T~D~ 116 (148)
T PF14521_consen 78 TIYLCPAFFSAPT--TGKDSKEGTLIHEWSHFTAVGGTDDY 116 (148)
T ss_dssp EEEE-HHHHHS-S--SSTT-HHHHHHHHHHHSCCCT--B-S
T ss_pred EEEEChhhcCCCC--CCCCchHHHHHHhhhhhhhhcCCCcc
Confidence 5666543322111 22245689999999997654444433
No 68
>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=60.61 E-value=4.1 Score=36.21 Aligned_cols=20 Identities=45% Similarity=0.602 Sum_probs=15.2
Q ss_pred HHHHHHHhhhhcCcCCCchh
Q 020589 88 ILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 88 I~~vmlHELaH~~~~~H~~~ 107 (324)
-.+|+.|||.|+.-.+|+-.
T Consensus 111 ~~~~~aHElGH~lGa~Hd~~ 130 (173)
T PF13574_consen 111 GIDTFAHELGHQLGAPHDFD 130 (173)
T ss_dssp HHHHHHHHHHHHHT---SSS
T ss_pred eeeeehhhhHhhcCCCCCCC
Confidence 56779999999999999988
No 69
>PRK13267 archaemetzincin-like protein; Reviewed
Probab=59.95 E-value=23 Score=32.09 Aligned_cols=84 Identities=17% Similarity=0.079 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCceeeeec--ccCCCCCCc-eeeecCCC--cEE-EEEecCCCC---CCCCCCHHHHHH
Q 020589 20 EDDARQILEKVAKQVQPIMRKHKWKVRILS--EFCPANPSL-LGINIGGG--AEV-KLRLRRPNR---EWDFFPYEQILD 90 (324)
Q Consensus 20 ~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~--Ef~P~~~~l-lGlN~N~G--~~I-~LRLR~~~~---~~~flp~~~I~~ 90 (324)
+-.|..+|+.|.....+ ....|--++ .+|+.+.++ .|+-.-.+ ..| ..||+.... +..-+-.+.+..
T Consensus 52 Q~~a~~iL~~l~~~~~~----~~~~vl~vt~~DLy~~~~nfvfG~a~~~~~~aVvS~~Rl~~~~~~~~~~~~l~~~R~~k 127 (179)
T PRK13267 52 QYRAEKFLPLLSRIGRF----NGDKNIGITDCDLYYRGLNFVFGLAYPNLRGAVISTYRLRPEFYGNKPDSELFEERVRK 127 (179)
T ss_pred eecHHHHHHHHHhhCCC----CCceEEEEEccccCCCCCCceeEEeecCCCEEEEEccccChhhccccchHHHHHHHHHH
Confidence 44566677666554322 444554443 356655444 56654332 222 334433210 000123466778
Q ss_pred HHHHhhhhcCcCCCchh
Q 020589 91 TMLHELCHNEYGPHNAD 107 (324)
Q Consensus 91 vmlHELaH~~~~~H~~~ 107 (324)
+++|||.|+.-..|-.+
T Consensus 128 ~~~HElGH~lGL~HC~~ 144 (179)
T PRK13267 128 EVTHELGHTLGLEHCDN 144 (179)
T ss_pred HHHHHHHHHcCCccCCC
Confidence 89999999999999544
No 70
>KOG4345 consensus NF-kappa B regulator AP20/Cezanne [Signal transduction mechanisms]
Probab=59.90 E-value=2 Score=46.34 Aligned_cols=29 Identities=10% Similarity=-0.129 Sum_probs=25.1
Q ss_pred CCCCCccccCCCCCCCCCCccccccCCcc
Q 020589 280 GNLKGWSCKFCTLDNSSLSERCLACGEWR 308 (324)
Q Consensus 280 ~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r 308 (324)
....+|+|+.||+.||+.-.+|..|-+-+
T Consensus 87 ~~~~k~~~~~~~~lnw~re~R~~~~ls~~ 115 (774)
T KOG4345|consen 87 DRNIKWPRPSLQRLNWPREKRLSRGLSHA 115 (774)
T ss_pred cccccCCchHhhhhhHHHHHHHHHHhhcc
Confidence 34468999999999999999999997765
No 71
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=59.84 E-value=5.7 Score=24.41 Aligned_cols=22 Identities=23% Similarity=0.496 Sum_probs=19.3
Q ss_pred cccCCCCCCCCCCccccccCCc
Q 020589 286 SCKFCTLDNSSLSERCLACGEW 307 (324)
Q Consensus 286 ~C~~CT~~N~~~~~~C~~Cg~~ 307 (324)
.|+.|.-+++....-|..||++
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 3899999999888899999975
No 72
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=59.75 E-value=6.4 Score=38.41 Aligned_cols=54 Identities=19% Similarity=0.320 Sum_probs=41.9
Q ss_pred cccccccccccccccccCC----------CCCC----------CCCCCccccCCCCCCCCCCccccccCCcccC
Q 020589 257 AVDVGQMWQCNMCTLLNQR----------NKSV----------GNLKGWSCKFCTLDNSSLSERCLACGEWRYS 310 (324)
Q Consensus 257 ~~~~~~~W~c~~cTl~N~~----------pk~~----------~~~~~W~C~~CT~~N~~~~~~C~~Cg~~r~~ 310 (324)
.....+.|+|+.|+|+|=+ +++. .....|.++.+-......+..|.-|...-++
T Consensus 134 r~~~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a~~~~~~s~~~~~~~~s~~~~~~~~t~~~~~~r~~~~~~~ 207 (280)
T KOG4198|consen 134 RPWRSGDWECPGCNFHNFARNSECFRCGAKRPLAALLGNQASEATEHDWLSKVADSSSSTRFESLLRCNARGEM 207 (280)
T ss_pred CCccccCcccCCCCceeccccchhhhcCCcCcccccccccccccccccccccccccccceecccchhhcccCcc
Confidence 3456689999999999975 4442 3446799999999888888888888776555
No 73
>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=59.23 E-value=7.1 Score=34.88 Aligned_cols=25 Identities=32% Similarity=0.272 Sum_probs=18.7
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCchh
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
..+...-.+|.|||.|+.-++||..
T Consensus 126 ~~~~~~a~~~AHelGH~lGm~HD~~ 150 (199)
T PF01421_consen 126 RSGLSFAVIIAHELGHNLGMPHDGD 150 (199)
T ss_dssp SSHHHHHHHHHHHHHHHTT---TTT
T ss_pred chhHHHHHHHHHHHHHhcCCCCCCC
Confidence 3456777999999999999999987
No 74
>PF02102 Peptidase_M35: Deuterolysin metalloprotease (M35) family; InterPro: IPR001384 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M35 (deuterolysin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Deuterolysin is a microbial zinc-containing metalloprotease that shows some similarity to thermolysin []. The protein is expressed with a possible 19-residue signal sequence, a 155-residue propeptide, and an active peptide of 177 residues []. The latter contains an HEXXH motif towards the C terminus, but the other zinc ligands are as yet undetermined [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 1EB6_A.
Probab=58.75 E-value=5.2 Score=40.25 Aligned_cols=22 Identities=36% Similarity=0.634 Sum_probs=13.1
Q ss_pred HHHHHHHHHhhhhcC--cCCCchh
Q 020589 86 EQILDTMLHELCHNE--YGPHNAD 107 (324)
Q Consensus 86 ~~I~~vmlHELaH~~--~~~H~~~ 107 (324)
..-..|+||||+|+. +.++..+
T Consensus 295 qDqatt~LHE~TH~~~V~~pgt~D 318 (359)
T PF02102_consen 295 QDQATTTLHEMTHAPAVYSPGTDD 318 (359)
T ss_dssp --HHHHHHHHHHT-TTTSSS--B-
T ss_pred CCccchhhhhhhccccccCCCccc
Confidence 356689999999995 5665543
No 75
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=58.50 E-value=5.3 Score=39.08 Aligned_cols=34 Identities=24% Similarity=0.466 Sum_probs=23.9
Q ss_pred cccCCCC-CCCCCCccccccCCcccC--CCCCCCCCC
Q 020589 286 SCKFCTL-DNSSLSERCLACGEWRYS--NGPPISTPG 319 (324)
Q Consensus 286 ~C~~CT~-~N~~~~~~C~~Cg~~r~~--~~~~~~~~~ 319 (324)
.|++|+. +|.-+++-|+-|+.--.- -.||.++|.
