Query 038987
Match_columns 316
No_of_seqs 265 out of 669
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 05:16:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038987.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038987hhsearch_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 2.1E-42 4.6E-47 310.2 13.4 148 1-163 33-186 (186)
2 KOG4842 Protein involved in si 99.7 2.1E-17 4.4E-22 154.6 4.3 160 1-174 62-236 (278)
3 PF01863 DUF45: Protein of unk 99.6 2.8E-15 6E-20 132.9 4.9 61 19-85 140-200 (205)
4 COG1451 Predicted metal-depend 99.3 3.6E-12 7.9E-17 117.8 4.0 61 19-85 151-211 (223)
5 KOG4842 Protein involved in si 99.2 4.6E-12 1E-16 119.0 4.3 85 1-87 149-241 (278)
6 smart00731 SprT SprT homologue 98.1 1.7E-06 3.6E-11 74.7 2.0 58 19-80 33-96 (146)
7 PF00641 zf-RanBP: Zn-finger i 97.5 5.1E-05 1.1E-09 49.3 1.5 24 293-316 3-26 (30)
8 PF10263 SprT-like: SprT-like 97.2 0.00024 5.2E-09 60.8 2.8 58 19-80 31-99 (157)
9 smart00547 ZnF_RBZ Zinc finger 97.1 0.00023 4.9E-09 44.5 1.0 23 294-316 2-24 (26)
10 PF00641 zf-RanBP: Zn-finger i 96.6 0.00073 1.6E-08 43.8 0.7 22 265-286 3-28 (30)
11 smart00547 ZnF_RBZ Zinc finger 96.3 0.0021 4.6E-08 40.1 1.3 21 265-285 1-25 (26)
12 PRK04351 hypothetical protein; 95.8 0.0094 2E-07 52.5 3.6 45 28-76 44-95 (149)
13 PRK04860 hypothetical protein; 94.5 0.025 5.3E-07 50.4 2.4 33 44-76 58-97 (160)
14 COG3091 SprT Zn-dependent meta 94.5 0.033 7.2E-07 49.6 3.1 31 46-76 58-95 (156)
15 KOG4345 NF-kappa B regulator A 93.2 0.03 6.6E-07 59.6 0.6 23 294-316 185-207 (774)
16 PF12773 DZR: Double zinc ribb 92.4 0.11 2.4E-06 36.7 2.4 46 269-315 1-50 (50)
17 KOG4198 RNA-binding Ran Zn-fin 92.1 0.13 2.8E-06 49.9 3.2 23 294-316 140-162 (280)
18 PF06114 DUF955: Domain of unk 91.0 0.3 6.5E-06 38.3 3.8 58 19-84 18-77 (122)
19 COG0501 HtpX Zn-dependent prot 90.3 0.27 5.8E-06 45.9 3.4 58 5-67 117-175 (302)
20 PRK03001 M48 family peptidase; 89.6 0.32 6.9E-06 46.3 3.3 41 19-64 99-139 (283)
21 PRK04897 heat shock protein Ht 89.5 0.31 6.7E-06 47.0 3.2 43 19-66 112-154 (298)
22 PRK02870 heat shock protein Ht 89.2 0.4 8.7E-06 47.4 3.8 53 7-64 135-188 (336)
23 PRK03982 heat shock protein Ht 87.8 0.5 1.1E-05 45.1 3.4 45 19-68 100-144 (288)
24 PF05569 Peptidase_M56: BlaR1 87.5 0.86 1.9E-05 43.1 4.7 30 43-72 190-219 (299)
25 COG4219 MecR1 Antirepressor re 87.4 0.32 6.9E-06 48.1 1.8 23 42-64 183-205 (337)
26 KOG4477 RING1 interactor RYBP 87.3 0.34 7.3E-06 44.7 1.8 25 259-283 17-45 (228)
27 PRK05457 heat shock protein Ht 87.0 0.56 1.2E-05 45.1 3.2 41 19-64 109-149 (284)
28 PRK01345 heat shock protein Ht 87.0 0.54 1.2E-05 45.9 3.1 41 19-64 99-139 (317)
29 KOG3931 Uncharacterized conser 86.8 1.1 2.3E-05 45.3 5.0 65 20-86 76-168 (484)
30 PRK02391 heat shock protein Ht 85.7 0.69 1.5E-05 44.7 3.1 42 19-65 108-149 (296)
31 PF04450 BSP: Peptidase of pla 85.5 0.45 9.8E-06 43.9 1.6 57 28-85 74-132 (205)
32 PRK03072 heat shock protein Ht 85.0 0.57 1.2E-05 45.0 2.1 25 43-67 121-145 (288)
33 KOG4198 RNA-binding Ran Zn-fin 83.6 0.86 1.9E-05 44.3 2.7 53 262-314 136-201 (280)
34 PRK01265 heat shock protein Ht 83.4 1.2 2.5E-05 44.0 3.6 42 19-65 115-156 (324)
35 PF13485 Peptidase_MA_2: Pepti 83.4 0.98 2.1E-05 35.7 2.6 24 44-67 20-43 (128)
36 cd04270 ZnMc_TACE_like Zinc-de 83.4 0.9 2E-05 42.5 2.7 27 43-69 161-187 (244)
37 PF01435 Peptidase_M48: Peptid 82.8 0.64 1.4E-05 41.2 1.4 44 19-68 65-108 (226)
38 PF12388 Peptidase_M57: Dual-a 80.0 1.8 3.9E-05 40.5 3.4 42 22-69 112-153 (211)
39 PF08325 WLM: WLM domain; Int 78.5 6.7 0.00014 35.8 6.5 78 47-125 84-185 (186)
40 KOG3854 SPRT-like metalloprote 78.4 1.4 3.1E-05 45.6 2.3 53 27-85 335-397 (505)
41 PF01447 Peptidase_M4: Thermol 77.0 1.7 3.6E-05 38.3 2.1 21 41-61 127-147 (150)
42 cd04271 ZnMc_ADAM_fungal Zinc- 75.2 1.1 2.5E-05 41.6 0.6 18 51-68 147-164 (228)
43 cd04272 ZnMc_salivary_gland_MP 69.6 2.6 5.6E-05 38.4 1.5 19 50-68 146-164 (220)
44 COG4900 Predicted metallopepti 69.5 7.3 0.00016 33.6 4.1 48 24-75 59-114 (133)
45 cd04267 ZnMc_ADAM_like Zinc-de 67.6 2.8 6E-05 37.0 1.3 22 47-68 131-152 (192)
46 TIGR02414 pepN_proteo aminopep 67.4 3.3 7.2E-05 45.8 2.1 20 45-64 279-298 (863)
47 PF13688 Reprolysin_5: Metallo 67.3 3.5 7.6E-05 36.3 1.9 26 44-69 137-162 (196)
48 PF13582 Reprolysin_3: Metallo 66.8 2.3 5.1E-05 34.5 0.6 16 51-66 109-124 (124)
49 PF10026 DUF2268: Predicted Zn 65.6 5.7 0.00012 35.9 2.9 47 28-79 49-98 (195)
50 COG0308 PepN Aminopeptidase N 65.1 4 8.6E-05 45.0 2.1 23 43-65 301-323 (859)
51 PF13248 zf-ribbon_3: zinc-rib 65.1 3.3 7.2E-05 26.0 0.9 22 295-316 3-24 (26)
52 cd04269 ZnMc_adamalysin_II_lik 64.1 5.2 0.00011 35.4 2.3 23 46-68 128-150 (194)
53 PF14521 Aspzincin_M35: Lysine 62.7 3.9 8.4E-05 35.6 1.2 39 29-69 78-116 (148)
54 PRK14015 pepN aminopeptidase N 61.6 3.9 8.4E-05 45.4 1.3 19 46-64 293-311 (875)
55 PF13574 Reprolysin_2: Metallo 60.7 4 8.7E-05 36.1 1.0 20 49-68 111-130 (173)
56 COG5100 NPL4 Nuclear pore prot 60.4 1.9 4.2E-05 44.2 -1.2 23 294-316 546-568 (571)
57 PF01433 Peptidase_M1: Peptida 59.5 6.9 0.00015 37.7 2.4 19 46-64 292-310 (390)
58 PF15639 Tox-MPTase3: Metallop 59.2 3.7 8.1E-05 35.9 0.5 34 26-60 71-111 (135)
59 PF01421 Reprolysin: Reprolysi 59.1 6.8 0.00015 34.8 2.2 25 44-68 126-150 (199)
60 PF13240 zinc_ribbon_2: zinc-r 59.0 5.3 0.00011 24.7 1.0 21 296-316 1-21 (23)
61 PRK15410 DgsA anti-repressor M 58.0 9.7 0.00021 36.7 3.1 62 19-85 117-189 (260)
62 PLN00162 transport protein sec 58.0 5.6 0.00012 43.4 1.7 35 266-307 53-88 (761)
63 PF09768 Peptidase_M76: Peptid 57.4 8.2 0.00018 35.0 2.4 19 43-61 65-83 (173)
64 PF02102 Peptidase_M35: Deuter 56.7 5.8 0.00013 39.8 1.5 20 48-67 296-317 (359)
65 cd04273 ZnMc_ADAMTS_like Zinc- 56.2 2.9 6.3E-05 37.7 -0.7 20 49-68 140-159 (207)
66 PF10460 Peptidase_M30: Peptid 56.2 7.9 0.00017 39.0 2.3 41 23-64 114-154 (366)
67 TIGR02412 pepN_strep_liv amino 55.5 6.6 0.00014 43.1 1.7 19 46-64 284-302 (831)
68 cd00350 rubredoxin_like Rubred 55.5 9 0.0002 25.3 1.8 21 295-315 2-24 (33)
69 PF13699 DUF4157: Domain of un 55.3 4.5 9.8E-05 31.9 0.4 33 26-63 43-75 (79)
70 PF12725 DUF3810: Protein of u 54.9 3.6 7.8E-05 40.3 -0.3 45 44-88 191-237 (318)
71 PF06262 DUF1025: Possibl zinc 54.2 7.7 0.00017 32.0 1.6 16 47-62 71-86 (97)
72 PF06167 Peptidase_M90: Glucos 53.4 13 0.00029 35.4 3.3 65 19-86 127-202 (253)
73 COG1773 Rubredoxin [Energy pro 53.0 12 0.00025 28.2 2.2 37 265-302 2-44 (55)
74 PF00413 Peptidase_M10: Matrix 52.7 5.5 0.00012 33.3 0.5 24 44-67 100-123 (154)
75 PF13203 DUF2201_N: Putative m 51.9 11 0.00023 35.7 2.4 47 27-77 42-98 (292)
76 KOG4345 NF-kappa B regulator A 51.8 4.1 8.9E-05 44.1 -0.5 24 261-284 86-113 (774)
77 TIGR02411 leuko_A4_hydro leuko 51.0 8.8 0.00019 40.7 1.8 16 49-64 279-294 (601)
78 PRK14714 DNA polymerase II lar 50.7 14 0.00031 42.6 3.4 47 265-316 666-717 (1337)
79 cd04278 ZnMc_MMP Zinc-dependen 50.3 18 0.00039 31.0 3.3 23 45-67 103-125 (157)
80 KOG1046 Puromycin-sensitive am 49.4 9.4 0.0002 42.3 1.8 19 46-64 321-339 (882)
81 PF04810 zf-Sec23_Sec24: Sec23 49.2 6.2 0.00014 27.2 0.2 17 291-307 21-37 (40)
82 PF10023 DUF2265: Predicted am 47.8 30 0.00065 34.7 4.8 43 43-85 159-202 (337)
83 cd00203 ZnMc Zinc-dependent me 47.6 9.4 0.0002 32.3 1.1 22 47-68 94-115 (167)
84 cd04277 ZnMc_serralysin_like Z 42.4 28 0.00061 30.6 3.4 39 27-67 93-131 (186)
85 PF13058 DUF3920: Protein of u 41.7 11 0.00024 32.4 0.6 20 43-62 70-89 (126)
86 cd04268 ZnMc_MMP_like Zinc-dep 41.3 19 0.00041 30.5 2.1 22 47-68 92-113 (165)
87 cd00729 rubredoxin_SM Rubredox 39.8 19 0.00042 24.1 1.5 23 294-316 2-26 (34)
88 PF10463 Peptidase_U49: Peptid 39.2 14 0.00031 34.4 1.0 19 49-67 101-119 (206)
89 KOG1244 Predicted transcriptio 38.8 13 0.00028 36.6 0.6 37 265-301 274-329 (336)
90 COG5100 NPL4 Nuclear pore prot 38.5 7 0.00015 40.3 -1.2 20 265-284 545-568 (571)
91 COG4324 Predicted aminopeptida 38.0 49 0.0011 32.7 4.4 47 45-91 193-240 (376)
92 PF13583 Reprolysin_4: Metallo 37.8 17 0.00037 33.1 1.3 18 51-68 139-156 (206)
93 PF14891 Peptidase_M91: Effect 35.7 12 0.00026 33.2 -0.0 19 50-68 104-122 (174)
94 PF01457 Peptidase_M8: Leishma 34.9 27 0.00058 36.4 2.3 30 29-62 194-223 (521)
95 cd04279 ZnMc_MMP_like_1 Zinc-d 34.9 27 0.00059 29.8 2.0 23 46-68 101-123 (156)
96 KOG3607 Meltrins, fertilins an 34.9 22 0.00047 38.9 1.7 22 46-67 320-341 (716)
97 PF02318 FYVE_2: FYVE-type zin 33.8 18 0.0004 30.2 0.8 38 268-315 56-101 (118)
98 COG2856 Predicted Zn peptidase 33.4 30 0.00064 32.4 2.1 22 45-66 68-89 (213)
99 PHA02456 zinc metallopeptidase 32.8 20 0.00044 31.0 0.9 16 47-62 77-92 (141)
100 KOG2719 Metalloprotease [Gener 32.3 24 0.00052 36.4 1.5 42 19-63 253-294 (428)
101 smart00235 ZnMc Zinc-dependent 31.8 21 0.00046 29.7 0.9 18 51-68 88-105 (140)
102 PRK11788 tetratricopeptide rep 30.7 33 0.0007 32.5 2.0 23 293-315 353-375 (389)
103 PF08434 CLCA_N: Calcium-activ 30.3 12 0.00027 36.1 -0.9 43 20-63 121-163 (262)
104 PF07209 DUF1415: Protein of u 30.3 1.7E+02 0.0037 26.8 6.4 56 29-91 33-102 (174)
105 PRK09672 phage exclusion prote 30.1 27 0.00059 34.5 1.4 18 49-66 165-182 (305)
106 PRK13267 archaemetzincin-like 29.9 38 0.00083 30.7 2.2 23 46-68 122-144 (179)
107 KOG1047 Bifunctional leukotrie 29.0 26 0.00055 37.5 1.0 19 47-65 286-304 (613)
108 COG3227 LasB Zinc metalloprote 28.6 15 0.00033 38.4 -0.6 58 21-81 308-381 (507)
109 PF05548 Peptidase_M11: Gameto 27.6 31 0.00067 33.9 1.3 17 52-68 153-169 (314)
110 COG1198 PriA Primosomal protei 26.4 56 0.0012 35.9 3.1 49 266-316 435-483 (730)
111 PF15641 Tox-MPTase5: Metallop 26.1 91 0.002 26.0 3.5 38 41-78 56-105 (109)
112 PRK12496 hypothetical protein; 25.5 46 0.00099 29.7 1.9 9 152-160 82-90 (164)
113 PF03833 PolC_DP2: DNA polymer 25.4 23 0.00051 39.4 0.0 48 262-316 651-700 (900)
114 KOG3658 Tumor necrosis factor- 24.6 45 0.00097 36.5 1.9 45 25-69 366-412 (764)
115 COG1997 RPL43A Ribosomal prote 24.5 46 0.001 27.4 1.5 25 279-303 38-62 (89)
116 COG3824 Predicted Zn-dependent 24.4 36 0.00078 29.8 0.9 14 47-60 107-120 (136)
117 cd04327 ZnMc_MMP_like_3 Zinc-d 24.2 48 0.001 29.7 1.8 19 48-66 91-109 (198)
118 PF07998 Peptidase_M54: Peptid 23.5 52 0.0011 30.4 1.9 23 46-68 142-164 (194)
119 KOG3314 Ku70-binding protein [ 22.8 89 0.0019 28.8 3.1 19 43-61 85-103 (194)
120 COG4783 Putative Zn-dependent 22.2 48 0.001 34.8 1.5 34 27-63 111-144 (484)
121 KOG2760 Vacuolar sorting prote 22.0 60 0.0013 33.4 2.1 43 261-303 85-139 (432)
122 KOG1986 Vesicle coat complex C 21.8 64 0.0014 35.4 2.4 40 260-306 47-87 (745)
123 COG1592 Rubrerythrin [Energy p 21.7 44 0.00096 30.2 1.0 21 266-286 134-159 (166)
124 PF13398 Peptidase_M50B: Pepti 21.4 52 0.0011 29.9 1.5 15 48-62 21-35 (200)
125 PF10103 DUF2342: Uncharacteri 20.9 58 0.0013 32.5 1.8 38 44-81 152-189 (342)
126 PF10058 DUF2296: Predicted in 20.9 63 0.0014 23.9 1.5 33 266-304 22-54 (54)
127 KOG1512 PHD Zn-finger protein 20.6 34 0.00074 33.9 0.1 17 266-286 308-324 (381)
128 PF14247 DUF4344: Domain of un 20.4 65 0.0014 30.3 1.9 20 47-66 90-109 (220)
129 PRK14873 primosome assembly pr 20.1 70 0.0015 34.7 2.3 48 266-316 383-430 (665)
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=2.1e-42 Score=310.24 Aligned_cols=148 Identities=45% Similarity=0.676 Sum_probs=131.0
Q ss_pred CCCCCceeceecccccCC--ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHH
Q 038987 1 MRNHKWKVKLLSEMHSKN--ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELRE 78 (316)
Q Consensus 1 Mr~~~w~V~~L~Ef~P~~--lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~ 78 (316)
|++|+|+|++|+||||++ +||+|+|+|++|.||||++++ ..|+||+.|++|||||||||+|++||++||+++++|..