T Consensus 283 ~csicgtsenddqllfcddcdrgyhmyclsppm~epp 319 (336)
T KOG1244|consen 283 YCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPP 319 (336)
T ss_pred eeccccCcCCCceeEeecccCCceeeEecCCCcCCCC
Confidence 3567765 999999999999865433 346666553
No 76
>KOG4345 consensus NF-kappa B regulator AP20/Cezanne [Signal transduction mechanisms]
Probab=58.01 E-value=3.5 Score=44.63 Aligned_cols=27 Identities=11% Similarity=-0.011 Sum_probs=25.6
Q ss_pred CccccCCCCCCCCCCccccccCCcccC
Q 020589 284 GWSCKFCTLDNSSLSERCLACGEWRYS 310 (324)
Q Consensus 284 ~W~C~~CT~~N~~~~~~C~~Cg~~r~~ 310 (324)
.|+|.+||+.|++..-.|.+||+.|+.
T Consensus 185 eW~~lik~ass~pr~~r~~~~~~~~~~ 211 (774)
T KOG4345|consen 185 EWTELIKLASSEPRMHRSGNGGTGGGV 211 (774)
T ss_pred HHHHHHHhhcccchhhhcccCCCCCCc
Confidence 499999999999999999999999876
No 77
>PRK14015 pepN aminopeptidase N; Provisional
Probab=57.08 E-value=23 Score=39.57 Aligned_cols=19 Identities=42% Similarity=0.597 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhhhhcCcCC
Q 020589 85 YEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~ 103 (324)
+..|..|+.|||+|+++||
T Consensus 293 ~~~i~~vIaHElaHqWFGN 311 (875)
T PRK14015 293 YERIESVIAHEYFHNWTGN 311 (875)
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 4568999999999999996
No 78
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=56.98 E-value=17 Score=35.75 Aligned_cols=48 Identities=17% Similarity=0.212 Sum_probs=36.0
Q ss_pred CHHHHHHHHHHhhhhcC-cCCCchhHHHHHHHHHHHHHHHHHccccCCC
Q 020589 84 PYEQILDTMLHELCHNE-YGPHNADFYKLWDEIRKECDELMAKGITGTG 131 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~-~~~H~~~F~~l~~~l~~e~~~l~~~G~~g~g 131 (324)
|-+.|-..+.|||+|-+ +-+.|.+|-.-.....+.--.-.|.-++|+.
T Consensus 193 dd~~lA~LIFHELAHQk~Y~~~DtAFNEsFAtaVEt~Gvr~Wl~~~g~p 241 (376)
T COG4324 193 DDTYLASLIFHELAHQKIYVNNDTAFNESFATAVETSGVRKWLRATGDP 241 (376)
T ss_pred ChHHHHHHHHHHHhhheEeecCcchHhHHHHHHHHHHhHHHHHHhcCCc
Confidence 44678889999999987 6688888888877776666556666666543
No 79
>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=55.65 E-value=2.9 Score=37.83 Aligned_cols=20 Identities=40% Similarity=0.375 Sum_probs=18.0
Q ss_pred HHHHHHHhhhhcCcCCCchh
Q 020589 88 ILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 88 I~~vmlHELaH~~~~~H~~~ 107 (324)
...||.|||.|+.-++||..
T Consensus 140 ~a~~~aHElGH~LG~~HD~~ 159 (207)
T cd04273 140 SAFTIAHELGHVLGMPHDGD 159 (207)
T ss_pred eEEeeeeechhhcCCCCCCC
Confidence 34899999999999999977
No 80
>PRK15410 DgsA anti-repressor MtfA; Provisional
Probab=55.09 E-value=11 Score=36.28 Aligned_cols=62 Identities=13% Similarity=0.145 Sum_probs=37.5
Q ss_pred ceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCch----------hHHHHHHHHH-HHHHHHHH
Q 020589 58 LLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNA----------DFYKLWDEIR-KECDELMA 124 (324)
Q Consensus 58 llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~----------~F~~l~~~l~-~e~~~l~~ 124 (324)
++|-.+.+| .|-|.+..... .+-+ .=..|++||+||-..+.++. ..|+.|.+++ .+|+.+..
T Consensus 117 ~~GEaw~~G-pVVLSW~d~~~--~~~~--dg~NVvIHEFAH~LDm~~G~~adG~PpL~~~~~~~W~~~~~~~~~~l~~ 189 (260)
T PRK15410 117 QSGQSWQQG-PIVLNWLDIQD--SFDA--SGFNLIIHEVAHKLDMRNGDRASGVPFIPLREVAGWEHDLHAAMNNIQE 189 (260)
T ss_pred ccccCcCCC-cEEEEHHHhhc--ccCC--CCcchhHhHHHhHhhhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 566667777 56666654221 2222 13589999999999988754 3445555444 45555543
No 81
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=53.21 E-value=9.2 Score=31.53 Aligned_cols=16 Identities=44% Similarity=0.580 Sum_probs=13.5
Q ss_pred HHHHHHHHHhhhhcCc
Q 020589 86 EQILDTMLHELCHNEY 101 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~ 101 (324)
+.|..|++||++|..-
T Consensus 71 ~~I~~tlvhEiah~fG 86 (97)
T PF06262_consen 71 ELIRDTLVHEIAHHFG 86 (97)
T ss_dssp HHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHcC
Confidence 5688999999999753
No 82
>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=53.19 E-value=7.7 Score=42.72 Aligned_cols=19 Identities=32% Similarity=0.503 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhhhhcCcCC
Q 020589 85 YEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~ 103 (324)
...+..|++|||||.++||
T Consensus 284 ~~~~~~viaHElAHqWFGn 302 (831)
T TIGR02412 284 KENRAGVILHEMAHMWFGD 302 (831)
T ss_pred HHHHHHHHHHHHHHHHhCC
Confidence 4567899999999999984
No 83
>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=52.29 E-value=11 Score=36.58 Aligned_cols=19 Identities=32% Similarity=0.560 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhhhhcCcCC
Q 020589 85 YEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~ 103 (324)
...+..+++|||||.++||
T Consensus 292 ~~~~~~~iahElahqWfGn 310 (390)
T PF01433_consen 292 KQEIASLIAHELAHQWFGN 310 (390)
T ss_dssp HHHHHHHHHHHHHTTTBTT
T ss_pred hhhhHHHHHHHHHHHHhcc
Confidence 4578999999999999997
No 84
>PF06167 Peptidase_M90: Glucose-regulated metallo-peptidase M90; InterPro: IPR010384 MtfA (earlier known as YeeI) is a transcription factor that binds Mlc (make large colonies), itself a repressor of glucose and hence a protein important in regulation of the phosphoenolpyruvate:glucose-phosphotransferase (PtsG) system, the major glucose transporter in Escherichia coli. Mlc is a repressor of ptsG, and MtfA is found to bind and inactivate Mlc with high affinity []. The membrane-bound protein EIICBGlc encoded by the ptsG gene is the major glucose transporter in E. coli. ; PDB: 3DL1_A 3KHI_A.