T Consensus 33 M~~~~~~V~~L~E~~P~~~~llG~N~N~G~~I~lrLR~~~~-~~fl~~~~i~~t~lHELaH~~~~~H~~~F~~l~~~l~~ 111 (186)
T PF08325_consen 33 MRKHGWRVGSLEEFYPNGERLLGLNVNKGEKICLRLRTPDD-GGFLPYETILGTMLHELAHNVHGPHDDKFWKLLDELRK 111 (186)
T ss_pred HHHcCcccCeeeccCCCCCCCcceecCCCcEEEEEeCCCCC-CCEeeHHHHHHHHHHHHHhcccCCccHHHHHHHHHHHH
Confidence 899999999999999998 999999999999999999988 89999999999999999999999999999999999999
Q ss_pred HHHHHHhccccCCCcccCCCcccCCCCCCCCCCChhHHHHHHHHhhhhcCCCCCCCCcccCCCCCC----CCCCCHHHHH
Q 038987 79 ECDELRSKGITGVGSFDRPGRVLGGVSPQPPLSSLPQTALAAAEKRAHSNSLLPSGPKLLGGDRFV----MYDLSPVQAA 154 (316)
Q Consensus 79 e~~~l~~~G~~G~ggf~~~G~rLGG~~~~~p~~~~r~~al~aaekR~~~~~~~~~g~~~LGG~~~~----~~~~s~re~a 154 (316)
|++.|+++||+ + ||++.|++|||.....+ ...+. ....+.+++++|||++.. .+..++||++
T Consensus 112 e~~~l~~~G~~-~-gf~~~G~~l~~~~~~~~---------~~~~~---~~~~~~~~~~~LgG~s~~~~~~~~~~~~Re~~ 177 (186)
T PF08325_consen 112 ECEELDAKGYT-E-GFWSSGRRLGGSSGQPS---------EEREL---RGNGLSGGGQRLGGGSSSRPRKAQPKSPREAA 177 (186)
T ss_pred HHHHHHhcCCc-c-ccCCCCcccCCCCcccc---------hhhhh---hccccCCCCeeCCCCCCCCCCcCCCcCHHHHH
Confidence 99999999999 6 89999999999765433 01111 112356778999998752 5689999999
Q ss_pred HHHHHHHhh
Q 038987 155 AMAVEKRLQ 163 (316)
Q Consensus 155 a~AAerR~~ 163 (316)
|+|||||++
T Consensus 178 a~AAerR~~ 186 (186)
T PF08325_consen 178 AAAAERRLR 186 (186)
T ss_pred HHHHHhhcC
Confidence 999999985
No 2
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=99.68 E-value=2.1e-17 Score=154.59 Aligned_cols=160 Identities=26% Similarity=0.301 Sum_probs=121.5
Q ss_pred CCCCCceeceecccccCC--ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHH
Q 038987 1 MRNHKWKVKLLSEMHSKN--ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELRE 78 (316)
Q Consensus 1 Mr~~~w~V~~L~Ef~P~~--lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~ 78 (316)
|++|+|.|-.+.++++.+ +||+|||.|.+|.|+||...+..+|+|++++..|++|||+|++.+||+++||+.|+.|..
T Consensus 62 mkEh~f~vti~~Dk~irnq~~sg~nvn~gski~lslr~~~~e~~~lp~e~pmgtylhel~h~lqgPhd~rfl~~L~~Lra 141 (278)
T KOG4842|consen 62 MKEHHFKVTILVDKYIRNQRLSGMNVNHGSKIMLSLRCSTDEFQFLPMECPMGTYLHELTHNLQGPHDKRFLNKLDELRA 141 (278)
T ss_pred hccccceeEEeehhHHHhhhhhccccCCcceEEEEeeccccccccccccccchhhhhhhhhhhcCCChHHHHHHHHHHhh
Confidence 899999999999999998 999999999999999996666778999999999999999999999999999999999999
Q ss_pred HHHHHHhccccCCCcccCCCcccCCCCCCCCCCChhHHHHHHHHhhhhcCCCCCCCCcccCCC-------------CCCC
Q 038987 79 ECDELRSKGITGVGSFDRPGRVLGGVSPQPPLSSLPQTALAAAEKRAHSNSLLPSGPKLLGGD-------------RFVM 145 (316)
Q Consensus 79 e~~~l~~~G~~G~ggf~~~G~rLGG~~~~~p~~~~r~~al~aaekR~~~~~~~~~g~~~LGG~-------------~~~~ 145 (316)
+--.+..+|+.- -|.+-+..|||...-.- . +...+.. +. ..|...|++. +++.
T Consensus 142 d~gii~~mg~hr--W~vg~l~el~g~~nt~v-~--~~~tLg~--------st-nqG~i~lrlrtdrkkgfR~y~tissTl 207 (278)
T KOG4842|consen 142 DQGIIEQMGLHR--WFVGNLQELGGRANTRV-N--RYPTLGI--------ST-NQGVIVLRLRTDRKKGFRHYETISSTL 207 (278)
T ss_pred chhHHHHhcccc--eechhhhhcccccceee-c--Cccceee--------cc-ccceEEEecccchhcccccCCCchHHH
Confidence 999998887643 36667788887532100 0 0000000 00 1111222221 1122
Q ss_pred CCCCHHHHHHHHHHHHhhhcccccCCccc
Q 038987 146 YDLSPVQAAAMAVEKRLQYDLWCASQDLV 174 (316)
Q Consensus 146 ~~~s~re~aa~AAerR~~d~k~C~s~~~~ 174 (316)
....+|+.+++++|++.+.+.||+.....
T Consensus 208 ~heLtr~v~~ehde~fyrLdrql~kek~~ 236 (278)
T KOG4842|consen 208 RHELTREVAAEHDERFYRLDRQLGKEKNN 236 (278)
T ss_pred HhhhhhhHhhhhhhHHHHHHHHhCcccch
Confidence 24557899999999999999999986544
No 3
>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=99.56 E-value=2.8e-15 Score=132.90 Aligned_cols=61 Identities=28% Similarity=0.382 Sum_probs=56.8
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHHHHHHHHh
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELREECDELRS 85 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~e~~~l~~ 85 (316)
.||.| +....|.|++|.. ++|.+.|+|||+|||||++|+||+++||+++.+++|+|++...
T Consensus 140 rWGsc-~~~~~I~ln~~L~-----~~P~~~idYVvvHEL~Hl~~~nHs~~Fw~~v~~~~Pd~k~~~~ 200 (205)
T PF01863_consen 140 RWGSC-SSKGNITLNWRLV-----MAPPEVIDYVVVHELCHLRHPNHSKRFWALVEKYMPDYKERRK 200 (205)
T ss_pred ccccC-CCCCcEEeecccc-----cCCccHHHHHHHHHHHHhccCCCCHHHHHHHHHHCcCHHHHHH
Confidence 89999 6555999999996 8999999999999999999999999999999999999998864
No 4
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=99.25 E-value=3.6e-12 Score=117.78 Aligned_cols=61 Identities=25% Similarity=0.351 Sum_probs=57.4
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHHHHHHHHh
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELREECDELRS 85 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~e~~~l~~ 85 (316)
.||.+.-+| .|.|+++.. .+|.+.|+||++|||||+.++||+++||+++..++|+|+++..
T Consensus 151 ~WGScs~~~-~i~~~~~l~-----~~p~~~i~YVvvHELaHLke~nHs~~Fw~lv~~~~P~~~~~~~ 211 (223)
T COG1451 151 RWGSCSKAG-EIRFNWRLV-----MAPEEVIDYVVVHELAHLKEKNHSKRFWRLVEKYMPDYRAAKR 211 (223)
T ss_pred eeeeecCCC-cEEeehhhh-----cCCHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHCCChHHHHH
Confidence 899888888 999999987 5999999999999999999999999999999999999998865
No 5
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=99.24 E-value=4.6e-12 Score=118.96 Aligned_cols=85 Identities=29% Similarity=0.414 Sum_probs=79.1
Q ss_pred CCCCCceeceecccccCC--------ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHH
Q 038987 1 MRNHKWKVKLLSEMHSKN--------ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKL 72 (316)
Q Consensus 1 Mr~~~w~V~~L~Ef~P~~--------lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~l 72 (316)
|-.|.|.|+.|+|+.|.. +||+|.|.| .|.+|||++... .|+.|+.|-.|+.|||+|+++.-|+..||.+
T Consensus 149 mg~hrW~vg~l~el~g~~nt~v~~~~tLg~stnqG-~i~lrlrtdrkk-gfR~y~tissTl~heLtr~v~~ehde~fyrL 226 (278)
T KOG4842|consen 149 MGLHRWFVGNLQELGGRANTRVNRYPTLGISTNQG-VIVLRLRTDRKK-GFRHYETISSTLRHELTREVAAEHDERFYRL 226 (278)
T ss_pred hcccceechhhhhcccccceeecCccceeeccccc-eEEEecccchhc-ccccCCCchHHHHhhhhhhHhhhhhhHHHHH
Confidence 567999999999999985 799999999 999999998655 5999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcc
Q 038987 73 WEELREECDELRSKG 87 (316)
Q Consensus 73 l~~l~~e~~~l~~~G 87 (316)
-.++-+|-..+++-+
T Consensus 227 drql~kek~~ad~~~ 241 (278)
T KOG4842|consen 227 DRQLGKEKNNADQII 241 (278)
T ss_pred HHHhCcccchhhhhc
Confidence 999999999998754
No 6
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=98.06 E-value=1.7e-06 Score=74.67 Aligned_cols=58 Identities=22% Similarity=0.318 Sum_probs=47.2
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC------CCChhHHHHHHHHHHHH
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA------PHDAKFYKLWEELREEC 80 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~------~H~~~Fy~ll~~l~~e~ 80 (316)
.+|....+...|.|+.+... -.|.+.|++||+|||||.... +|++.|++++.++...+
T Consensus 33 ~~G~~~~~~~~I~ln~~l~~----~~~~~~l~~~l~HEm~H~~~~~~g~~~~Hg~~f~~~~~~~~~~~ 96 (146)
T smart00731 33 TGGRCLLKSAEIRLNPKLLT----ENGRDRLRETLLHELCHAALYLFGRGYGHGDEWKRWMRQVNGLF 96 (146)
T ss_pred hhHHhhcCCCEEEeCHHHHh----hccHHHHHhhHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHcCCC
Confidence 46766555668999977642 468899999999999999988 99999999999886543
No 7
>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=97.49 E-value=5.1e-05 Score=49.26 Aligned_cols=24 Identities=25% Similarity=0.450 Sum_probs=19.9
Q ss_pred CceeeccCCcccCcCccccccCCC
Q 038987 293 RVWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 293 ~~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
..|.|..|||.|......|.+|++
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~ 26 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGA 26 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--
T ss_pred cCccCCCCcCCchHHhhhhhCcCC
Confidence 479999999999999999999985
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=97.19 E-value=0.00024 Score=60.84 Aligned_cols=58 Identities=24% Similarity=0.318 Sum_probs=44.2
Q ss_pred ccccccCCcc---EEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCC--------CCCChhHHHHHHHHHHHH
Q 038987 19 ALGSNLGAGV---HIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDI--------APHDAKFYKLWEELREEC 80 (316)
Q Consensus 19 lLGlN~N~G~---~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~--------~~H~~~Fy~ll~~l~~e~ 80 (316)
.+|...-.+. .|.|+..... ..|.+.|..||+|||||... .+|++.|..++.++...+
T Consensus 31 ~~G~~~~~~~~~~~I~ls~~~~~----~~~~~~~~~tL~HEm~H~~~~~~~~~~~~~Hg~~fk~~~~~ig~~~ 99 (157)
T PF10263_consen 31 TAGRCRYKRRSPCEIRLSPKLLD----RNPEEELIDTLLHEMAHAAAYVFGGGRRRGHGKEFKQWARRIGASP 99 (157)
T ss_pred ceEEEEECCCCceEEEECHHHHH----hhHHHHHHHHHHHHHHHHHhhhccCCCCCCCCHHHHHHHHHHCCcc
Confidence 5565444444 6777766643 37889999999999999877 799999999998886544
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=97.06 E-value=0.00023 Score=44.51 Aligned_cols=23 Identities=26% Similarity=0.483 Sum_probs=21.3
Q ss_pred ceeeccCCcccCcCccccccCCC
Q 038987 294 VWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 294 ~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
.|.|..||+.|......|.+|++
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~ 24 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGA 24 (26)
T ss_pred cccCCCCCCcChhhhccccccCC
Confidence 59999999999999999999985
No 10
>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=96.61 E-value=0.00073 Score=43.82 Aligned_cols=22 Identities=32% Similarity=0.872 Sum_probs=17.2
Q ss_pred CccccCcceeccCC----CCCCCCCC
Q 038987 265 AMWECKACTFLNHG----CGSVPHQG 286 (316)
Q Consensus 265 ~~W~C~~CTllN~~----C~~C~rPr 286 (316)
..|.|+.||++|++ |..|..|+
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~~r 28 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGAPR 28 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--BT
T ss_pred cCccCCCCcCCchHHhhhhhCcCCCC
Confidence 58999999999999 98887765
No 11
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=96.26 E-value=0.0021 Score=40.07 Aligned_cols=21 Identities=48% Similarity=0.993 Sum_probs=18.7
Q ss_pred CccccCcceeccCC----CCCCCCC
Q 038987 265 AMWECKACTFLNHG----CGSVPHQ 285 (316)
Q Consensus 265 ~~W~C~~CTllN~~----C~~C~rP 285 (316)
+.|.|+.||++|.+ |..|..|
T Consensus 1 g~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 1 GDWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred CcccCCCCCCcChhhhccccccCCc
Confidence 36999999999999 9999876
No 12
>PRK04351 hypothetical protein; Provisional
Probab=95.78 E-value=0.0094 Score=52.47 Aligned_cols=45 Identities=29% Similarity=0.530 Sum_probs=32.6
Q ss_pred cEEEEeeecCCCCCCCCChHHHHHHHHHHhhhc------C-CCCCChhHHHHHHHH
Q 038987 28 VHIKLLLRKLNRDRESLPFHEVLDTMLHELCHN------D-IAPHDAKFYKLWEEL 76 (316)
Q Consensus 28 ~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~------~-~~~H~~~Fy~ll~~l 76 (316)
..|.|+-..- .-.+.+.|..||.|||||+ . +.+|+++|..++.++
T Consensus 44 ~~I~lnp~ll----~~~~~~~l~~vv~HElcH~~~~~~g~g~~h~g~~fk~~~~~v 95 (149)
T PRK04351 44 HHIEFNPKML----EEYGLEELIGIIKHELCHYHLHLEGKGYQHRDRDFKELLKQV 95 (149)
T ss_pred CeEEeCHHHH----hhccHHHHHhhHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHh
Confidence 3566654432 1245789999999999998 3 567899998887765
No 13
>PRK04860 hypothetical protein; Provisional
Probab=94.50 E-value=0.025 Score=50.45 Aligned_cols=33 Identities=24% Similarity=0.300 Sum_probs=26.9
Q ss_pred CChHHHHHHHHHHhhhcCC-------CCCChhHHHHHHHH
Q 038987 44 LPFHEVLDTMLHELCHNDI-------APHDAKFYKLWEEL 76 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~-------~~H~~~Fy~ll~~l 76 (316)
.+.+.|..||.|||||++- .+|+++|-.++.++
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 4678999999999999752 38999888887764
No 14
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=94.49 E-value=0.033 Score=49.58 Aligned_cols=31 Identities=23% Similarity=0.341 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHhhhcC-------CCCCChhHHHHHHHH
Q 038987 46 FHEVLDTMLHELCHND-------IAPHDAKFYKLWEEL 76 (316)
Q Consensus 46 ~~~I~~vllHELaH~~-------~~~H~~~Fy~ll~~l 76 (316)
.+.|+.||.|||||+. +.+||.+|..+|.++
T Consensus 58 ~~f~~~vV~HELaHl~ly~~~gr~~phg~ewk~lm~qV 95 (156)
T COG3091 58 EDFIEQVVPHELAHLHLYQEFGRYKPHGKEWKLLMQQV 95 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCCchhHHHHHHHh
Confidence 3578999999999985 569999998888765
No 15
>KOG4345 consensus NF-kappa B regulator AP20/Cezanne [Signal transduction mechanisms]
Probab=93.19 E-value=0.03 Score=59.65 Aligned_cols=23 Identities=9% Similarity=0.112 Sum_probs=21.7
Q ss_pred ceeeccCCcccCcCccccccCCC
Q 038987 294 VWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 294 ~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
+|.|-.||++|+....+|.+|++
T Consensus 185 eW~~lik~ass~pr~~r~~~~~~ 207 (774)
T KOG4345|consen 185 EWTELIKLASSEPRMHRSGNGGT 207 (774)
T ss_pred HHHHHHHhhcccchhhhcccCCC
Confidence 49999999999999999999975
No 16
>PF12773 DZR: Double zinc ribbon
Probab=92.38 E-value=0.11 Score=36.72 Aligned_cols=46 Identities=17% Similarity=0.259 Sum_probs=38.0
Q ss_pred cCcceeccCC----CCCCCCCCCCCCCCCceeeccCCcccCcCccccccCC
Q 038987 269 CKACTFLNHG----CGSVPHQGDASANDRVWTCKFWTLENCVKLDKCSRVS 315 (316)
Q Consensus 269 C~~CTllN~~----C~~C~rPr~~~~~~~~WsC~~CT~~N~~~~~~C~~C~ 315 (316)
|+.|-..|+. |..|..+.. ......+.|+.|...|......|.-||
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~-~~~~~~~~C~~Cg~~~~~~~~fC~~CG 50 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLP-PPDQSKKICPNCGAENPPNAKFCPNCG 50 (50)
T ss_pred CCCcCCcCCccccCChhhcCChh-hccCCCCCCcCCcCCCcCCcCccCccc
Confidence 7888888888 888876654 234557999999999999999999997
No 17
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=92.10 E-value=0.13 Score=49.88 Aligned_cols=23 Identities=22% Similarity=0.532 Sum_probs=21.7
Q ss_pred ceeeccCCcccCcCccccccCCC
Q 038987 294 VWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 294 ~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
.|.|+.|+|.|-.+...|-.|+.
T Consensus 140 DW~Cp~C~fhNfarn~~C~rC~~ 162 (280)
T KOG4198|consen 140 DWECPGCNFHNFARNSECFRCGA 162 (280)
T ss_pred CcccCCCCceeccccchhhhcCC
Confidence 69999999999999999999984
No 18
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=91.00 E-value=0.3 Score=38.32 Aligned_cols=58 Identities=21% Similarity=0.072 Sum_probs=35.1
Q ss_pred ccccccCC--ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHHHHHHHH
Q 038987 19 ALGSNLGA--GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELREECDELR 84 (316)
Q Consensus 19 lLGlN~N~--G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~e~~~l~ 84 (316)
+.|..... ...|.|+-+ ++...-..+++|||.|.....+...+.........+..+..
T Consensus 18 ~~~~~~~~~~~~~I~in~~--------~~~~~~~f~laHELgH~~~~~~~~~~~~~~~~~~~~~~E~~ 77 (122)
T PF06114_consen 18 LGGFSIPKENNPIIFINSN--------LSPERQRFTLAHELGHILLHHGDETFNYYLNYFFNERQERE 77 (122)
T ss_dssp EEEETT----TTEEEEESS--------S-HHHHHHHHHHHHHHHHHHH-HHHHHHHHHH--THHHHHH
T ss_pred cCEEEEecCcCCEEEECCC--------CCHHHHHHHHHHHHHHHHhhhccccchhhccccchhhHHHH
Confidence 55555443 567877755 34577789999999999998888765444444443333333
No 19
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=90.27 E-value=0.27 Score=45.85 Aligned_cols=58 Identities=22% Similarity=0.181 Sum_probs=41.1
Q ss_pred CceeceecccccCC-ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCCh
Q 038987 5 KWKVKLLSEMHSKN-ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 5 ~w~V~~L~Ef~P~~-lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~ 67 (316)
.|+|.....=.|+. -+|.+.+.| .|-|.--.-. .+..++|..||.||++|.++++.=.
T Consensus 117 ~~~v~i~~~~~~NAFa~g~~~~~~-~V~vt~gLl~----~l~~dEl~aVlaHElgHi~~rd~~~ 175 (302)
T COG0501 117 MPEVYILETPQPNAFALGGGPKNG-RVVVTTGLLD----LLNDDELEAVLAHELGHIKNRHTLV 175 (302)
T ss_pred CCeeEEecCCCccceecCCCCCCe-eEEecHHHHh----hCCHHHHHHHHHHHHHHHhcccHHH
Confidence 35566666555655 667665545 6766655542 6888999999999999999986653
No 20
>PRK03001 M48 family peptidase; Provisional
Probab=89.57 E-value=0.32 Score=46.29 Aligned_cols=41 Identities=27% Similarity=0.245 Sum_probs=29.2
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~ 64 (316)
..|.+.+++ .|.|.--.-. .++.++|..||.|||+|++|++
T Consensus 99 a~G~~~~~~-~Ivvt~gLl~----~l~~~El~aVlAHElgHi~~~h 139 (283)
T PRK03001 99 ATGRNPEHA-AVAATTGILR----VLSEREIRGVMAHELAHVKHRD 139 (283)
T ss_pred EecCCCCCe-EEEecHHHHh----hCCHHHHHHHHHHHHHHHhCCC
Confidence 667766555 4555433321 3578999999999999999874
No 21
>PRK04897 heat shock protein HtpX; Provisional
Probab=89.53 E-value=0.31 Score=46.96 Aligned_cols=43 Identities=19% Similarity=0.118 Sum_probs=30.3
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHD 66 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~ 66 (316)
..|.+.+++ .|.+.--.- ..++.++|..||.|||+|++|++.-
T Consensus 112 a~G~~~~~~-~v~vt~gLl----~~l~~~El~aVlAHElgHi~~~d~~ 154 (298)
T PRK04897 112 ATGSSPKNA-AVAVTTGLL----AIMNREELEGVIGHEISHIRNYDIR 154 (298)
T ss_pred EeccCCCCc-EEEeehHHH----hhCCHHHHHHHHHHHHHHHhcCCHH
Confidence 667766555 455553222 1467899999999999999977653
No 22
>PRK02870 heat shock protein HtpX; Provisional
Probab=89.17 E-value=0.4 Score=47.39 Aligned_cols=53 Identities=25% Similarity=0.229 Sum_probs=33.7
Q ss_pred eeceecccccCC-ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC
Q 038987 7 KVKLLSEMHSKN-ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 7 ~V~~L~Ef~P~~-lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~ 64 (316)
+|..+..=.|+. .+|.+...+ .|.|.--.- ..++.++|..||.|||+|++|++
T Consensus 135 ~V~vi~~~~~NAFA~G~~~~~~-~Ivvt~GLL----~~L~~dEL~aVlAHELgHik~~d 188 (336)
T PRK02870 135 KVYIIDAPYMNAFASGYSEKSA-MVAITTGLL----EKLDRDELQAVMAHELSHIRHGD 188 (336)
T ss_pred eEEEEcCCCCceEEecCCCCCc-EEEEehHHh----hhCCHHHHHHHHHHHHHHHHccc
Confidence 333333333444 678775544 565543332 24688999999999999997754
No 23
>PRK03982 heat shock protein HtpX; Provisional
Probab=87.84 E-value=0.5 Score=45.08 Aligned_cols=45 Identities=20% Similarity=0.127 Sum_probs=30.9
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChh
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~ 68 (316)
.+|.+.+++ .|.|.--.. ..++.++|..||.|||.|++|++.-..
T Consensus 100 a~G~~~~~~-~V~vt~gLl----~~l~~~El~AVlAHElgHi~~~h~~~~ 144 (288)
T PRK03982 100 ATGRDPKHA-VVAVTEGIL----NLLNEDELEGVIAHELTHIKNRDTLIQ 144 (288)
T ss_pred EeccCCCCe-EEEeehHHH----hhCCHHHHHHHHHHHHHHHHcCCHHHH
Confidence 667665444 454433332 246789999999999999999875333
No 24
>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=87.49 E-value=0.86 Score=43.14 Aligned_cols=30 Identities=27% Similarity=0.192 Sum_probs=23.2
Q ss_pred CCChHHHHHHHHHHhhhcCCCCCChhHHHH
Q 038987 43 SLPFHEVLDTMLHELCHNDIAPHDAKFYKL 72 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~~~~H~~~Fy~l 72 (316)
-++.+.+++++.|||+|+++++.=.+|...