Probab=51.42 E-value=15 Score=35.07 Aligned_cols=93 Identities=18% Similarity=0.166 Sum_probs=45.6
Q ss_pred HHH-HHHHHHhhcCceeeeeccc--CCCC------------------CCceeeecCCCcEEEEEecCCCCCCCCCCHHHH
Q 020589 30 VAK-QVQPIMRKHKWKVRILSEF--CPAN------------------PSLLGINIGGGAEVKLRLRRPNREWDFFPYEQI 88 (324)
Q Consensus 30 lA~-~v~pIMr~~~w~V~~L~Ef--~P~~------------------~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I 88 (324)
||+ .|.||+.--.+....+.+. ||.. .-++|-.+..| .|-|.+-... ..+.....=
T Consensus 78 IAa~Acll~l~~~~~~y~~~~~IliYP~~f~~~~~~~~~~G~v~~~~~~~~Geaw~~G-~vvLSW~~~~--~g~~~~~dg 154 (253)
T PF06167_consen 78 IAAQACLLTLGLGLDWYDGWRTILIYPDAFVSPREQQDEDGVVHEEEEVLLGEAWERG-PVVLSWEDVQ--EGFENPNDG 154 (253)
T ss_dssp HHHHHHGGGTTT-GGGGTT-SEEEEESS-------------HHHHHHHT--------S--EEEEHHHHH--HCT--SSSS
T ss_pred HHHHHHHHHcCCChhHhCCCcEEEEeCccccCCceeecCCcceeccchhhhhccccCC-cEEEEHHHHh--hccCCCCCC
Confidence 444 4888888777766666553 4531 13456556555 4555543211 122223333
Q ss_pred HHHHHHhhhhcCcCC----------CchhHHHHHHHHH-HHHHHHHHc
Q 020589 89 LDTMLHELCHNEYGP----------HNADFYKLWDEIR-KECDELMAK 125 (324)
Q Consensus 89 ~~vmlHELaH~~~~~----------H~~~F~~l~~~l~-~e~~~l~~~ 125 (324)
..|++||+||...+. |....++-|.+++ ++|+.|..+
T Consensus 155 ~NVviHEfAH~LD~~~g~adG~P~l~~~~~~~~W~~~~~~~~~~l~~~ 202 (253)
T PF06167_consen 155 HNVVIHEFAHKLDMEDGAADGVPPLHPGMSYRRWHKVFSAEYERLRER 202 (253)
T ss_dssp --HHHHHHHHHHHCTTS--SS--S---GGGHHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHhhcCCCCCCCccCCcccHHHHHHHHHHHHHHHHHH
Confidence 479999999998552 5556676666654 577777753
No 85
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=50.20 E-value=8.2 Score=33.03 Aligned_cols=20 Identities=45% Similarity=0.693 Sum_probs=17.3
Q ss_pred CCCHHHHHHHHHHhhhhcCc
Q 020589 82 FFPYEQILDTMLHELCHNEY 101 (324)
Q Consensus 82 flp~~~I~~vmlHELaH~~~ 101 (324)
|-.|+.|+.|++||+-|-..
T Consensus 70 we~y~qvlktllhefrh~mQ 89 (126)
T PF13058_consen 70 WEEYEQVLKTLLHEFRHAMQ 89 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999999654
No 86
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=49.53 E-value=10 Score=36.11 Aligned_cols=30 Identities=20% Similarity=0.612 Sum_probs=26.0
Q ss_pred CCCCccccCCCCCCCCCCccccccCCcccC
Q 020589 281 NLKGWSCKFCTLDNSSLSERCLACGEWRYS 310 (324)
Q Consensus 281 ~~~~W~C~~CT~~N~~~~~~C~~Cg~~r~~ 310 (324)
..+.|.|+-|.+....=++.|.-|++|-+-
T Consensus 351 ~~p~~~c~~cg~~~~~~~~~c~~c~~~~~~ 380 (389)
T PRK11788 351 RKPRYRCRNCGFTARTLYWHCPSCKAWETI 380 (389)
T ss_pred CCCCEECCCCCCCCccceeECcCCCCccCc
Confidence 345699999999999999999999998654
No 87
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=49.48 E-value=27 Score=34.93 Aligned_cols=42 Identities=17% Similarity=0.312 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHhhhhcC-cCCCchhHHHHHHHHHHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNE-YGPHNADFYKLWDEIRKECDELMA 124 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~-~~~H~~~F~~l~~~l~~e~~~l~~ 124 (324)
.|-..+..+|.|||||-+ +-+-|..|-.-+.....+.-...+
T Consensus 160 ~~~~~LA~LIfHELaHq~~Yv~~dt~FNEsfAtfVe~~G~~~w 202 (337)
T PF10023_consen 160 YPDGELARLIFHELAHQTLYVKGDTAFNESFATFVEREGARRW 202 (337)
T ss_pred CCchHHHHHHHHHHhhceeecCCCchhhHHHHHHHHHHHHHHH
Confidence 556689999999999987 557778888888877766555544
No 88
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=48.26 E-value=11 Score=25.56 Aligned_cols=23 Identities=26% Similarity=0.491 Sum_probs=15.6
Q ss_pred ccccCCC--C---CCC-CCCccccccCCc
Q 020589 285 WSCKFCT--L---DNS-SLSERCLACGEW 307 (324)
Q Consensus 285 W~C~~CT--~---~N~-~~~~~C~~Cg~~ 307 (324)
|+|+.|. | .|| ..-..|+.||.+
T Consensus 2 r~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~~ 30 (36)
T PF05191_consen 2 RICPKCGRIYHIEFNPPKVEGVCDNCGGE 30 (36)
T ss_dssp EEETTTTEEEETTTB--SSTTBCTTTTEB
T ss_pred cCcCCCCCccccccCCCCCCCccCCCCCe
Confidence 7888887 2 454 344889998874
No 89
>KOG1046 consensus Puromycin-sensitive aminopeptidase and related aminopeptidases [Amino acid transport and metabolism; Posttranslational modification, protein turnover, chaperones]
Probab=47.77 E-value=11 Score=42.10 Aligned_cols=19 Identities=26% Similarity=0.602 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhhhhcCcCC
Q 020589 85 YEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~ 103 (324)
...|..|+.|||||-++||
T Consensus 321 k~~va~vIaHElAHQWFGN 339 (882)
T KOG1046|consen 321 KQRVAEVIAHELAHQWFGN 339 (882)
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 7789999999999999998
No 90
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=47.61 E-value=11 Score=31.78 Aligned_cols=24 Identities=17% Similarity=0.117 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCch
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNA 106 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~ 106 (324)
.+...+..|++|||-|..--.|+.
T Consensus 100 ~~~~~~~~v~~HEiGHaLGL~H~~ 123 (154)
T PF00413_consen 100 DSGNDLQSVAIHEIGHALGLDHSN 123 (154)
T ss_dssp SSSEEHHHHHHHHHHHHTTBESSS
T ss_pred hhhhhhhhhhhhccccccCcCcCC
Confidence 455678999999999999989973
No 91
>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=47.34 E-value=9.6 Score=32.43 Aligned_cols=22 Identities=32% Similarity=0.247 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhhhcCcCCCchh
Q 020589 86 EQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~~~H~~~ 107 (324)
.....|++|||.|.+-..|+..
T Consensus 94 ~~~~~~~~HElGH~LGl~H~~~ 115 (167)
T cd00203 94 KEGAQTIAHELGHALGFYHDHD 115 (167)
T ss_pred ccchhhHHHHHHHHhCCCccCc
Confidence 3578999999999999999865
No 92
>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=46.81 E-value=9.4 Score=38.54 Aligned_cols=85 Identities=13% Similarity=0.117 Sum_probs=47.1
Q ss_pred CCHHHHHHHHHHHHH--HHHHHHhhcCc-----------eee-------eecccCCCCCC--ceee-------------e
Q 020589 18 IGEDDARQILEKVAK--QVQPIMRKHKW-----------KVR-------ILSEFCPANPS--LLGI-------------N 62 (324)
Q Consensus 18 p~~~~A~~~L~rlA~--~v~pIMr~~~w-----------~V~-------~L~Ef~P~~~~--llGl-------------N 62 (324)
-.+..+..+.++-.. .|.|...+-.= +|. ++.-|.|.... ++|+ .
T Consensus 35 is~~~~~~l~~~F~~~~~iYp~~~~ifG~pwg~d~d~~~~I~~~~~v~iviln~~~~~~~~G~~GYF~s~d~~~~~~~~~ 114 (366)
T PF10460_consen 35 ISDAQADSLAQEFDNSGKIYPRLVEIFGEPWGSDVDGNGKIPTGQPVDIVILNFNPDGSPYGTAGYFWSSDLYPKSSNPY 114 (366)
T ss_pred cCHHHHHHHHHHhccccccchhHHHhcCCCCCCCCCCCCcccCCCceEEEEEecCCCCCceeeeeeecHHHcccccccCC
Confidence 456777888888777 67776655321 121 23345443321 2344 1
Q ss_pred cCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 63 IGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 63 ~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
-|.++.+.|....-... ..--.+.+..||+||+-|+++.+
T Consensus 115 SNe~e~~YiD~~~~~~~-~~~~~~~~~sTlAHEfQHmInfy 154 (366)
T PF10460_consen 115 SNESEYFYIDSETLYLG-GNSGPDTVYSTLAHEFQHMINFY 154 (366)
T ss_pred CcceeEEEEecHHhhcc-CCccHHHHHHHHHHHHHHHHHHH
Confidence 24455555554431100 01116789999999999999654
No 93
>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=45.69 E-value=10 Score=40.28 Aligned_cols=16 Identities=38% Similarity=0.532 Sum_probs=14.1
Q ss_pred HHHHHHHhhhhcCcCC
Q 020589 88 ILDTMLHELCHNEYGP 103 (324)
Q Consensus 88 I~~vmlHELaH~~~~~ 103 (324)
...|++|||||.++||
T Consensus 279 ~~~viaHElAHqWfGN 294 (601)
T TIGR02411 279 NVDVIAHELAHSWSGN 294 (601)
T ss_pred hhhhHHHHHHhhccCc
Confidence 4579999999999995
No 94
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=45.49 E-value=11 Score=38.95 Aligned_cols=30 Identities=13% Similarity=0.140 Sum_probs=22.9
Q ss_pred CCCCccccCCCCCCCC-------------------CCccccccCCcccC
Q 020589 281 NLKGWSCKFCTLDNSS-------------------LSERCLACGEWRYS 310 (324)
Q Consensus 281 ~~~~W~C~~CT~~N~~-------------------~~~~C~~Cg~~r~~ 310 (324)
....|.|..|.|.-.+ ..|+|..||..+..