T Consensus 190 ~~~~~el~~il~HEl~Hikr~D~~~~~l~~ 219 (299)
T PF05569_consen 190 DLSEEELRAILLHELAHIKRRDLLWKLLAE 219 (299)
T ss_pred ccCHHHHHHHHHHHHHHHHCCChHHHHHHH
Confidence 356688999999999999988765554433
No 25
>COG4219 MecR1 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]
Probab=87.36 E-value=0.32 Score=48.15 Aligned_cols=23 Identities=35% Similarity=0.355 Sum_probs=20.1
Q ss_pred CCCChHHHHHHHHHHhhhcCCCC
Q 038987 42 ESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 42 ~flP~~~I~~vllHELaH~~~~~ 64 (316)
.-++.+.++|+++|||+|+++++
T Consensus 183 ~r~~~ee~~yIilHEl~Hlk~gD 205 (337)
T COG4219 183 ERLTDEELKYIILHELSHLKRGD 205 (337)
T ss_pred hhcCHHhhhhhHhHHHhhhhccc
Confidence 35778899999999999999875
No 26
>KOG4477 consensus RING1 interactor RYBP and related Zn-finger-containing proteins [Transcription]
Probab=87.29 E-value=0.34 Score=44.75 Aligned_cols=25 Identities=28% Similarity=0.785 Sum_probs=14.9
Q ss_pred CCCCCCCccccCcceeccCC----CCCCC
Q 038987 259 HNPEEPAMWECKACTFLNHG----CGSVP 283 (316)
Q Consensus 259 ~~~~~~~~W~C~~CTllN~~----C~~C~ 283 (316)
.+......|.|..|||.|.. |.+|.
T Consensus 17 kp~~Deg~WdCsvCTFrNsAeAfkC~vCd 45 (228)
T KOG4477|consen 17 KPNDDEGKWDCSVCTFRNSAEAFKCFVCD 45 (228)
T ss_pred CCccccCceeeeeeeecchhhhhheeeec
Confidence 33445556666666666666 66663
No 27
>PRK05457 heat shock protein HtpX; Provisional
Probab=87.04 E-value=0.56 Score=45.05 Aligned_cols=41 Identities=20% Similarity=0.238 Sum_probs=29.1
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~ 64 (316)
..|.+.+++ .|.+..-.- ..++.++|..||.|||.|+++++
T Consensus 109 a~G~~~~~~-~V~vt~gLl----~~L~~~El~aVlAHElgHi~~~d 149 (284)
T PRK05457 109 ATGASKNNS-LVAVSTGLL----QNMSRDEVEAVLAHEISHIANGD 149 (284)
T ss_pred EecCCCCCe-EEEeehHHh----hhCCHHHHHHHHHHHHHHHHcCC
Confidence 567665554 454443222 14688999999999999999975
No 28
>PRK01345 heat shock protein HtpX; Provisional
Probab=86.97 E-value=0.54 Score=45.88 Aligned_cols=41 Identities=29% Similarity=0.263 Sum_probs=29.0
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~ 64 (316)
..|.+.+++ .|.|.--.-. .++.++|..||.|||.|+++++
T Consensus 99 a~G~~~~~~-~V~vt~gLL~----~L~~dEL~aVlAHElgHi~~~d 139 (317)
T PRK01345 99 ATGRNPENA-AVAATTGLLQ----RLSPEEVAGVMAHELAHVKNRD 139 (317)
T ss_pred EecCCCCCe-EEEechHHHh----hCCHHHHHHHHHHHHHHHHcCC
Confidence 567655444 5666543332 3677999999999999999755
No 29
>KOG3931 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.83 E-value=1.1 Score=45.26 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=50.2
Q ss_pred cccccC--CccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcC---------CCCCChhHHHHHHHHH-----------
Q 038987 20 LGSNLG--AGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHND---------IAPHDAKFYKLWEELR----------- 77 (316)
Q Consensus 20 LGlN~N--~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~---------~~~H~~~Fy~ll~~l~----------- 77 (316)
-|++.- +|.-+.|||-.| ....+|...+..|||||+-|-. .+.|+++|-+.+..+.
T Consensus 76 AGICsyeg~gg~csIRLSeP--LLkLRPRkDLVETLLHEMIHAYlFV~n~~~dr~GHGP~F~~hMhrIN~~~GtNITvYH 153 (484)
T KOG3931|consen 76 AGICSYEGKGGMCSIRLSEP--LLKLRPRKDLVETLLHEMIHAYLFVTNNDKDREGHGPEFCKHMHRINSLTGTNITVYH 153 (484)
T ss_pred cceeeeccccceEEEEecch--hhccCchHHHHHHHHHHHHHHheeEecccccCCCCChHHHHHHHHHhhccCceeEEEe
Confidence 366654 466778888776 3558999999999999999953 3589999999988764
Q ss_pred ------HHHHHHHhc
Q 038987 78 ------EECDELRSK 86 (316)
Q Consensus 78 ------~e~~~l~~~ 86 (316)
++|+..+|+
T Consensus 154 tFHDEV~~Yr~HwWR 168 (484)
T KOG3931|consen 154 TFHDEVDEYRRHWWR 168 (484)
T ss_pred echHHHHHHHhhhhh
Confidence 567777774
No 30
>PRK02391 heat shock protein HtpX; Provisional
Probab=85.69 E-value=0.69 Score=44.74 Aligned_cols=42 Identities=19% Similarity=0.147 Sum_probs=29.1
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPH 65 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H 65 (316)
..|.+.+++ .|.+.--.- ..++.++++.||.|||+|+++++-
T Consensus 108 a~G~~~~~~-~V~vt~gLl----~~L~~~El~aVlaHElgHi~~~di 149 (296)
T PRK02391 108 ATGRSPKNA-VVCVTTGLM----RRLDPDELEAVLAHELSHVKNRDV 149 (296)
T ss_pred EecCCCCCc-EEEecHHHH----hhCCHHHHHHHHHHHHHHHHcCCH
Confidence 567765544 455432221 246789999999999999998863
No 31
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=85.46 E-value=0.45 Score=43.94 Aligned_cols=57 Identities=16% Similarity=0.149 Sum_probs=42.4
Q ss_pred cEEEEeeecCCCCCC-CCChHHHHHHHHHHhhhcCC-CCCChhHHHHHHHHHHHHHHHHh
Q 038987 28 VHIKLLLRKLNRDRE-SLPFHEVLDTMLHELCHNDI-APHDAKFYKLWEELREECDELRS 85 (316)
Q Consensus 28 ~~I~LRLR~~~~~~~-flP~~~I~~vllHELaH~~~-~~H~~~Fy~ll~~l~~e~~~l~~ 85 (316)
.+|.|+++....-.. -.....|..||.|||+|++. .+++..+.-|++.+ .||..+.+
T Consensus 74 ~~I~~S~~~i~~~~~~~~~~~Ei~Gvl~HE~~H~~Q~~~~~~~P~~liEGI-ADyVRl~a 132 (205)
T PF04450_consen 74 KEIHFSARYIAKYPADGDVRDEIIGVLYHEMVHCWQWDGRGTAPGGLIEGI-ADYVRLKA 132 (205)
T ss_pred cEEEEeHHHHhhcccccchHHHHHHHHHHHHHHHhhcCCCCCCChhheecH-HHHHHHHc
Confidence 789999987642211 12236899999999999997 45889999988876 45666665
No 32
>PRK03072 heat shock protein HtpX; Provisional
Probab=84.97 E-value=0.57 Score=44.99 Aligned_cols=25 Identities=24% Similarity=0.046 Sum_probs=21.4
Q ss_pred CCChHHHHHHHHHHhhhcCCCCCCh
Q 038987 43 SLPFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~~~~H~~ 67 (316)
.++.++|..||.|||+|+++++--.
T Consensus 121 ~l~~~El~aVlAHElgHi~~~d~~~ 145 (288)
T PRK03072 121 ILNERELRGVLGHELSHVYNRDILI 145 (288)
T ss_pred hCCHHHHHHHHHHHHHHHhcCCHHH
Confidence 5688999999999999999876543
No 33
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=83.62 E-value=0.86 Score=44.26 Aligned_cols=53 Identities=21% Similarity=0.451 Sum_probs=36.3
Q ss_pred CCCCccccCcceeccCC----CCCCCCCCCCC---------CCCCceeeccCCcccCcCccccccC
Q 038987 262 EEPAMWECKACTFLNHG----CGSVPHQGDAS---------ANDRVWTCKFWTLENCVKLDKCSRV 314 (316)
Q Consensus 262 ~~~~~W~C~~CTllN~~----C~~C~rPr~~~---------~~~~~WsC~~CT~~N~~~~~~C~~C 314 (316)
-..+.|.|+.|+|+|-. |--|..++... .....|.++-+-.-+.....-|..|
T Consensus 136 ~~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a~~~~~~s~~~~~~~~s~~~~~~~~t~~~~~~r~ 201 (280)
T KOG4198|consen 136 WRSGDWECPGCNFHNFARNSECFRCGAKRPLAALLGNQASEATEHDWLSKVADSSSSTRFESLLRC 201 (280)
T ss_pred ccccCcccCCCCceeccccchhhhcCCcCcccccccccccccccccccccccccccceecccchhh
Confidence 35579999999999999 77775554331 2445688888776655555555544
No 34
>PRK01265 heat shock protein HtpX; Provisional
Probab=83.41 E-value=1.2 Score=44.00 Aligned_cols=42 Identities=29% Similarity=0.252 Sum_probs=29.6
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPH 65 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H 65 (316)
..|.+... ..|.|.--.- ..++.++|..||.|||.|++|++=
T Consensus 115 a~G~~~~~-~~Ivvt~gLl----~~l~~~El~aVlAHElgHik~~d~ 156 (324)
T PRK01265 115 AYGSPIAG-KRIAITLPLL----KILNRDEIKAVAGHELGHLKHRDV 156 (324)
T ss_pred EeccCCCC-CEEEEehHHH----hhCCHHHHHHHHHHHHHHHHcccH
Confidence 45655444 3566654443 257889999999999999987654
No 35
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=83.41 E-value=0.98 Score=35.65 Aligned_cols=24 Identities=17% Similarity=-0.018 Sum_probs=19.2
Q ss_pred CChHHHHHHHHHHhhhcCCCCCCh
Q 038987 44 LPFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~~~H~~ 67 (316)
.+.+.+..|++|||+|.+++....
T Consensus 20 ~~~~~~~~~l~HE~~H~~~~~~~~ 43 (128)
T PF13485_consen 20 SDEDWLDRVLAHELAHQWFGNYFG 43 (128)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcC
Confidence 556778899999999998775543
No 36
>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=83.37 E-value=0.9 Score=42.50 Aligned_cols=27 Identities=37% Similarity=0.421 Sum_probs=23.3
Q ss_pred CCChHHHHHHHHHHhhhcCCCCCChhH
Q 038987 43 SLPFHEVLDTMLHELCHNDIAPHDAKF 69 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~~~~H~~~F 69 (316)
..|...+..||+|||-|+.-++||..-
T Consensus 161 ~~~~~~~a~t~AHElGHnlGm~HD~~~ 187 (244)
T cd04270 161 RVPTKESDLVTAHELGHNFGSPHDPDI 187 (244)
T ss_pred ccchhHHHHHHHHHHHHhcCCCCCCCC
Confidence 456667889999999999999999864
No 37
>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=82.82 E-value=0.64 Score=41.19 Aligned_cols=44 Identities=27% Similarity=0.175 Sum_probs=31.6
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChh
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~ 68 (316)
.+|.+. +..|.|....- ..++.+.+..||.|||+|+.+++.-..
T Consensus 65 ~~g~~~--~~~I~v~~~ll----~~~~~~el~aVlaHElgH~~~~h~~~~ 108 (226)
T PF01435_consen 65 ATGGGP--RKRIVVTSGLL----ESLSEDELAAVLAHELGHIKHRHILKS 108 (226)
T ss_dssp EETTTC----EEEEEHHHH----HHSSHHHHHHHHHHHHHHHHTTHCCCC
T ss_pred EEccCC--CcEEEEeChhh----hcccHHHHHHHHHHHHHHHHcCCcchH
Confidence 445443 44577766654 257889999999999999998877666
No 38
>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=79.96 E-value=1.8 Score=40.46 Aligned_cols=42 Identities=19% Similarity=0.146 Sum_probs=31.8
Q ss_pred cccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhH
Q 038987 22 SNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKF 69 (316)
Q Consensus 22 lN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~F 69 (316)
.|-+.+..|.| .- ..-++...+..||.|||=|++---|.+-|
T Consensus 112 s~G~P~~~I~I-~~-----~~~~~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 112 SNGNPYKFIQI-YG-----LSNYSVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred CCCCCCceEEE-Ee-----cCCCchhHHHHHHHHHhhhhccccccCcC
Confidence 34456678888 22 23567788999999999999999998733
No 39
>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=78.47 E-value=6.7 Score=35.77 Aligned_cols=78 Identities=27% Similarity=0.269 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhhhcCCCCCChhHHHHHHHHHHHHHHH-HhccccCCC-------------------cccCCCcccCCCCC
Q 038987 47 HEVLDTMLHELCHNDIAPHDAKFYKLWEELREECDEL-RSKGITGVG-------------------SFDRPGRVLGGVSP 106 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~e~~~l-~~~G~~G~g-------------------gf~~~G~rLGG~~~ 106 (316)
.....=|+| ..|--|..---++|+.|..-..+...- ..-|+.+.| ++.+.|++|||.+.
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 455677778 458888888888887777666555553 101211111 24567899999765
Q ss_pred C----CCCCChhHHHHHHHHhhh
Q 038987 107 Q----PPLSSLPQTALAAAEKRA 125 (316)
Q Consensus 107 ~----~p~~~~r~~al~aaekR~ 125 (316)
. ......|+.+.+||++|.
T Consensus 163 ~~~~~~~~~~~Re~~a~AAerR~ 185 (186)
T PF08325_consen 163 SRPRKAQPKSPREAAAAAAERRL 185 (186)
T ss_pred CCCCcCCCcCHHHHHHHHHHhhc
Confidence 3 345668899999999985
No 40
>KOG3854 consensus SPRT-like metalloprotease [Function unknown]
Probab=78.36 E-value=1.4 Score=45.60 Aligned_cols=53 Identities=19% Similarity=0.251 Sum_probs=35.2
Q ss_pred ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhc-------CCCCCChhHHHHHHHH---HHHHHHHHh
Q 038987 27 GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHN-------DIAPHDAKFYKLWEEL---REECDELRS 85 (316)
Q Consensus 27 G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~-------~~~~H~~~Fy~ll~~l---~~e~~~l~~ 85 (316)
-.+|.|.+.- .-.-+.|..||+|||||. .+..|++.|...=.+. +||.-.+..
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 3567776553 345588999999999995 2889999876544433 344444443
No 41
>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=76.95 E-value=1.7 Score=38.30 Aligned_cols=21 Identities=38% Similarity=0.518 Sum_probs=16.6
Q ss_pred CCCCChHHHHHHHHHHhhhcC
Q 038987 41 RESLPFHEVLDTMLHELCHND 61 (316)
Q Consensus 41 ~~flP~~~I~~vllHELaH~~ 61 (316)
..|.|+..-+.|+.|||+|-|
T Consensus 127 ~~f~~~~~~lDVvaHEltHGV 147 (150)
T PF01447_consen 127 QIFKPFASSLDVVAHELTHGV 147 (150)
T ss_dssp SSBS-GGG-HHHHHHHHHHHH
T ss_pred cccccCccccceeeecccccc
Confidence 369999998999999999965
No 42
>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=75.16 E-value=1.1 Score=41.55 Aligned_cols=18 Identities=33% Similarity=0.392 Sum_probs=16.6
Q ss_pred HHHHHHhhhcCCCCCChh
Q 038987 51 DTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 51 ~vllHELaH~~~~~H~~~ 68 (316)
.||+|||.|+.-++||..
T Consensus 147 ~t~AHElGHnLGm~HD~~ 164 (228)
T cd04271 147 QVFAHEIGHTFGAVHDCT 164 (228)
T ss_pred eehhhhhhhhcCCCCCCC
Confidence 699999999999999964
No 43
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=69.62 E-value=2.6 Score=38.38 Aligned_cols=19 Identities=53% Similarity=0.604 Sum_probs=17.6
Q ss_pred HHHHHHHhhhcCCCCCChh
Q 038987 50 LDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 50 ~~vllHELaH~~~~~H~~~ 68 (316)
..||+|||.|+.-++||..
T Consensus 146 ~~~~AHElGH~lG~~HD~~ 164 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGS 164 (220)
T ss_pred HHHHHHHHHHHhCCCCCCC
Confidence 6999999999999999965
No 44
>COG4900 Predicted metallopeptidase [General function prediction only]
Probab=69.46 E-value=7.3 Score=33.60 Aligned_cols=48 Identities=27% Similarity=0.389 Sum_probs=33.1
Q ss_pred cCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCC------CCCC--hhHHHHHHH
Q 038987 24 LGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDI------APHD--AKFYKLWEE 75 (316)
Q Consensus 24 ~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~------~~H~--~~Fy~ll~~ 75 (316)
.|.+-.|.|--.. ..-+|-+.=..||+|||.|+-. .+|+ .+||....-
T Consensus 59 lnP~YviEl~sek----F~rLs~~ekvKviiHEllHIP~tfSGgLRaHg~~vn~rrv~kL 114 (133)
T COG4900 59 LNPVYVIELLSEK----FKRLSCAEKVKVIIHELLHIPATFSGGLRAHGPLVNFRRVYKL 114 (133)
T ss_pred CCCeeeeeeehhh----cCCCChHHHHHHHHHHHhcCcccccCccccCCcchhHHHHHHH
Confidence 4666666653321 1247788888999999999975 3788 788865543
No 45
>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=67.62 E-value=2.8 Score=36.96 Aligned_cols=22 Identities=45% Similarity=0.314 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhhhcCCCCCChh
Q 038987 47 HEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H~~~ 68 (316)
...-.||+|||.|+.-..||..
T Consensus 131 ~~~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 131 LLTALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred eeehhhhhhhHHhhcCCcCCCC
Confidence 3456799999999999999976
No 46
>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=67.39 E-value=3.3 Score=45.80 Aligned_cols=20 Identities=20% Similarity=0.330 Sum_probs=17.4
Q ss_pred ChHHHHHHHHHHhhhcCCCC
Q 038987 45 PFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 45 P~~~I~~vllHELaH~~~~~ 64 (316)
.+..|..|+.|||+|.+.||
T Consensus 279 ~~~~i~~VIaHElaHqWfGN 298 (863)
T TIGR02414 279 DYERIESVIAHEYFHNWTGN 298 (863)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 35678999999999999995
No 47
>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=67.27 E-value=3.5 Score=36.26 Aligned_cols=26 Identities=38% Similarity=0.448 Sum_probs=16.7
Q ss_pred CChHHHHHHHHHHhhhcCCCCCChhH
Q 038987 44 LPFHEVLDTMLHELCHNDIAPHDAKF 69 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~~~H~~~F 69 (316)
.+...-..|++|||.|+.-.+||..-
T Consensus 137 ~~~~~~~~~~AHEiGH~lGa~HD~~~ 162 (196)
T PF13688_consen 137 PPTYNGAITFAHEIGHNLGAPHDGDY 162 (196)
T ss_dssp --HHHHHHHHHHHHHHHTT-----SS
T ss_pred CCCCceehhhHHhHHHhcCCCCCCCC
Confidence 45778889999999999999998653
No 48
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=66.83 E-value=2.3 Score=34.53 Aligned_cols=16 Identities=50% Similarity=0.582 Sum_probs=11.7
Q ss_pred HHHHHHhhhcCCCCCC
Q 038987 51 DTMLHELCHNDIAPHD 66 (316)
Q Consensus 51 ~vllHELaH~~~~~H~ 66 (316)
+|+.|||-|+.-.+||
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 49
>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=65.58 E-value=5.7 Score=35.89 Aligned_cols=47 Identities=26% Similarity=0.163 Sum_probs=31.2
Q ss_pred cEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCCh---hHHHHHHHHHHH
Q 038987 28 VHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDA---KFYKLWEELREE 79 (316)
Q Consensus 28 ~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~---~Fy~ll~~l~~e 79 (316)
..|.|-| .+. -...+.|..+|+||+-|++...+-. .=..|++.++-|
T Consensus 49 ~~i~l~~-~~~----~~~~~~l~~~iaHE~hH~~r~~~~~~~~~~~TLld~~I~E 98 (195)
T PF10026_consen 49 GYIFLFL-LPN----DYSLEELPALIAHEYHHNCRYEQIGWDPEDTTLLDSLIME 98 (195)
T ss_pred CEEEEEe-cCC----cccHHHHHHHHHHHHHHHHHHhccCCCCCCCCHHHHHHHh
Confidence 4777776 432 3566799999999999997544322 334566666543
No 50
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=65.13 E-value=4 Score=45.01 Aligned_cols=23 Identities=22% Similarity=0.335 Sum_probs=19.1
Q ss_pred CCChHHHHHHHHHHhhhcCCCCC
Q 038987 43 SLPFHEVLDTMLHELCHNDIAPH 65 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~~~~H 65 (316)
-..|+.|..|++|||+|++.||=
T Consensus 301 ~~~~~~~~~viaHElaHqWfGnl 323 (859)
T COG0308 301 DSDYENVEEVIAHELAHQWFGNL 323 (859)
T ss_pred hHHHHHHHHHHHHHHhhhcccce
Confidence 34457888899999999999974
No 51
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=65.10 E-value=3.3 Score=26.01 Aligned_cols=22 Identities=14% Similarity=0.090 Sum_probs=19.4
Q ss_pred eeeccCCcccCcCccccccCCC
Q 038987 295 WTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 295 WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
+.|+.|..+|......|..||+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCCcccCCcCCcccccChhhCC
Confidence 6799999999999999999985
No 52
>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=64.15 E-value=5.2 Score=35.37 Aligned_cols=23 Identities=39% Similarity=0.290 Sum_probs=19.9
Q ss_pred hHHHHHHHHHHhhhcCCCCCChh
Q 038987 46 FHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~H~~~ 68 (316)
+...-.|++|||.|+.-.+||..
T Consensus 128 ~~~~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 128 LLLFAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred hHHHHHHHHHHHHhhcCCCcCCC
Confidence 34557899999999999999987
No 53
>PF14521 Aspzincin_M35: Lysine-specific metallo-endopeptidase ; PDB: 2X3C_A 2X3A_A 2X3B_A 1GE7_B 1GE6_A 1GE5_A 1G12_A.
Probab=62.68 E-value=3.9 Score=35.57 Aligned_cols=39 Identities=15% Similarity=0.095 Sum_probs=19.9
Q ss_pred EEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCChhH
Q 038987 29 HIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDAKF 69 (316)
Q Consensus 29 ~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~~F 69 (316)
+|.|.-.--..+. .-...-..||+|||+|+.-.-+..++
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 4666544322221 22345689999999997654444443
No 54
>PRK14015 pepN aminopeptidase N; Provisional
Probab=61.64 E-value=3.9 Score=45.37 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=16.6
Q ss_pred hHHHHHHHHHHhhhcCCCC
Q 038987 46 FHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~ 64 (316)
+..|..||+|||+|.++||
T Consensus 293 ~~~i~~vIaHElaHqWFGN 311 (875)
T PRK14015 293 YERIESVIAHEYFHNWTGN 311 (875)
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 4568999999999999995
No 55
>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=60.66 E-value=4 Score=36.11 Aligned_cols=20 Identities=50% Similarity=0.597 Sum_probs=15.1
Q ss_pred HHHHHHHHhhhcCCCCCChh
Q 038987 49 VLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 49 I~~vllHELaH~~~~~H~~~ 68 (316)
-.+|++|||.|+.-.+|+-.
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 55679999999999999988
No 56
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=60.37 E-value=1.9 Score=44.17 Aligned_cols=23 Identities=26% Similarity=0.507 Sum_probs=20.5
Q ss_pred ceeeccCCcccCcCccccccCCC
Q 038987 294 VWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 294 ~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
.|-|+.|||.|...+-+|+||.+
T Consensus 546 ~we~~~~~~i~~~~~~t~~m~~~ 568 (571)
T COG5100 546 RWECKMCTFINEKNSCTCEMCNS 568 (571)
T ss_pred HHHHHHHHHhcccCceEEEeecc
Confidence 59999999999999999999963
No 57
>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=59.46 E-value=6.9 Score=37.66 Aligned_cols=19 Identities=26% Similarity=0.354 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHhhhcCCCC
Q 038987 46 FHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~ 64 (316)
...+..+|+|||||.++|+
T Consensus 292 ~~~~~~~iahElahqWfGn 310 (390)
T PF01433_consen 292 KQEIASLIAHELAHQWFGN 310 (390)
T ss_dssp HHHHHHHHHHHHHTTTBTT
T ss_pred hhhhHHHHHHHHHHHHhcc
Confidence 4578999999999999996
No 58
>PF15639 Tox-MPTase3: Metallopeptidase toxin 3
Probab=59.18 E-value=3.7 Score=35.88 Aligned_cols=34 Identities=29% Similarity=0.178 Sum_probs=22.0
Q ss_pred CccEEEEeeecCCCCCCCCC-------hHHHHHHHHHHhhhc
Q 038987 26 AGVHIKLLLRKLNRDRESLP-------FHEVLDTMLHELCHN 60 (316)
Q Consensus 26 ~G~~I~LRLR~~~~~~~flP-------~~~I~~vllHELaH~ 60 (316)
++++|.|+-.+..+.. .-| +-.|..||||||.|-
T Consensus 71 ~~~~i~I~~~lV~~~E-k~~~~~r~~~~~~v~~TlLHEliHw 111 (135)
T PF15639_consen 71 GSQVIRIDGDLVNMFE-KGPGERRAGNVYLVGSTLLHELIHW 111 (135)
T ss_pred CCcEEEeeHHHhhhhh-cCCcccccceEEEeehHHHHHHHHh
Confidence 5678877766554221 222 235778999999994
No 59
>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=59.09 E-value=6.8 Score=34.81 Aligned_cols=25 Identities=32% Similarity=0.262 Sum_probs=18.7
Q ss_pred CChHHHHHHHHHHhhhcCCCCCChh
Q 038987 44 LPFHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~~~H~~~ 68 (316)
..+...-.+|+|||.|+.-++||..
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 3456677999999999999999987
No 60
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=58.96 E-value=5.3 Score=24.69 Aligned_cols=21 Identities=14% Similarity=0.108 Sum_probs=18.4
Q ss_pred eeccCCcccCcCccccccCCC
Q 038987 296 TCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 296 sC~~CT~~N~~~~~~C~~C~~ 316 (316)
.|+.|.-+|......|..||+
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~ 21 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGT 21 (23)
T ss_pred CCcccCCCCCCcCcchhhhCC
Confidence 388999999999999999985
No 61
>PRK15410 DgsA anti-repressor MtfA; Provisional
Probab=57.99 E-value=9.7 Score=36.71 Aligned_cols=62 Identities=15% Similarity=0.182 Sum_probs=38.5
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCCh----------hHHHHHHHHH-HHHHHHHh
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDA----------KFYKLWEELR-EECDELRS 85 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~----------~Fy~ll~~l~-~e~~~l~~ 85 (316)
++|-...+| .|-|.+-.... .+.+ + =..|++||+||...+-++. ..|.-|.+++ .+|+.+..
T Consensus 117 ~~GEaw~~G-pVVLSW~d~~~--~~~~-d-g~NVvIHEFAH~LDm~~G~~adG~PpL~~~~~~~W~~~~~~~~~~l~~ 189 (260)
T PRK15410 117 QSGQSWQQG-PIVLNWLDIQD--SFDA-S-GFNLIIHEVAHKLDMRNGDRASGVPFIPLREVAGWEHDLHAAMNNIQE 189 (260)
T ss_pred ccccCcCCC-cEEEEHHHhhc--ccCC-C-CcchhHhHHHhHhhhhcCCCCCCCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 456566666 67787775321 2222 2 4689999999999988754 3445555443 55666643
No 62
>PLN00162 transport protein sec23; Provisional
Probab=57.96 E-value=5.6 Score=43.37 Aligned_cols=35 Identities=26% Similarity=0.655 Sum_probs=25.7
Q ss_pred ccccCcc-eeccCCCCCCCCCCCCCCCCCceeeccCCcccCcC
Q 038987 266 MWECKAC-TFLNHGCGSVPHQGDASANDRVWTCKFWTLENCVK 307 (316)
Q Consensus 266 ~W~C~~C-TllN~~C~~C~rPr~~~~~~~~WsC~~CT~~N~~~ 307 (316)
.=.|..| +|+||-|.. . ...+.|.|.+|...|...