T Consensus 422 ~~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k~~ 470 (479)
T PRK05452 422 LGPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGKDV 470 (479)
T ss_pred CCCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcHHH
Confidence 4568999999983332 36999999988754
No 95
>PF15639 Tox-MPTase3: Metallopeptidase toxin 3
Probab=44.88 E-value=9 Score=33.48 Aligned_cols=41 Identities=24% Similarity=0.223 Sum_probs=25.9
Q ss_pred ceeeec--CCCcEEEEEecCCCCCCCCCC-------HHHHHHHHHHhhhhc
Q 020589 58 LLGINI--GGGAEVKLRLRRPNREWDFFP-------YEQILDTMLHELCHN 99 (324)
Q Consensus 58 llGlN~--N~G~~I~LRLR~~~~~~~flp-------~~~I~~vmlHELaH~ 99 (324)
-.|+.. .++++|.|+-....+. .--| +-.|..|+||||.|-
T Consensus 62 A~G~t~p~~~~~~i~I~~~lV~~~-Ek~~~~~r~~~~~~v~~TlLHEliHw 111 (135)
T PF15639_consen 62 AYGYTTPDDGSQVIRIDGDLVNMF-EKGPGERRAGNVYLVGSTLLHELIHW 111 (135)
T ss_pred eeeeecCCCCCcEEEeeHHHhhhh-hcCCcccccceEEEeehHHHHHHHHh
Confidence 345543 3578888877665422 2222 235779999999994
No 96
>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=44.15 E-value=1.6e+02 Score=27.16 Aligned_cols=85 Identities=14% Similarity=0.096 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCC-----------------Cceee--e-cC--CCcEEEEEecCCCC
Q 020589 21 DDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANP-----------------SLLGI--N-IG--GGAEVKLRLRRPNR 78 (324)
Q Consensus 21 ~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~-----------------~llGl--N-~N--~G~~I~LRLR~~~~ 78 (324)
+.-++.+++....-..++.+-||+-....+..|.+. ..+|+ . +| .|+-|.=.+-..++
T Consensus 20 ~~~r~aI~~A~~~Wn~~fe~~Gf~~a~~v~~~p~~~~~~Diry~~ir~~~~~~~~~~~gps~~dPrTGeIl~a~V~l~~~ 99 (197)
T cd04276 20 EKYRDAIREGVLYWNKAFEKAGFKNAIIVKVLPDDADPGDIRYNVIRWIHSPNGGWAYGPSVVDPRTGEILKADVILYSG 99 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCccEEEEeCCCCcCcccceEEEEEEEecCCCcceecccccCCCCCCeEEEEEEeCch
Confidence 667888888888889999999999888888888651 11122 0 11 25433222222111
Q ss_pred CCCC--C-----CHHHHHHHHHHhhhhcCcCCCc
Q 020589 79 EWDF--F-----PYEQILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 79 ~~~f--l-----p~~~I~~vmlHELaH~~~~~H~ 105 (324)
-... . -.+.+..+++||+-|..--.|+
T Consensus 100 ~~~~~~~~~~~~~~~~~~~~~~he~gh~lGl~hn 133 (197)
T cd04276 100 FLRQDQLWYEDLLAASLRYLLAHEVGHTLGLRHN 133 (197)
T ss_pred hhccchhHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 1100 1 1155889999999999988885
No 97
>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=43.21 E-value=34 Score=33.34 Aligned_cols=22 Identities=14% Similarity=0.525 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHhh
Q 020589 19 GEDDARQILEKVAKQVQPIMRK 40 (324)
Q Consensus 19 ~~~~A~~~L~rlA~~v~pIMr~ 40 (324)
+.+.+..+|+.|...+.|+..+
T Consensus 35 ~~e~v~~f~~~l~~~~~p~~~~ 56 (365)
T cd06258 35 SPETVEGFFEELKRKLRPLLAK 56 (365)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888988888877775544
No 98
>PLN00162 transport protein sec23; Provisional
Probab=42.51 E-value=11 Score=41.35 Aligned_cols=33 Identities=30% Similarity=0.608 Sum_probs=22.5
Q ss_pred cccccc-ccccCCCCCCCCCCCccccCCCCCCCC
Q 020589 264 WQCNMC-TLLNQRNKSVGNLKGWSCKFCTLDNSS 296 (324)
Q Consensus 264 W~c~~c-Tl~N~~pk~~~~~~~W~C~~CT~~N~~ 296 (324)
--|..| +|+||==+-......|.|.+|...|+.
T Consensus 54 vRC~~CraylNPf~~~d~~~~~W~C~~C~~~N~~ 87 (761)
T PLN00162 54 LRCRTCRAVLNPYCRVDFQAKIWICPFCFQRNHF 87 (761)
T ss_pred CccCCCcCEECCceEEecCCCEEEccCCCCCCCC
Confidence 558778 789985111123457999999998864
No 99
>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=42.48 E-value=39 Score=29.79 Aligned_cols=39 Identities=18% Similarity=0.149 Sum_probs=26.2
Q ss_pred CcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCch
Q 020589 66 GAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNA 106 (324)
Q Consensus 66 G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~ 106 (324)
+..|.|+...... ...+-.....|++|||-|.+--.|.-
T Consensus 93 ~g~i~~~~~~~~~--~~~~g~~~~~t~~HEiGHaLGL~H~~ 131 (186)
T cd04277 93 GGDIWFNSSYDTN--SDSPGSYGYQTIIHEIGHALGLEHPG 131 (186)
T ss_pred cceeEEecCcccc--cCCCChhhHHHHHHHHHHHhcCCCCC
Confidence 3467777665321 11345667899999999998776653
No 100
>PF12773 DZR: Double zinc ribbon
Probab=42.14 E-value=15 Score=25.67 Aligned_cols=23 Identities=26% Similarity=0.509 Sum_probs=16.3
Q ss_pred ccCCCCCCCCCCccccccCCccc
Q 020589 287 CKFCTLDNSSLSERCLACGEWRY 309 (324)
Q Consensus 287 C~~CT~~N~~~~~~C~~Cg~~r~ 309 (324)
|+.|...|+.....|..||++-.
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh
Confidence 66677777777777777777655
No 101
>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=42.03 E-value=18 Score=30.75 Aligned_cols=22 Identities=32% Similarity=0.240 Sum_probs=19.2
Q ss_pred HHHHHHHHHhhhhcCcCCCchh
Q 020589 86 EQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 86 ~~I~~vmlHELaH~~~~~H~~~ 107 (324)
.....|++|||-|-+-..|...
T Consensus 92 ~~~~~~~~HEiGHaLGL~H~~~ 113 (165)
T cd04268 92 ARLRNTAEHELGHALGLRHNFA 113 (165)
T ss_pred HHHHHHHHHHHHHHhcccccCc
Confidence 4688999999999998888865
No 102
>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=42.01 E-value=18 Score=33.82 Aligned_cols=33 Identities=30% Similarity=0.243 Sum_probs=19.7
Q ss_pred HHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHH
Q 020589 88 ILDTMLHELCHNEYGPHNADFYKLWDEIRKECD 120 (324)
Q Consensus 88 I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~ 120 (324)
+-.+|+||++|++++.=.......-.+...+++
T Consensus 101 ~~fil~HE~~Hv~~~h~~~~~~~~~~~eE~~AD 133 (206)
T PF10463_consen 101 IAFILLHELAHVVLGHEGDSSPSQSIQEEKEAD 133 (206)
T ss_pred HHHHHHHHHHHHHHcCccccccchhHHHHHhhh
Confidence 557899999997766444424443333333333
No 103
>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=39.33 E-value=35 Score=29.31 Aligned_cols=23 Identities=17% Similarity=0.146 Sum_probs=20.0
Q ss_pred CHHHHHHHHHHhhhhcCcCCCch
Q 020589 84 PYEQILDTMLHELCHNEYGPHNA 106 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~~~~H~~ 106 (324)
+...+..|++|||=|..--.|+.