T Consensus 53 pvRC~~CraylNPf~~~-d------~~~~~W~C~~C~~~N~~P 88 (761)
T PLN00162 53 PLRCRTCRAVLNPYCRV-D------FQAKIWICPFCFQRNHFP 88 (761)
T ss_pred CCccCCCcCEECCceEE-e------cCCCEEEccCCCCCCCCc
Confidence 3457777 588888876 2 134579999999999764
No 63
>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=57.42 E-value=8.2 Score=34.98 Aligned_cols=19 Identities=32% Similarity=0.281 Sum_probs=16.4
Q ss_pred CCChHHHHHHHHHHhhhcC
Q 038987 43 SLPFHEVLDTMLHELCHND 61 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~ 61 (316)
+.....+..||.|||.|..
T Consensus 65 ~~~~~~l~~~l~HELIHay 83 (173)
T PF09768_consen 65 IRSQGHLEDTLTHELIHAY 83 (173)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 4667899999999999964
No 64
>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=56.74 E-value=5.8 Score=39.83 Aligned_cols=20 Identities=30% Similarity=0.486 Sum_probs=12.7
Q ss_pred HHHHHHHHHhhhcC--CCCCCh
Q 038987 48 EVLDTMLHELCHND--IAPHDA 67 (316)
Q Consensus 48 ~I~~vllHELaH~~--~~~H~~ 67 (316)
.-..|+||||+|+. +.|+..
T Consensus 296 Dqatt~LHE~TH~~~V~~pgt~ 317 (359)
T PF02102_consen 296 DQATTTLHEMTHAPAVYSPGTD 317 (359)
T ss_dssp -HHHHHHHHHHT-TTTSSS--B
T ss_pred CccchhhhhhhccccccCCCcc
Confidence 45689999999995 555554
No 65
>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=56.24 E-value=2.9 Score=37.71 Aligned_cols=20 Identities=40% Similarity=0.378 Sum_probs=18.0
Q ss_pred HHHHHHHHhhhcCCCCCChh
Q 038987 49 VLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 49 I~~vllHELaH~~~~~H~~~ 68 (316)
...||.|||.|+.-.+||..
T Consensus 140 ~a~~~aHElGH~LG~~HD~~ 159 (207)
T cd04273 140 SAFTIAHELGHVLGMPHDGD 159 (207)
T ss_pred eEEeeeeechhhcCCCCCCC
Confidence 34899999999999999987
No 66
>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=56.17 E-value=7.9 Score=39.04 Aligned_cols=41 Identities=15% Similarity=-0.065 Sum_probs=27.1
Q ss_pred ccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC
Q 038987 23 NLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 23 N~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~ 64 (316)
..|.+..+.|........ ...-.+.+..||+||+-|+++-+
T Consensus 114 ~SNe~e~~YiD~~~~~~~-~~~~~~~~~sTlAHEfQHmInfy 154 (366)
T PF10460_consen 114 YSNESEYFYIDSETLYLG-GNSGPDTVYSTLAHEFQHMINFY 154 (366)
T ss_pred CCcceeEEEEecHHhhcc-CCccHHHHHHHHHHHHHHHHHHH
Confidence 456777777766542111 01226789999999999998643
No 67
>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=55.54 E-value=6.6 Score=43.06 Aligned_cols=19 Identities=21% Similarity=0.242 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHhhhcCCCC
Q 038987 46 FHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~ 64 (316)
...+..||+|||||.++||
T Consensus 284 ~~~~~~viaHElAHqWFGn 302 (831)
T TIGR02412 284 KENRAGVILHEMAHMWFGD 302 (831)
T ss_pred HHHHHHHHHHHHHHHHhCC
Confidence 3467899999999999983
No 68
>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=55.53 E-value=9 Score=25.28 Aligned_cols=21 Identities=10% Similarity=0.052 Sum_probs=11.7
Q ss_pred eeeccCCcccCc--CccccccCC
Q 038987 295 WTCKFWTLENCV--KLDKCSRVS 315 (316)
Q Consensus 295 WsC~~CT~~N~~--~~~~C~~C~ 315 (316)
|.|..|.|.-.. .-++|-.|+
T Consensus 2 ~~C~~CGy~y~~~~~~~~CP~Cg 24 (33)
T cd00350 2 YVCPVCGYIYDGEEAPWVCPVCG 24 (33)
T ss_pred EECCCCCCEECCCcCCCcCcCCC
Confidence 666666655222 355666665
No 69
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=55.27 E-value=4.5 Score=31.87 Aligned_cols=33 Identities=27% Similarity=0.158 Sum_probs=19.6
Q ss_pred CccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC
Q 038987 26 AGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA 63 (316)
Q Consensus 26 ~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~ 63 (316)
.|..|.|+--... .....=..+|.|||+|.+.-
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 4778888432110 11122457899999998753
No 70
>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=54.89 E-value=3.6 Score=40.28 Aligned_cols=45 Identities=24% Similarity=0.244 Sum_probs=31.5
Q ss_pred CChHHHHHHHHHHhhhcCC--CCCChhHHHHHHHHHHHHHHHHhccc
Q 038987 44 LPFHEVLDTMLHELCHNDI--APHDAKFYKLWEELREECDELRSKGI 88 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~--~~H~~~Fy~ll~~l~~e~~~l~~~G~ 88 (316)
.|.-.+=.|++|||||..- ..=.++|+.+|.-...+=..++..||
T Consensus 191 ~p~~~~P~T~~HElAHq~G~a~E~EANFiayLac~~s~d~~frYSgy 237 (318)
T PF12725_consen 191 LPPYSLPFTICHELAHQLGFASEDEANFIAYLACINSPDPYFRYSGY 237 (318)
T ss_pred CCcccccHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCChheeHHHH
Confidence 4455566799999999873 35567899998877655555555544
No 71
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=54.21 E-value=7.7 Score=31.98 Aligned_cols=16 Identities=31% Similarity=0.447 Sum_probs=13.4
Q ss_pred HHHHHHHHHHhhhcCC
Q 038987 47 HEVLDTMLHELCHNDI 62 (316)
Q Consensus 47 ~~I~~vllHELaH~~~ 62 (316)
+.|..|++||++|..-
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 72
>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=53.41 E-value=13 Score=35.38 Aligned_cols=65 Identities=20% Similarity=0.336 Sum_probs=32.9
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC----------CChhHHHHHHHHH-HHHHHHHhc
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP----------HDAKFYKLWEELR-EECDELRSK 86 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~----------H~~~Fy~ll~~l~-~e~~~l~~~ 86 (316)
++|-....| .|-|.+-... ..+.....=..|++||+||...+. |....++-|.+++ ++|+.+...
T Consensus 127 ~~Geaw~~G-~vvLSW~~~~--~g~~~~~dg~NVviHEfAH~LD~~~g~adG~P~l~~~~~~~~W~~~~~~~~~~l~~~ 202 (253)
T PF06167_consen 127 LLGEAWERG-PVVLSWEDVQ--EGFENPNDGHNVVIHEFAHKLDMEDGAADGVPPLHPGMSYRRWHKVFSAEYERLRER 202 (253)
T ss_dssp --------S--EEEEHHHHH--HCT--SSSS--HHHHHHHHHHHCTTS--SS--S---GGGHHHHHHHHHHHHHHHHHH
T ss_pred hhhccccCC-cEEEEHHHHh--hccCCCCCCcchHHHHHHHHHHhhcCCCCCCCccCCcccHHHHHHHHHHHHHHHHHH
Confidence 456555555 6777766432 123444455689999999998552 5566676666554 678877753
No 73
>COG1773 Rubredoxin [Energy production and conversion]
Probab=53.03 E-value=12 Score=28.22 Aligned_cols=37 Identities=22% Similarity=0.625 Sum_probs=25.4
Q ss_pred CccccCcceeccCC------CCCCCCCCCCCCCCCceeeccCCc
Q 038987 265 AMWECKACTFLNHG------CGSVPHQGDASANDRVWTCKFWTL 302 (316)
Q Consensus 265 ~~W~C~~CTllN~~------C~~C~rPr~~~~~~~~WsC~~CT~ 302 (316)
..|.|..|-++=.+ |++|..-+- .--+..|.|+-|.+
T Consensus 2 ~~~~C~~CG~vYd~e~Gdp~~gi~pgT~f-edlPd~w~CP~Cg~ 44 (55)
T COG1773 2 KRWRCSVCGYVYDPEKGDPRCGIAPGTPF-EDLPDDWVCPECGV 44 (55)
T ss_pred CceEecCCceEeccccCCccCCCCCCCch-hhCCCccCCCCCCC
Confidence 37999999998777 877543221 11234699999986
No 74
>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=52.74 E-value=5.5 Score=33.34 Aligned_cols=24 Identities=17% Similarity=0.138 Sum_probs=20.4
Q ss_pred CChHHHHHHHHHHhhhcCCCCCCh
Q 038987 44 LPFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~~~H~~ 67 (316)
.+...+..|++|||-|..--.|+.
T Consensus 100 ~~~~~~~~v~~HEiGHaLGL~H~~ 123 (154)
T PF00413_consen 100 DSGNDLQSVAIHEIGHALGLDHSN 123 (154)
T ss_dssp SSSEEHHHHHHHHHHHHTTBESSS
T ss_pred hhhhhhhhhhhhccccccCcCcCC
Confidence 455678999999999999888873
No 75
>PF13203 DUF2201_N: Putative metallopeptidase domain
Probab=51.86 E-value=11 Score=35.72 Aligned_cols=47 Identities=26% Similarity=0.318 Sum_probs=33.0
Q ss_pred ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCC----------CChhHHHHHHHHH
Q 038987 27 GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAP----------HDAKFYKLWEELR 77 (316)
Q Consensus 27 G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~----------H~~~Fy~ll~~l~ 77 (316)
|..|.++-..- .-++.+.+..+++||+-|++..+ .+...|.+=-.+.
T Consensus 42 g~~l~~nP~~~----~~l~~~~~~~~l~HevlH~~~~H~~r~~~~~~~~d~~~wn~A~Di~ 98 (292)
T PF13203_consen 42 GRRLYYNPEFL----ESLSPEERVGLLLHEVLHCLLRHPWRRGGLRKRRDPELWNLACDIA 98 (292)
T ss_pred CcEEEECcHHH----hcCCHHHHHHHHHHHHHHHHccchhhhccccccccHHHHHHHhHHH
Confidence 45787777664 24677889999999999998764 4556665544443
No 76
>KOG4345 consensus NF-kappa B regulator AP20/Cezanne [Signal transduction mechanisms]
Probab=51.77 E-value=4.1 Score=44.10 Aligned_cols=24 Identities=13% Similarity=0.044 Sum_probs=13.8
Q ss_pred CCCCCccccCcceeccCC----CCCCCC
Q 038987 261 PEEPAMWECKACTFLNHG----CGSVPH 284 (316)
Q Consensus 261 ~~~~~~W~C~~CTllN~~----C~~C~r 284 (316)
....-+|.|++||++|++ |..|..
T Consensus 86 ~~~~~k~~~~~~~~lnw~re~R~~~~ls 113 (774)
T KOG4345|consen 86 IDRNIKWPRPSLQRLNWPREKRLSRGLS 113 (774)
T ss_pred ccccccCCchHhhhhhHHHHHHHHHHhh
Confidence 344446666666666666 665544
No 77
>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=50.96 E-value=8.8 Score=40.66 Aligned_cols=16 Identities=31% Similarity=0.401 Sum_probs=14.1
Q ss_pred HHHHHHHHhhhcCCCC
Q 038987 49 VLDTMLHELCHNDIAP 64 (316)
Q Consensus 49 I~~vllHELaH~~~~~ 64 (316)
...||+|||||-+.||
T Consensus 279 ~~~viaHElAHqWfGN 294 (601)
T TIGR02411 279 NVDVIAHELAHSWSGN 294 (601)
T ss_pred hhhhHHHHHHhhccCc
Confidence 4579999999999994
No 78
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=50.66 E-value=14 Score=42.64 Aligned_cols=47 Identities=17% Similarity=0.299 Sum_probs=35.9
Q ss_pred CccccCcceeccCC--CCCCCCCCCCCCCCCceeeccCCcccCcC---ccccccCCC
Q 038987 265 AMWECKACTFLNHG--CGSVPHQGDASANDRVWTCKFWTLENCVK---LDKCSRVSK 316 (316)
Q Consensus 265 ~~W~C~~CTllN~~--C~~C~rPr~~~~~~~~WsC~~CT~~N~~~---~~~C~~C~~ 316 (316)
..-.|+.|--.... |..|..+. ...+.|+.|..+.... ...|.-|++
T Consensus 666 ~~rkCPkCG~~t~~~fCP~CGs~t-----e~vy~CPsCGaev~~des~a~~CP~CGt 717 (1337)
T PRK14714 666 GRRRCPSCGTETYENRCPDCGTHT-----EPVYVCPDCGAEVPPDESGRVECPRCDV 717 (1337)
T ss_pred EEEECCCCCCccccccCcccCCcC-----CCceeCccCCCccCCCccccccCCCCCC
Confidence 35789999987766 99998763 2358999999876543 568999985
No 79
>cd04278 ZnMc_MMP Zinc-dependent metalloprotease, matrix metalloproteinase (MMP) sub-family. MMPs are responsible for a great deal of pericellular proteolysis of extracellular matrix and cell surface molecules, playing crucial roles in morphogenesis, cell fate specification, cell migration, tissue repair, tumorigenesis, gain or loss of tissue-specific functions, and apoptosis. In many instances, they are anchored to cell membranes via trans-membrane domains, and their activity is controlled via TIMPs (tissue inhibitors of metalloproteinases).
Probab=50.30 E-value=18 Score=31.02 Aligned_cols=23 Identities=17% Similarity=0.153 Sum_probs=19.9
Q ss_pred ChHHHHHHHHHHhhhcCCCCCCh
Q 038987 45 PFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 45 P~~~I~~vllHELaH~~~~~H~~ 67 (316)
+...+..|++|||=|..--.|..
T Consensus 103 ~~~~~~~~~~HEiGHaLGL~H~~ 125 (157)
T cd04278 103 GGTDLFSVAAHEIGHALGLGHSS 125 (157)
T ss_pred ccchHHHHHHHHhccccccCCCC
Confidence 45679999999999999989984
No 80
>KOG1046 consensus Puromycin-sensitive aminopeptidase and related aminopeptidases [Amino acid transport and metabolism; Posttranslational modification, protein turnover, chaperones]
Probab=49.42 E-value=9.4 Score=42.32 Aligned_cols=19 Identities=26% Similarity=0.365 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHhhhcCCCC
Q 038987 46 FHEVLDTMLHELCHNDIAP 64 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~ 64 (316)
+..|..||+|||||-++||
T Consensus 321 k~~va~vIaHElAHQWFGN 339 (882)
T KOG1046|consen 321 KQRVAEVIAHELAHQWFGN 339 (882)
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 6779999999999999997
No 81
>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=49.17 E-value=6.2 Score=27.18 Aligned_cols=17 Identities=24% Similarity=0.702 Sum_probs=10.5
Q ss_pred CCCceeeccCCcccCcC
Q 038987 291 NDRVWTCKFWTLENCVK 307 (316)
Q Consensus 291 ~~~~WsC~~CT~~N~~~ 307 (316)
..+.|.|.+|...|...
T Consensus 21 ~~~~w~C~~C~~~N~lp 37 (40)
T PF04810_consen 21 GGKTWICNFCGTKNPLP 37 (40)
T ss_dssp TTTEEEETTT--EEE--
T ss_pred CCCEEECcCCCCcCCCC
Confidence 34579999999988764
No 82
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=47.84 E-value=30 Score=34.66 Aligned_cols=43 Identities=23% Similarity=0.313 Sum_probs=32.5
Q ss_pred CCChHHHHHHHHHHhhhcC-CCCCChhHHHHHHHHHHHHHHHHh
Q 038987 43 SLPFHEVLDTMLHELCHND-IAPHDAKFYKLWEELREECDELRS 85 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~-~~~H~~~Fy~ll~~l~~e~~~l~~ 85 (316)
-+|-..+-.+|+|||||-+ +-+-|..|-.-+..+..+.-..++
T Consensus 159 ~~~~~~LA~LIfHELaHq~~Yv~~dt~FNEsfAtfVe~~G~~~w 202 (337)
T PF10023_consen 159 RYPDGELARLIFHELAHQTLYVKGDTAFNESFATFVEREGARRW 202 (337)
T ss_pred CCCchHHHHHHHHHHhhceeecCCCchhhHHHHHHHHHHHHHHH
Confidence 3566789999999999987 557778888888777766654444
No 83
>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=47.59 E-value=9.4 Score=32.29 Aligned_cols=22 Identities=36% Similarity=0.277 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhhcCCCCCChh
Q 038987 47 HEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H~~~ 68 (316)
.....|++|||.|.+-..|+..
T Consensus 94 ~~~~~~~~HElGH~LGl~H~~~ 115 (167)
T cd00203 94 KEGAQTIAHELGHALGFYHDHD 115 (167)
T ss_pred ccchhhHHHHHHHHhCCCccCc
Confidence 4678999999999999999865
No 84
>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=42.40 E-value=28 Score=30.59 Aligned_cols=39 Identities=21% Similarity=0.097 Sum_probs=26.5
Q ss_pred ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCCCCCh
Q 038987 27 GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 27 G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~~H~~ 67 (316)
+..|.|+....... ..+-....+|++|||-|.+--.|..
T Consensus 93 ~g~i~~~~~~~~~~--~~~g~~~~~t~~HEiGHaLGL~H~~ 131 (186)
T cd04277 93 GGDIWFNSSYDTNS--DSPGSYGYQTIIHEIGHALGLEHPG 131 (186)
T ss_pred cceeEEecCccccc--CCCChhhHHHHHHHHHHHhcCCCCC
Confidence 34677776654211 1355678899999999998776653
No 85
>PF13058 DUF3920: Protein of unknown function (DUF3920)
Probab=41.65 E-value=11 Score=32.43 Aligned_cols=20 Identities=35% Similarity=0.467 Sum_probs=17.4
Q ss_pred CCChHHHHHHHHHHhhhcCC
Q 038987 43 SLPFHEVLDTMLHELCHNDI 62 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~~ 62 (316)
|-.|+.|+.||+||+-|-..
T Consensus 70 we~y~qvlktllhefrh~mQ 89 (126)
T PF13058_consen 70 WEEYEQVLKTLLHEFRHAMQ 89 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999999765
No 86
>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=41.34 E-value=19 Score=30.49 Aligned_cols=22 Identities=27% Similarity=0.193 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhhcCCCCCChh
Q 038987 47 HEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H~~~ 68 (316)
..+..|++|||-|.+-..|...
T Consensus 92 ~~~~~~~~HEiGHaLGL~H~~~ 113 (165)
T cd04268 92 ARLRNTAEHELGHALGLRHNFA 113 (165)
T ss_pred HHHHHHHHHHHHHHhcccccCc
Confidence 5689999999999998888765
No 87
>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=39.80 E-value=19 Score=24.05 Aligned_cols=23 Identities=22% Similarity=0.456 Sum_probs=15.8
Q ss_pred ceeeccCCcccCc--CccccccCCC
Q 038987 294 VWTCKFWTLENCV--KLDKCSRVSK 316 (316)
Q Consensus 294 ~WsC~~CT~~N~~--~~~~C~~C~~ 316 (316)
.|.|..|.|.=.. .-.+|.+|+.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCC
Confidence 5888888876333 3468888873
No 88
>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=39.15 E-value=14 Score=34.40 Aligned_cols=19 Identities=26% Similarity=0.370 Sum_probs=14.5
Q ss_pred HHHHHHHHhhhcCCCCCCh
Q 038987 49 VLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 49 I~~vllHELaH~~~~~H~~ 67 (316)
+-.+|+||++|++++.=..
T Consensus 101 ~~fil~HE~~Hv~~~h~~~ 119 (206)
T PF10463_consen 101 IAFILLHELAHVVLGHEGD 119 (206)
T ss_pred HHHHHHHHHHHHHHcCccc
Confidence 4578999999987765444
No 89
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=38.83 E-value=13 Score=36.57 Aligned_cols=37 Identities=16% Similarity=0.614 Sum_probs=23.7
Q ss_pred CccccCcceeccC-------C----CCCC--------CCCCCCCCCCCceeeccCC
Q 038987 265 AMWECKACTFLNH-------G----CGSV--------PHQGDASANDRVWTCKFWT 301 (316)
Q Consensus 265 ~~W~C~~CTllN~-------~----C~~C--------~rPr~~~~~~~~WsC~~CT 301 (316)
-.|+|--|-+-|- - |.-| ..|..+.++...|+|+.|-
T Consensus 274 yrwqcieck~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG 329 (336)
T KOG1244|consen 274 YRWQCIECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCL 329 (336)
T ss_pred heeeeeecceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHH
Confidence 4799988877332 1 4444 3344455566789999985
No 90
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=38.47 E-value=7 Score=40.26 Aligned_cols=20 Identities=45% Similarity=1.049 Sum_probs=16.5
Q ss_pred CccccCcceeccCC----CCCCCC
Q 038987 265 AMWECKACTFLNHG----CGSVPH 284 (316)
Q Consensus 265 ~~W~C~~CTllN~~----C~~C~r 284 (316)
-.|+|++|||+|.. |..|..
T Consensus 545 y~we~~~~~~i~~~~~~t~~m~~~ 568 (571)
T COG5100 545 YRWECKMCTFINEKNSCTCEMCNS 568 (571)
T ss_pred HHHHHHHHHHhcccCceEEEeecc
Confidence 46999999999998 677654
No 91
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=37.98 E-value=49 Score=32.74 Aligned_cols=47 Identities=19% Similarity=0.203 Sum_probs=33.8
Q ss_pred ChHHHHHHHHHHhhhcC-CCCCChhHHHHHHHHHHHHHHHHhccccCC
Q 038987 45 PFHEVLDTMLHELCHND-IAPHDAKFYKLWEELREECDELRSKGITGV 91 (316)
Q Consensus 45 P~~~I~~vllHELaH~~-~~~H~~~Fy~ll~~l~~e~~~l~~~G~~G~ 91 (316)
|-+.|-..|.|||+|-+ +-+.|..|-.-.......--..+|.-++|.
T Consensus 193 dd~~lA~LIFHELAHQk~Y~~~DtAFNEsFAtaVEt~Gvr~Wl~~~g~ 240 (376)
T COG4324 193 DDTYLASLIFHELAHQKIYVNNDTAFNESFATAVETSGVRKWLRATGD 240 (376)
T ss_pred ChHHHHHHHHHHHhhheEeecCcchHhHHHHHHHHHHhHHHHHHhcCC
Confidence 45678888999999987 568888888777766655555555555555
No 92
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=37.79 E-value=17 Score=33.11 Aligned_cols=18 Identities=39% Similarity=0.414 Sum_probs=17.1
Q ss_pred HHHHHHhhhcCCCCCChh
Q 038987 51 DTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 51 ~vllHELaH~~~~~H~~~ 68 (316)
+|++|||-|+.-..|+..
T Consensus 139 ~~~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 139 QTFAHEIGHNLGLRHDFD 156 (206)
T ss_pred hHHHHHHHHHhcCCCCcc
Confidence 789999999999999988
No 93
>PF14891 Peptidase_M91: Effector protein
Probab=35.68 E-value=12 Score=33.17 Aligned_cols=19 Identities=21% Similarity=0.167 Sum_probs=14.7
Q ss_pred HHHHHHHhhhcCCCCCChh
Q 038987 50 LDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 50 ~~vllHELaH~~~~~H~~~ 68 (316)
.-+|.|||+|-.|.-++..
T Consensus 104 ~v~L~HEL~HA~~~~~Gt~ 122 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMNGTM 122 (174)
T ss_pred HHHHHHHHHHHHHHHCCCC
Confidence 4688999999887666554
No 94
>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=34.94 E-value=27 Score=36.39 Aligned_cols=30 Identities=23% Similarity=0.273 Sum_probs=17.6
Q ss_pred EEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCC
Q 038987 29 HIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDI 62 (316)
Q Consensus 29 ~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~ 62 (316)
.|.|....... + .+....+|++||++|..-
T Consensus 194 ~in~~p~~i~~---~-~~~~~~~~~~HEi~HaLG 223 (521)
T PF01457_consen 194 VININPSYIPS---F-YFQEFFRTVIHEIAHALG 223 (521)
T ss_dssp EEE--GGG------S---HHHHHHHHHHHHHHTT
T ss_pred EEEEchhHccc---h-hhhcccceeeeeeeeeee
Confidence 45555544321 1 467888999999999984
No 95
>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=34.91 E-value=27 Score=29.81 Aligned_cols=23 Identities=26% Similarity=0.179 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHhhhcCCCCCChh
Q 038987 46 FHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~H~~~ 68 (316)
...+..|++|||=|.+--.|...
T Consensus 101 ~~~~~~~~~HEiGHaLGL~H~~~ 123 (156)
T cd04279 101 AENLQAIALHELGHALGLWHHSD 123 (156)
T ss_pred chHHHHHHHHHhhhhhcCCCCCC
Confidence 35789999999999998888765
No 96
>KOG3607 consensus Meltrins, fertilins and related Zn-dependent metalloproteinases of the ADAMs family [Posttranslational modification, protein turnover, chaperones]
Probab=34.88 E-value=22 Score=38.90 Aligned_cols=22 Identities=32% Similarity=0.274 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHhhhcCCCCCCh
Q 038987 46 FHEVLDTMLHELCHNDIAPHDA 67 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~H~~ 67 (316)
+.....||+|||+|++-+.||.
T Consensus 320 ~~~~a~v~AhelgH~lGm~hD~ 341 (716)
T KOG3607|consen 320 LLAFAVVLAHELGHNLGMIHDE 341 (716)
T ss_pred chhHHHHHHHHHHhhcCccccc
Confidence 4567789999999999999999
No 97
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=33.83 E-value=18 Score=30.17 Aligned_cols=38 Identities=26% Similarity=0.502 Sum_probs=25.1
Q ss_pred ccCcce----ec-cCC--CCCCCCCCCCCCCCCceeeccCCccc-CcCccccccCC
Q 038987 268 ECKACT----FL-NHG--CGSVPHQGDASANDRVWTCKFWTLEN-CVKLDKCSRVS 315 (316)
Q Consensus 268 ~C~~CT----ll-N~~--C~~C~rPr~~~~~~~~WsC~~CT~~N-~~~~~~C~~C~ 315 (316)
.|..|. |+ |.+ |..|. ..+|+.|...+ ....|+|-+|-
T Consensus 56 ~C~~C~~~fg~l~~~~~~C~~C~----------~~VC~~C~~~~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 56 HCARCGKPFGFLFNRGRVCVDCK----------HRVCKKCGVYSKKEPIWLCKVCQ 101 (118)
T ss_dssp B-TTTS-BCSCTSTTCEEETTTT----------EEEETTSEEETSSSCCEEEHHHH
T ss_pred chhhhCCcccccCCCCCcCCcCC----------ccccCccCCcCCCCCCEEChhhH
Confidence 566662 33 455 77776 37888888764 56788888873
No 98
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=33.36 E-value=30 Score=32.35 Aligned_cols=22 Identities=23% Similarity=0.164 Sum_probs=18.7
Q ss_pred ChHHHHHHHHHHhhhcCCCCCC
Q 038987 45 PFHEVLDTMLHELCHNDIAPHD 66 (316)
Q Consensus 45 P~~~I~~vllHELaH~~~~~H~ 66 (316)
+.+.-..||+|||-|.+-+.+.
T Consensus 68 ~~~r~rFtlAHELGH~llH~~~ 89 (213)
T COG2856 68 SLERKRFTLAHELGHALLHTDL 89 (213)
T ss_pred CHHHHHHHHHHHHhHHHhcccc
Confidence 5677889999999999977665
No 99
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=32.79 E-value=20 Score=30.98 Aligned_cols=16 Identities=38% Similarity=0.352 Sum_probs=13.0
Q ss_pred HHHHHHHHHHhhhcCC
Q 038987 47 HEVLDTMLHELCHNDI 62 (316)
Q Consensus 47 ~~I~~vllHELaH~~~ 62 (316)
.-.+.|+.|||+|++.