T Consensus 103 ~~~~~~~~~~HEiGHaLGL~H~~ 125 (157)
T cd04278 103 GGTDLFSVAAHEIGHALGLGHSS 125 (157)
T ss_pred ccchHHHHHHHHhccccccCCCC
Confidence 45679999999999999889984
No 104
>KOG3607 consensus Meltrins, fertilins and related Zn-dependent metalloproteinases of the ADAMs family [Posttranslational modification, protein turnover, chaperones]
Probab=39.21 E-value=17 Score=39.84 Aligned_cols=22 Identities=27% Similarity=0.187 Sum_probs=19.8
Q ss_pred HHHHHHHHHHhhhhcCcCCCch
Q 020589 85 YEQILDTMLHELCHNEYGPHNA 106 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~H~~ 106 (324)
+..+..||.|||+|++-+.||.
T Consensus 320 ~~~~a~v~AhelgH~lGm~hD~ 341 (716)
T KOG3607|consen 320 LLAFAVVLAHELGHNLGMIHDE 341 (716)
T ss_pred chhHHHHHHHHHHhhcCccccc
Confidence 4567789999999999999998
No 105
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=37.59 E-value=16 Score=31.81 Aligned_cols=16 Identities=25% Similarity=0.302 Sum_probs=12.2
Q ss_pred CCCCccccccCCcccC
Q 020589 295 SSLSERCLACGEWRYS 310 (324)
Q Consensus 295 ~~~~~~C~~Cg~~r~~ 310 (324)
-..+++|.+||..|+-
T Consensus 115 r~~~l~C~ACGa~~~v 130 (133)
T TIGR00311 115 RVSLLKCEACGAKAPL 130 (133)
T ss_pred CeEEEecccCCCCCcc
Confidence 3446899999998864
No 106
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=36.94 E-value=70 Score=29.94 Aligned_cols=40 Identities=23% Similarity=0.187 Sum_probs=26.4
Q ss_pred CHHHHHHHHHHhhhhcCcCCCch-hHH-----HHHHHHHHHHHHHH
Q 020589 84 PYEQILDTMLHELCHNEYGPHNA-DFY-----KLWDEIRKECDELM 123 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~~~~H~~-~F~-----~l~~~l~~e~~~l~ 123 (324)
+.+.-.-||.|||-|.+-..+.. .|- ....++..++..+-
T Consensus 68 ~~~r~rFtlAHELGH~llH~~~~~~~~~~~~~~~~~~~E~~AN~FA 113 (213)
T COG2856 68 SLERKRFTLAHELGHALLHTDLNTRFDAEPTLQQDRKIEAEANAFA 113 (213)
T ss_pred CHHHHHHHHHHHHhHHHhccccchhhhcccccchhHHHHHHHHHHH
Confidence 66778899999999999665542 221 34455556555543
No 107
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=36.67 E-value=36 Score=35.16 Aligned_cols=67 Identities=12% Similarity=0.131 Sum_probs=43.1
Q ss_pred HHHHHhhcCceeeeecccC---C---CCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCC
Q 020589 34 VQPIMRKHKWKVRILSEFC---P---ANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 34 v~pIMr~~~w~V~~L~Ef~---P---~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~ 103 (324)
++-+++..||-...+-+.- | .|+-+.|+..|+.-+|.=.|-.. ..-+.-|+|..|+.|||.|-.++.
T Consensus 223 Ie~la~s~gfp~~k~~vi~~s~rs~hsNAyfyG~~~~KRIvIyDtLl~~---~~~~~~eel~AVl~HELGHW~~~H 295 (428)
T KOG2719|consen 223 IERLADSVGFPLSKYRVIDGSKRSSHSNAYFYGLCKNKRIVIYDTLLLE---EEHLNNEELVAVLAHELGHWKLNH 295 (428)
T ss_pred HHHHHHhcCCCceEEEEEecCCCCCCCCeeeeeccccceEEEehhhhhh---hhccccHHHHHHHHHHhhHHHHhh
Confidence 3344445566655555554 2 36789999999876664333321 111567899999999999977653
No 108
>PRK09672 phage exclusion protein Lit; Provisional
Probab=36.38 E-value=27 Score=34.55 Aligned_cols=19 Identities=26% Similarity=0.464 Sum_probs=14.7
Q ss_pred HHHHHHHHhhhhcCcCCCc
Q 020589 87 QILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 87 ~I~~vmlHELaH~~~~~H~ 105 (324)
.+-++++||++|++++.=.
T Consensus 164 A~a~i~~HEiaHv~~~h~~ 182 (305)
T PRK09672 164 ALAWILLHEIAHVEFQHSS 182 (305)
T ss_pred HHHHHHHHHHHHHHhcccc
Confidence 3568999999999976433
No 109
>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=36.00 E-value=25 Score=30.11 Aligned_cols=23 Identities=35% Similarity=0.289 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhhhhcCcCCCchh
Q 020589 85 YEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
...+..|++|||=|.+--.|...
T Consensus 101 ~~~~~~~~~HEiGHaLGL~H~~~ 123 (156)
T cd04279 101 AENLQAIALHELGHALGLWHHSD 123 (156)
T ss_pred chHHHHHHHHHhhhhhcCCCCCC
Confidence 35788999999999998888855
No 110
>cd00491 4Oxalocrotonate_Tautomerase 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one dimer and the third from a neighboring monomer. Each monomer is a beta-alpha-beta fold with two small beta strands at the C-terminus that fold back on themselves. A pair of monomers form a dimer with two-fold symmetry, consisting of a 4-stranded beta sheet with two helices on one side and two additional small beta strands at each end. The dimers are assembled around a 3-fold axis of rotation to form a hexamer, with the short beta strands from each dimer contacting the neighboring dimers.
Probab=35.93 E-value=1.4e+02 Score=20.87 Aligned_cols=47 Identities=21% Similarity=0.330 Sum_probs=34.2
Q ss_pred eEEEecCCCCCHHHHHHHHHHHHHHHHHHH-hhcCceeeeecccCCCC
Q 020589 9 VWEVKALKKIGEDDARQILEKVAKQVQPIM-RKHKWKVRILSEFCPAN 55 (324)
Q Consensus 9 v~~I~~L~~p~~~~A~~~L~rlA~~v~pIM-r~~~w~V~~L~Ef~P~~ 55 (324)
+..|+.++..+.++-++|.+.|+..+..++ .....-.-.+.|+-|.+
T Consensus 2 ~i~i~~~~grt~eqk~~l~~~i~~~l~~~~g~~~~~v~V~i~e~~~~~ 49 (58)
T cd00491 2 FVQIYILEGRTDEQKRELIERVTEAVSEILGAPEATIVVIIDEMPKEN 49 (58)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHHHHHHHHhCcCcccEEEEEEEeCchh
Confidence 456777875579999999999999998888 44445555566665443
No 111
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=35.17 E-value=19 Score=31.59 Aligned_cols=17 Identities=24% Similarity=0.339 Sum_probs=13.1
Q ss_pred CCCCCccccccCCcccC
Q 020589 294 NSSLSERCLACGEWRYS 310 (324)
Q Consensus 294 N~~~~~~C~~Cg~~r~~ 310 (324)
+-.-+++|.+||..++-
T Consensus 119 ~r~~~l~C~ACGa~~~V 135 (138)
T PRK03988 119 GRIWVLKCEACGAETPV 135 (138)
T ss_pred CCeEEEEcccCCCCCcC
Confidence 34557899999998864
No 112
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=33.37 E-value=24 Score=29.66 Aligned_cols=38 Identities=26% Similarity=0.423 Sum_probs=26.0
Q ss_pred CCCCccccCCCCCCCC----------CCccccccCCcccCCCCCCCCC
Q 020589 281 NLKGWSCKFCTLDNSS----------LSERCLACGEWRYSNGPPISTP 318 (324)
Q Consensus 281 ~~~~W~C~~CT~~N~~----------~~~~C~~Cg~~r~~~~~~~~~~ 318 (324)
-++..+|++|.-++.+ .+..|..||.--.---|+++.|
T Consensus 19 L~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev~~l~~~ 66 (104)
T COG4888 19 LPKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFECEVPELSEP 66 (104)
T ss_pred CCceEecCccCCeeeeEEEEEecCceeEEEcccCcceEEEeccccccc
Confidence 4567999999987766 5688999997433333444443
No 113
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=32.70 E-value=23 Score=32.35 Aligned_cols=18 Identities=39% Similarity=0.418 Sum_probs=17.0
Q ss_pred HHHHHhhhhcCcCCCchh
Q 020589 90 DTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 90 ~vmlHELaH~~~~~H~~~ 107 (324)
+|+.|||-|+.--.|+-.
T Consensus 139 ~~~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 139 QTFAHEIGHNLGLRHDFD 156 (206)
T ss_pred hHHHHHHHHHhcCCCCcc
Confidence 789999999999999987
No 114
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=32.37 E-value=24 Score=26.06 Aligned_cols=29 Identities=24% Similarity=0.435 Sum_probs=20.7
Q ss_pred ccccccccC-CCCCCCCCCCccccCCCCCC
Q 020589 266 CNMCTLLNQ-RNKSVGNLKGWSCKFCTLDN 294 (324)
Q Consensus 266 c~~cTl~N~-~pk~~~~~~~W~C~~CT~~N 294 (324)
|..|-..|= .|+...+...|.|+.|...|
T Consensus 25 C~~C~~hNGla~~~~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 25 CSKCFSHNGLAPKEEFEEIQYRCPYCGALN 54 (54)
T ss_pred CcccchhhcccccccCCceEEEcCCCCCcC
Confidence 888877773 35544455589999998776
No 115
>KOG3658 consensus Tumor necrosis factor-alpha-converting enzyme (TACE/ADAM17) and related metalloproteases [Extracellular structures]
Probab=32.14 E-value=60 Score=35.57 Aligned_cols=102 Identities=20% Similarity=0.200 Sum_probs=61.2
Q ss_pred cceEEEecCCCCC------------HHHHHHHHHHHHHH---------HHHHHhhcCceeeeecccC---CCCCCceeee
Q 020589 7 NKVWEVKALKKIG------------EDDARQILEKVAKQ---------VQPIMRKHKWKVRILSEFC---PANPSLLGIN 62 (324)
Q Consensus 7 ~~v~~I~~L~~p~------------~~~A~~~L~rlA~~---------v~pIMr~~~w~V~~L~Ef~---P~~~~llGlN 62 (324)
+-|.+|+.+..|. .++-..+|+-++-. +..+.--+.|.+++|.=-+ |....-=|++
T Consensus 280 F~IkrIkI~~~~~~~~~~~~~~N~f~~e~~~v~~fl~l~s~~~~sdfCLAylfT~rdFe~GtLGLAwVgsp~~~saGGIC 359 (764)
T KOG3658|consen 280 FVIKRIKILDSPACVRPGEDHYNMFCEEVKDVLEFLSLNSEEKHSDFCLAYLFTYRDFEGGTLGLAWVGSPRSNSAGGIC 359 (764)
T ss_pred EEEEEEEecCchhhcccCcCccccchhhHHHHHHHhhhhhhccccchhheeeeeecccccceeeeEEeccCccCCCCccc
Confidence 4578888888554 23444555554421 5566666777777775443 2222222221
Q ss_pred -----cCCCcEEEEEecCCC--CCCCCCCHHHHHHHHHHhhhhcCcCCCchhH
Q 020589 63 -----IGGGAEVKLRLRRPN--REWDFFPYEQILDTMLHELCHNEYGPHNADF 108 (324)
Q Consensus 63 -----~N~G~~I~LRLR~~~--~~~~flp~~~I~~vmlHELaH~~~~~H~~~F 108 (324)
.|-|.++.|+.=... +...-.|.....-|+.||+-||.-.+||..=
T Consensus 360 ~k~~~y~~G~~~sLNtGi~T~~NYg~~Vp~kvs~lt~AHEiGHNfGSpHDp~~ 412 (764)
T KOG3658|consen 360 EKAYTYNEGKKRSLNTGISTSVNYGKRVPTKVSDLTLAHEIGHNFGSPHDPDI 412 (764)
T ss_pred ccceeccCcceEEeecceeeeeecCCccCcchhheeehhhhccccCCCCCCCC
Confidence 233545554432211 2335688899999999999999999999753
No 116
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=31.92 E-value=24 Score=31.98 Aligned_cols=23 Identities=22% Similarity=0.720 Sum_probs=16.6
Q ss_pred cccccccccccCCCCCCCCCCCccccCCC
Q 020589 263 MWQCNMCTLLNQRNKSVGNLKGWSCKFCT 291 (324)
Q Consensus 263 ~W~c~~cTl~N~~pk~~~~~~~W~C~~CT 291 (324)
.|-|++|-|+=-- ...|.||+|.
T Consensus 134 ~~vC~vCGy~~~g------e~P~~CPiCg 156 (166)
T COG1592 134 VWVCPVCGYTHEG------EAPEVCPICG 156 (166)
T ss_pred EEEcCCCCCcccC------CCCCcCCCCC
Confidence 8999999663221 1249999997
No 117
>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=31.88 E-value=23 Score=29.58 Aligned_cols=18 Identities=28% Similarity=0.158 Sum_probs=15.2
Q ss_pred HHHHHhhhhcCcCCCchh
Q 020589 90 DTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 90 ~vmlHELaH~~~~~H~~~ 107 (324)
.|++|||-|.+-..|...
T Consensus 88 ~~~~HEigHaLGl~H~~~ 105 (140)
T smart00235 88 GVAAHELGHALGLYHEQS 105 (140)
T ss_pred ccHHHHHHHHhcCCcCCC
Confidence 499999999998888753
No 118
>PF14891 Peptidase_M91: Effector protein
Probab=31.21 E-value=16 Score=32.41 Aligned_cols=19 Identities=21% Similarity=0.132 Sum_probs=14.8
Q ss_pred HHHHHHhhhhcCcCCCchh
Q 020589 89 LDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 89 ~~vmlHELaH~~~~~H~~~ 107 (324)
.-+|.|||+|-.|.-++..
T Consensus 104 ~v~L~HEL~HA~~~~~Gt~ 122 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMNGTM 122 (174)
T ss_pred HHHHHHHHHHHHHHHCCCC
Confidence 4688999999887766654
No 119
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=31.17 E-value=22 Score=30.64 Aligned_cols=15 Identities=40% Similarity=0.357 Sum_probs=12.7
Q ss_pred HHHHHHHHhhhhcCc
Q 020589 87 QILDTMLHELCHNEY 101 (324)
Q Consensus 87 ~I~~vmlHELaH~~~ 101 (324)
-.+.|+.|||+|...
T Consensus 78 GC~~TL~HEL~H~WQ 92 (141)
T PHA02456 78 GCRDTLAHELNHAWQ 92 (141)
T ss_pred chHHHHHHHHHHHHh
Confidence 467999999999864
No 120
>PRK09928 choline transport protein BetT; Provisional
Probab=30.83 E-value=1.1e+02 Score=33.42 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=42.4
Q ss_pred CCCHHHHHHHHHHHHH----HHHHHHhhcCceeeeecccCCCCC---CceeeecCCCcEEEE
Q 020589 17 KIGEDDARQILEKVAK----QVQPIMRKHKWKVRILSEFCPANP---SLLGINIGGGAEVKL 71 (324)
Q Consensus 17 ~p~~~~A~~~L~rlA~----~v~pIMr~~~w~V~~L~Ef~P~~~---~llGlN~N~G~~I~L 71 (324)
.|.+++++++|+.++. .|+.-|+++||.|.....+ +.+. .-+.+.+.+|+...+
T Consensus 539 ~p~~~~~~~f~~~~~~pA~~~v~~el~~~g~~~~~~~~~-~~~~~~~~~~~l~v~~~~~~~F 599 (679)
T PRK09928 539 YPGTRYTRRMLDTVCRPAMEEVAQELRLRGAYVELNELP-PEEDERLGHLDLLVHLGDEQNF 599 (679)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCeEEEEecc-ccccCCCCceEEEEccCCCCce
Confidence 7999999999999987 5999999999999987633 3332 356788888775443
No 121
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.71 E-value=15 Score=35.30 Aligned_cols=10 Identities=20% Similarity=0.504 Sum_probs=8.8
Q ss_pred CCccccCCCC
Q 020589 283 KGWSCKFCTL 292 (324)
Q Consensus 283 ~~W~C~~CT~ 292 (324)
..|+||.|.|
T Consensus 61 ~VvvCP~C~y 70 (267)
T COG1655 61 DVVVCPICYY 70 (267)
T ss_pred EEEEcchhhH
Confidence 5799999987
No 122
>KOG3965 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.23 E-value=2.6e+02 Score=25.21 Aligned_cols=36 Identities=36% Similarity=0.408 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecC
Q 020589 20 EDDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIG 64 (324)
Q Consensus 20 ~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N 64 (324)
+.+|..+.+.++..|.-|. .+||.|..+.++=+||.
T Consensus 34 e~EA~A~V~e~~~~V~~i~---------VSe~Lp~~~dliyiNV~ 69 (160)
T KOG3965|consen 34 ELEAIAAVNEVAFAVQHIS---------VSEMLPRTSDLIYINVR 69 (160)
T ss_pred HHHHHHHHHHHHHHHHHHH---------HHHhcCCCCCeEEEEeE
Confidence 5778888888888888874 68999999999888885
No 123
>PRK12496 hypothetical protein; Provisional
Probab=30.00 E-value=32 Score=30.70 Aligned_cols=23 Identities=26% Similarity=0.515 Sum_probs=18.1
Q ss_pred ccccCCC--CCCCCCCccccccCCc
Q 020589 285 WSCKFCT--LDNSSLSERCLACGEW 307 (324)
Q Consensus 285 W~C~~CT--~~N~~~~~~C~~Cg~~ 307 (324)
..|+.|. |........|..||++
T Consensus 128 ~~C~gC~~~~~~~~~~~~C~~CG~~ 152 (164)
T PRK12496 128 KVCKGCKKKYPEDYPDDVCEICGSP 152 (164)
T ss_pred EECCCCCccccCCCCCCcCCCCCCh
Confidence 5699999 5444566889999987
No 124
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=28.66 E-value=37 Score=21.54 Aligned_cols=22 Identities=23% Similarity=0.522 Sum_probs=18.7
Q ss_pred cccCCCCCCCCCCccccccCCc
Q 020589 286 SCKFCTLDNSSLSERCLACGEW 307 (324)
Q Consensus 286 ~C~~CT~~N~~~~~~C~~Cg~~ 307 (324)
+|+-|.-+-+.....|..||..
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCC
Confidence 5888998888888999999864
No 125
>PF10103 DUF2342: Uncharacterised conserved protein (DUF2342); InterPro: IPR018766 This entry represents a family of proteins whose function is currently unknown. These proteins are predominantly found in the actinobacteria (high GC Gram-positive bacteria), though some occur in other bacterial species and archaea. ; PDB: 3CMN_A.
Probab=27.57 E-value=39 Score=33.77 Aligned_cols=38 Identities=18% Similarity=-0.025 Sum_probs=27.3
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECD 120 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~ 120 (324)
=|-+.-+|+.|||.||-+...|.+---..+.....+|-
T Consensus 152 ~~~d~rlwvalhE~aH~~lF~~~PWLr~~l~~~v~~~a 189 (342)
T PF10103_consen 152 DPDDFRLWVALHEAAHARLFAAVPWLRDHLLGAVEEYA 189 (342)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTSTHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHH
Confidence 35567789999999999999888765555555544443
No 126
>PF05548 Peptidase_M11: Gametolysin peptidase M11; InterPro: IPR008752 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 M11 (gametolysin 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 type example is gametolysin from the unicellular biflagellated alga, Chlamydomonas reinhardtii Gametolysin is a zinc-containing metallo-protease, which is responsible for the degradation of the cell wall. Homologues of gametolysin have also been reported in the simple multicellular organism, Volvox [, ].
Probab=27.44 E-value=31 Score=33.95 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=27.1
Q ss_pred CceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhcCcCCCchh
Q 020589 57 SLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 57 ~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
...|+-.-.|....+...... ...+ .|++|||-||.-..|+-.
T Consensus 127 ~w~Gla~v~G~~~~~~~~~~~----~~~~----~~~~HElgHN~GL~Ha~~ 169 (314)
T PF05548_consen 127 GWAGLATVPGSQSWLWISGYG----VQDW----ATIMHELGHNLGLWHAGR 169 (314)
T ss_pred CceEEeecCCcceeeeecCcc----cccH----HHHHHHhhhhccccccCC
Confidence 345664334666666554321 1111 399999999999999953
No 127
>PF07998 Peptidase_M54: Peptidase family M54; InterPro: IPR012962 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 represents zinc-dependent peptidases belonging to the MEROPS peptidase family M54, more commonly known as the archaemetzincins. The family has a wide taxonomic distribution, being found in archaea, bacteria and eukaryotes. Two human homologues have been characterised []. ; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 3LMC_A 2XHQ_A 2X7M_A.
Probab=27.39 E-value=41 Score=31.12 Aligned_cols=23 Identities=26% Similarity=0.237 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhhhhcCcCCCchh
Q 020589 85 YEQILDTMLHELCHNEYGPHNAD 107 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~H~~~ 107 (324)
++.+..+++|||.|+.--.|=.+
T Consensus 142 ~~R~~Kea~HElGH~~GL~HC~~ 164 (194)
T PF07998_consen 142 LERVCKEAVHELGHLFGLDHCEN 164 (194)
T ss_dssp HHHHHHHHHHHHHHHTT----SS
T ss_pred HHHHHHHHHHHHHHHcCCcCCCC
Confidence 57788999999999998888554
No 128
>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=27.34 E-value=43 Score=35.03 Aligned_cols=20 Identities=20% Similarity=0.368 Sum_probs=14.9
Q ss_pred CHHHHHHHHHHhhhhcCcCC
Q 020589 84 PYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~~~~ 103 (324)
.+....+|++||++|..-..
T Consensus 206 ~~~~~~~~~~HEi~HaLGFs 225 (521)
T PF01457_consen 206 YFQEFFRTVIHEIAHALGFS 225 (521)
T ss_dssp --HHHHHHHHHHHHHHTT-S
T ss_pred hhhcccceeeeeeeeeeeec
Confidence 46788899999999998543
No 129
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=26.97 E-value=30 Score=31.91 Aligned_cols=17 Identities=41% Similarity=0.653 Sum_probs=13.5
Q ss_pred CCCCCccccccCCcccC
Q 020589 294 NSSLSERCLACGEWRYS 310 (324)
Q Consensus 294 N~~~~~~C~~Cg~~r~~ 310 (324)
+-.-+++|.+||..++-
T Consensus 115 ~~~~~l~C~aCGa~~~v 131 (201)
T PRK12336 115 DRVLMLRCDACGAHRPV 131 (201)
T ss_pred CCeEEEEcccCCCCccc
Confidence 34557899999999886
No 130
>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=25.58 E-value=41 Score=30.29 Aligned_cols=19 Identities=26% Similarity=0.239 Sum_probs=15.3
Q ss_pred HHHHHHHHhhhhcCcCCCc
Q 020589 87 QILDTMLHELCHNEYGPHN 105 (324)
Q Consensus 87 ~I~~vmlHELaH~~~~~H~ 105 (324)
....|++|||-|-+-..|.
T Consensus 91 ~~~~~i~HElgHaLG~~HE 109 (198)
T cd04327 91 EFSRVVLHEFGHALGFIHE 109 (198)
T ss_pred hHHHHHHHHHHHHhcCccc
Confidence 4568999999999866664
No 131
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=25.22 E-value=41 Score=30.68 Aligned_cols=15 Identities=40% Similarity=0.525 Sum_probs=11.6
Q ss_pred HHHHHHHHhhhhcCc
Q 020589 87 QILDTMLHELCHNEY 101 (324)
Q Consensus 87 ~I~~vmlHELaH~~~ 101 (324)
.+..|++||+.|-+-
T Consensus 21 ~~l~t~~HE~gHal~ 35 (200)
T PF13398_consen 21 RLLVTFVHELGHALA 35 (200)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455699999999653
No 132
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=24.24 E-value=50 Score=31.09 Aligned_cols=22 Identities=27% Similarity=0.295 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhhhhcCcCCCch
Q 020589 85 YEQILDTMLHELCHNEYGPHNA 106 (324)
Q Consensus 85 ~~~I~~vmlHELaH~~~~~H~~ 106 (324)
...++.|++||+.|....-.+-
T Consensus 89 ~~~~~~~l~HE~GHAlI~~~~l 110 (220)
T PF14247_consen 89 IGNVLFTLYHELGHALIDDLDL 110 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC
Confidence 4457899999999987765543
No 133
>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=23.77 E-value=37 Score=36.38 Aligned_cols=18 Identities=28% Similarity=0.523 Sum_probs=15.0
Q ss_pred HHHHHHHHhhhhcCcCCC
Q 020589 87 QILDTMLHELCHNEYGPH 104 (324)
Q Consensus 87 ~I~~vmlHELaH~~~~~H 104 (324)
....|++||+||-+.||=
T Consensus 287 sl~~vIaHEIAHSWtGNl 304 (613)
T KOG1047|consen 287 SLVDVIAHEIAHSWTGNL 304 (613)
T ss_pred chhhHHHHHhhhhhcccc
Confidence 457899999999988863
No 134
>TIGR03624 putative hydrolase. Members of this protein family have a phylogenetic distribution skewed toward the Actinobacteria (high GC Gram-positive bacteria), but with a few members occuring in the Archaea and Chloroflexi. The function is unknown.
Probab=23.64 E-value=70 Score=32.11 Aligned_cols=37 Identities=19% Similarity=0.031 Sum_probs=26.3
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKEC 119 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~ 119 (324)
=|-+.-+|+.+||.||-....|.+---..+.....+|
T Consensus 151 ~~~d~rlwlalhE~aH~~lF~avPWLr~~l~~~ve~~ 187 (345)
T TIGR03624 151 PPDDFRLWVALHEVTHRRQFRAVPWLRDHLEGAVEEL 187 (345)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHH
Confidence 3455677999999999999999875544444444443
No 135
>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=23.33 E-value=41 Score=30.30 Aligned_cols=16 Identities=44% Similarity=0.360 Sum_probs=11.7
Q ss_pred HHHHHHhhhhcCcCCC
Q 020589 89 LDTMLHELCHNEYGPH 104 (324)
Q Consensus 89 ~~vmlHELaH~~~~~H 104 (324)
..|++|||.|-+-..|
T Consensus 80 ~~~i~HEl~HaLG~~H 95 (191)
T PF01400_consen 80 VGTILHELGHALGFWH 95 (191)
T ss_dssp HHHHHHHHHHHHTB--
T ss_pred ccchHHHHHHHHhhhh
Confidence 4699999999875555
No 136
>TIGR03883 DUF2342_F420 uncharacterized protein, coenzyme F420 biosynthesis associated. protein whose crystal structure has been determined (PDB:3CMN_A). This has been annotated as a putative hydrolase, but the support for that assertion is untraceable. There is no cofactor present in the structure.
Probab=23.04 E-value=76 Score=31.90 Aligned_cols=37 Identities=16% Similarity=-0.017 Sum_probs=26.0
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKEC 119 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~ 119 (324)
=|-+.-+|+.+||.||-+...|.+---..+.....+|
T Consensus 155 ~~~d~rlwlalhE~aH~~~F~avPWLr~~l~~~ve~~ 191 (346)
T TIGR03883 155 DPHDFRLWVCLHEVTHRVQFTAAPWLRDHLEGELEAL 191 (346)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHHHHHH
Confidence 3456678999999999999999875444444444433
No 137
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=22.61 E-value=38 Score=35.17 Aligned_cols=26 Identities=27% Similarity=0.678 Sum_probs=19.9
Q ss_pred ccccCCC-C---CCCCCCccccccCCcccC
Q 020589 285 WSCKFCT-L---DNSSLSERCLACGEWRYS 310 (324)
Q Consensus 285 W~C~~CT-~---~N~~~~~~C~~Cg~~r~~ 310 (324)
=.|.+|- | .|+..|..|+.||+|=.-
T Consensus 129 C~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~ 158 (446)
T PF07227_consen 129 CMCCICSKFDDNKNTCSWIGCDVCGHWCHL 158 (446)
T ss_pred CCccccCCcccCCCCeeEEeccCCCceehh
Confidence 4566775 3 688999999999998543
No 138
>KOG0593 consensus Predicted protein kinase KKIAMRE [General function prediction only]
Probab=22.43 E-value=67 Score=32.50 Aligned_cols=38 Identities=24% Similarity=0.191 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHhhhhcCcCCCchhHHHHHHHHHHHHH
Q 020589 83 FPYEQILDTMLHELCHNEYGPHNADFYKLWDEIRKECD 120 (324)
Q Consensus 83 lp~~~I~~vmlHELaH~~~~~H~~~F~~l~~~l~~e~~ 120 (324)
+=||.++.||||||-|+-+|=-+..-.+.+-|+..-..
T Consensus 78 LVFE~~dhTvL~eLe~~p~G~~~~~vk~~l~Q~l~ai~ 115 (396)
T KOG0593|consen 78 LVFEYCDHTVLHELERYPNGVPSELVKKYLYQLLKAIH 115 (396)
T ss_pred EEeeecchHHHHHHHhccCCCCHHHHHHHHHHHHHHhh
Confidence 44667899999999999988777666666666655433
No 139
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=21.92 E-value=50 Score=34.66 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=16.7
Q ss_pred CHHHHHHHHHHhhhhcCcCC
Q 020589 84 PYEQILDTMLHELCHNEYGP 103 (324)
Q Consensus 84 p~~~I~~vmlHELaH~~~~~ 103 (324)
...++..||.||+.|+..++
T Consensus 126 ~esElagViAHEigHv~qrH 145 (484)
T COG4783 126 NESELAGVIAHEIGHVAQRH 145 (484)
T ss_pred CHHHHHHHHHHHHHHHhhhh
Confidence 34589999999999998764
No 140
>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=20.67 E-value=60 Score=29.17 Aligned_cols=14 Identities=36% Similarity=0.546 Sum_probs=11.3
Q ss_pred HHHHHHHHhhhhcC
Q 020589 87 QILDTMLHELCHNE 100 (324)
Q Consensus 87 ~I~~vmlHELaH~~ 100 (324)
.+..+.+||++|-.
T Consensus 8 ~~~~i~~HE~aHa~ 21 (181)
T cd06158 8 VLLAITLHEFAHAY 21 (181)
T ss_pred HHHHHHHHHHHHHH
Confidence 56789999999843
No 141
>KOG1299 consensus Vacuolar sorting protein VPS45/Stt10 (Sec1 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.55 E-value=2.8e+02 Score=29.51 Aligned_cols=68 Identities=18% Similarity=0.172 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCceeeeecccCCCCCCceeeecCCCcEEEEEecCCCCCCCCCCHHHHHHHHHHhhhhc
Q 020589 20 EDDARQILEKVAKQVQPIMRKHKWKVRILSEFCPANPSLLGINIGGGAEVKLRLRRPNREWDFFPYEQILDTMLHELCHN 99 (324)
Q Consensus 20 ~~~A~~~L~rlA~~v~pIMr~~~w~V~~L~Ef~P~~~~llGlN~N~G~~I~LRLR~~~~~~~flp~~~I~~vmlHELaH~ 99 (324)
-+.+-...+|+|..|...|.+ =..|-+| +. -.-.-+.|-|....|+..-+=...--..|+|||.|+
T Consensus 178 Yq~~S~~~~~lAe~vs~~i~~----E~~lFdf-r~---------~~~~p~LLiLDR~~DpvTPLL~qWTYQaMvHEl~gi 243 (549)
T KOG1299|consen 178 YQTSSRACKRLAEEVSYRITK----ESTLFDF-RR---------TDSPPLLLILDRRDDPVTPLLNQWTYQAMVHELLGI 243 (549)
T ss_pred eecCCHHHHHHHHHHHHHHhh----hhhhccc-cc---------CCCCCeEEEEecCCCCCchhhhHHHHHHHHHHHhcc
Confidence 344456778899988888877 1233333 11 011246677777677777777788888999999997
Q ss_pred Cc
Q 020589 100 EY 101 (324)
Q Consensus 100 ~~ 101 (324)
.-
T Consensus 244 ~n 245 (549)
T KOG1299|consen 244 KN 245 (549)
T ss_pred cc
Confidence 53
No 142
>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=20.17 E-value=60 Score=28.52 Aligned_cols=14 Identities=36% Similarity=0.572 Sum_probs=11.6
Q ss_pred HHHHHHHHhhhhcC
Q 020589 87 QILDTMLHELCHNE 100 (324)
Q Consensus 87 ~I~~vmlHELaH~~ 100 (324)
.+..+++||+.|..
T Consensus 6 ~~i~i~~HE~gH~~ 19 (192)
T PF02163_consen 6 LLISIVLHELGHAL 19 (192)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred cccccccccccccc
Confidence 46788999999975
Done!