T Consensus 77 KGC~~TL~HEL~H~WQ 92 (141)
T PHA02456 77 KGCRDTLAHELNHAWQ 92 (141)
T ss_pred cchHHHHHHHHHHHHh
Confidence 3468999999999863
No 100
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=32.28 E-value=24 Score=36.38 Aligned_cols=42 Identities=24% Similarity=0.173 Sum_probs=30.0
Q ss_pred ccccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC
Q 038987 19 ALGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA 63 (316)
Q Consensus 19 lLGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~ 63 (316)
+.|+..|+.-+|.=.|-.. .....-++|..|++|||.|-.++
T Consensus 253 fyG~~~~KRIvIyDtLl~~---~~~~~~eel~AVl~HELGHW~~~ 294 (428)
T KOG2719|consen 253 FYGLCKNKRIVIYDTLLLE---EEHLNNEELVAVLAHELGHWKLN 294 (428)
T ss_pred eeeccccceEEEehhhhhh---hhccccHHHHHHHHHHhhHHHHh
Confidence 7899888886665444421 11145689999999999997764
No 101
>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=31.83 E-value=21 Score=29.67 Aligned_cols=18 Identities=28% Similarity=0.211 Sum_probs=15.2
Q ss_pred HHHHHHhhhcCCCCCChh
Q 038987 51 DTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 51 ~vllHELaH~~~~~H~~~ 68 (316)
.|++|||-|.+-..|...
T Consensus 88 ~~~~HEigHaLGl~H~~~ 105 (140)
T smart00235 88 GVAAHELGHALGLYHEQS 105 (140)
T ss_pred ccHHHHHHHHhcCCcCCC
Confidence 599999999998777764
No 102
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=30.68 E-value=33 Score=32.50 Aligned_cols=23 Identities=9% Similarity=0.212 Sum_probs=11.2
Q ss_pred CceeeccCCcccCcCccccccCC
Q 038987 293 RVWTCKFWTLENCVKLDKCSRVS 315 (316)
Q Consensus 293 ~~WsC~~CT~~N~~~~~~C~~C~ 315 (316)
+.|.|..|.+.-..-.+.|.-|+
T Consensus 353 p~~~c~~cg~~~~~~~~~c~~c~ 375 (389)
T PRK11788 353 PRYRCRNCGFTARTLYWHCPSCK 375 (389)
T ss_pred CCEECCCCCCCCccceeECcCCC
Confidence 34555555544444444555444
No 103
>PF08434 CLCA_N: Calcium-activated chloride channel; InterPro: IPR013642 The CLCA family of calcium-activated chloride channels has been identified in many epithelial and endothelial cell types as well as in smooth muscle cells [] and has four or five putative transmembrane regions. Additionally to their role as chloride channels some CLCA proteins function as adhesion molecules and may also have roles as tumour suppressors []. The domain described here is found at the N terminus of CLCAs.
Probab=30.32 E-value=12 Score=36.06 Aligned_cols=43 Identities=21% Similarity=0.117 Sum_probs=26.2
Q ss_pred cccccCCccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC
Q 038987 20 LGSNLGAGVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA 63 (316)
Q Consensus 20 LGlN~N~G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~ 63 (316)
.|-+-..|..|.|--...-++.. .-|.-.-.+++||-||+.+|
T Consensus 121 ~g~CGe~G~yIhltp~fl~~~~~-~~yG~~grv~VhEWAhlRWG 163 (262)
T PF08434_consen 121 YGGCGEPGEYIHLTPDFLLGDNL-SQYGPRGRVFVHEWAHLRWG 163 (262)
T ss_pred CCCCCCCCeeEEechhhhcCCch-hhcCCcceeeeehhhhhccc
Confidence 35677788888884332211110 11222468899999999987
No 104
>PF07209 DUF1415: Protein of unknown function (DUF1415); InterPro: IPR009858 This family consists of several hypothetical bacterial proteins of around 180 residues in length. The function of this family is unknown.
Probab=30.25 E-value=1.7e+02 Score=26.77 Aligned_cols=56 Identities=20% Similarity=0.293 Sum_probs=38.7
Q ss_pred EEEEeeecCCCCCCCCChHHHHHHHHHHhhhc-------------CCCCCChhHHHHHHHHHHHHHHHH-hccccCC
Q 038987 29 HIKLLLRKLNRDRESLPFHEVLDTMLHELCHN-------------DIAPHDAKFYKLWEELREECDELR-SKGITGV 91 (316)
Q Consensus 29 ~I~LRLR~~~~~~~flP~~~I~~vllHELaH~-------------~~~~H~~~Fy~ll~~l~~e~~~l~-~~G~~G~ 91 (316)
.|++..-... ..+.+...+++||.++ ++++--..|+.+++ +.+..+.+. ..|+.|.
T Consensus 33 ~Ir~~V~~a~------~~~~ll~~l~~El~~L~~~~~~~ieTTLli~P~~l~dF~dy~d-fl~~a~~ll~~~~~eG~ 102 (174)
T PF07209_consen 33 QIRYVVSEAT------DPEDLLEDLLEELQRLAADDEPEIETTLLIFPNGLDDFDDYND-FLDMADALLEELGLEGV 102 (174)
T ss_pred CEEEEEeCCC------CHHHHHHHHHHHHHHHhcCCccccceEEEECCCcccCHHHHHH-HHHHHHHHHHHcCCCce
Confidence 5666665543 3478899999999998 55666778999998 445555543 4666654
No 105
>PRK09672 phage exclusion protein Lit; Provisional
Probab=30.11 E-value=27 Score=34.50 Aligned_cols=18 Identities=22% Similarity=0.390 Sum_probs=14.4
Q ss_pred HHHHHHHHhhhcCCCCCC
Q 038987 49 VLDTMLHELCHNDIAPHD 66 (316)
Q Consensus 49 I~~vllHELaH~~~~~H~ 66 (316)
+-++++||++|++++.=.
T Consensus 165 ~a~i~~HEiaHv~~~h~~ 182 (305)
T PRK09672 165 LAWILLHEIAHVEFQHSS 182 (305)
T ss_pred HHHHHHHHHHHHHhcccc
Confidence 558999999999986443
No 106
>PRK13267 archaemetzincin-like protein; Reviewed
Probab=29.91 E-value=38 Score=30.68 Aligned_cols=23 Identities=26% Similarity=0.147 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHhhhcCCCCCChh
Q 038987 46 FHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~H~~~ 68 (316)
.+.+..+++|||-|+.-..|-..
T Consensus 122 ~~R~~k~~~HElGH~lGL~HC~~ 144 (179)
T PRK13267 122 EERVRKEVTHELGHTLGLEHCDN 144 (179)
T ss_pred HHHHHHHHHHHHHHHcCCccCCC
Confidence 45667779999999999999443
No 107
>KOG1047 consensus Bifunctional leukotriene A4 hydrolase/aminopeptidase LTA4H [Lipid transport and metabolism; Posttranslational modification, protein turnover, chaperones; Defense mechanisms; Amino acid transport and metabolism]
Probab=28.96 E-value=26 Score=37.50 Aligned_cols=19 Identities=21% Similarity=0.389 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhhcCCCCC
Q 038987 47 HEVLDTMLHELCHNDIAPH 65 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H 65 (316)
..+..||+||+||-+.||=
T Consensus 286 rsl~~vIaHEIAHSWtGNl 304 (613)
T KOG1047|consen 286 RSLVDVIAHEIAHSWTGNL 304 (613)
T ss_pred cchhhHHHHHhhhhhcccc
Confidence 3457899999999998863
No 108
>COG3227 LasB Zinc metalloprotease (elastase) [Amino acid transport and metabolism]
Probab=28.61 E-value=15 Score=38.35 Aligned_cols=58 Identities=24% Similarity=0.318 Sum_probs=36.1
Q ss_pred ccccCC----ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC------------CCChhHHHHHHHHHHHHH
Q 038987 21 GSNLGA----GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA------------PHDAKFYKLWEELREECD 81 (316)
Q Consensus 21 GlN~N~----G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~------------~H~~~Fy~ll~~l~~e~~ 81 (316)
|.|+|. |..+.+ -+.|...|-|+.--+.|+.|||+|=+-. -=+..|=+..-.+..-|.
T Consensus 308 G~~ynNAfWdG~qMvy---GDGDG~~f~~~S~sLDVvAHElTHGvtq~tA~L~Y~~qsGALNEsfSDvfG~~i~~~~ 381 (507)
T COG3227 308 GKNYNNAFWDGDQMVY---GDGDGSFFTPFSGSLDVVAHELTHGVTQQTAGLIYRGQSGALNESFSDVFGTLIEQYV 381 (507)
T ss_pred ccccccccccCceeEe---ecCCcceecccccccceehhhhcchhhhhccCceecCCCCchhhHHHHHHHHHHHHHh
Confidence 666652 544332 2455556888888899999999996543 234456555555554443
No 109
>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=27.58 E-value=31 Score=33.89 Aligned_cols=17 Identities=41% Similarity=0.460 Sum_probs=15.7
Q ss_pred HHHHHhhhcCCCCCChh
Q 038987 52 TMLHELCHNDIAPHDAK 68 (316)
Q Consensus 52 vllHELaH~~~~~H~~~ 68 (316)
|++|||-||.-..|+-.
T Consensus 153 ~~~HElgHN~GL~Ha~~ 169 (314)
T PF05548_consen 153 TIMHELGHNLGLWHAGR 169 (314)
T ss_pred HHHHHhhhhccccccCC
Confidence 99999999999999953
No 110
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.42 E-value=56 Score=35.93 Aligned_cols=49 Identities=10% Similarity=0.360 Sum_probs=37.1
Q ss_pred ccccCcceeccCCCCCCCCCCCCCCCCCceeeccCCcccCcCccccccCCC
Q 038987 266 MWECKACTFLNHGCGSVPHQGDASANDRVWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 266 ~W~C~~CTllN~~C~~C~rPr~~~~~~~~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
.-.|..|-++=. |..|.-+-.-......=.|++|.+. ...-..|.-||+
T Consensus 435 ~l~C~~Cg~v~~-Cp~Cd~~lt~H~~~~~L~CH~Cg~~-~~~p~~Cp~Cgs 483 (730)
T COG1198 435 LLLCRDCGYIAE-CPNCDSPLTLHKATGQLRCHYCGYQ-EPIPQSCPECGS 483 (730)
T ss_pred eeecccCCCccc-CCCCCcceEEecCCCeeEeCCCCCC-CCCCCCCCCCCC
Confidence 457888876422 8888776544334567999999999 888899999985
No 111
>PF15641 Tox-MPTase5: Metallopeptidase toxin 5
Probab=26.07 E-value=91 Score=25.99 Aligned_cols=38 Identities=21% Similarity=0.350 Sum_probs=27.3
Q ss_pred CCCCChHHHHHHHHHHhhhcCC-----CCC-------ChhHHHHHHHHHH
Q 038987 41 RESLPFHEVLDTMLHELCHNDI-----APH-------DAKFYKLWEELRE 78 (316)
Q Consensus 41 ~~flP~~~I~~vllHELaH~~~-----~~H-------~~~Fy~ll~~l~~ 78 (316)
..|.+...++.|++||=-|-.+ .+| +.+||..++.++.
T Consensus 56 ~~f~sra~lr~~iiheelhhrw~~rgl~~hhp~gs~~~~~fy~~i~ry~~ 105 (109)
T PF15641_consen 56 NSFSSRAELRNTIIHEELHHRWWKRGLNNHHPRGSEMSQRFYEIIRRYMS 105 (109)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHhhccccCCCCcchHHHHHHHHHHHHH
Confidence 3588889999999998666321 122 5689998887764
No 112
>PRK12496 hypothetical protein; Provisional
Probab=25.51 E-value=46 Score=29.65 Aligned_cols=9 Identities=33% Similarity=0.427 Sum_probs=4.9
Q ss_pred HHHHHHHHH
Q 038987 152 QAAAMAVEK 160 (316)
Q Consensus 152 e~aa~AAer 160 (316)
+++|.|.+-
T Consensus 82 ~~iaLA~el 90 (164)
T PRK12496 82 EVLALALEL 90 (164)
T ss_pred HHHHHHHHh
Confidence 555555554
No 113
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=25.37 E-value=23 Score=39.43 Aligned_cols=48 Identities=17% Similarity=0.350 Sum_probs=0.0
Q ss_pred CCCCccccCcceeccCC--CCCCCCCCCCCCCCCceeeccCCcccCcCccccccCCC
Q 038987 262 EEPAMWECKACTFLNHG--CGSVPHQGDASANDRVWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 262 ~~~~~W~C~~CTllN~~--C~~C~rPr~~~~~~~~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
-....-.|+.|-..-.. |..|..+ ....|.|+-|..+-... .|..|+.
T Consensus 651 vei~~r~Cp~Cg~~t~~~~Cp~CG~~-----T~~~~~Cp~C~~~~~~~--~C~~C~~ 700 (900)
T PF03833_consen 651 VEIGRRRCPKCGKETFYNRCPECGSH-----TEPVYVCPDCGIEVEED--ECPKCGR 700 (900)
T ss_dssp ---------------------------------------------------------
T ss_pred EeeecccCcccCCcchhhcCcccCCc-----cccceeccccccccCcc--ccccccc
Confidence 34567889999887666 8888644 45579999999765544 8999874
No 114
>KOG3658 consensus Tumor necrosis factor-alpha-converting enzyme (TACE/ADAM17) and related metalloproteases [Extracellular structures]
Probab=24.61 E-value=45 Score=36.49 Aligned_cols=45 Identities=24% Similarity=0.200 Sum_probs=32.3
Q ss_pred CCccEEEEeeecC--CCCCCCCChHHHHHHHHHHhhhcCCCCCChhH
Q 038987 25 GAGVHIKLLLRKL--NRDRESLPFHEVLDTMLHELCHNDIAPHDAKF 69 (316)
Q Consensus 25 N~G~~I~LRLR~~--~~~~~flP~~~I~~vllHELaH~~~~~H~~~F 69 (316)
|.|.++.|+.-.. -+-+.-.|...++-|++||+-||.-.+||..=
T Consensus 366 ~~G~~~sLNtGi~T~~NYg~~Vp~kvs~lt~AHEiGHNfGSpHDp~~ 412 (764)
T KOG3658|consen 366 NEGKKRSLNTGISTSVNYGKRVPTKVSDLTLAHEIGHNFGSPHDPDI 412 (764)
T ss_pred cCcceEEeecceeeeeecCCccCcchhheeehhhhccccCCCCCCCC
Confidence 3455565554322 12234688899999999999999999999764
No 115
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=24.49 E-value=46 Score=27.39 Aligned_cols=25 Identities=12% Similarity=0.343 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCCceeeccCCcc
Q 038987 279 CGSVPHQGDASANDRVWTCKFWTLE 303 (316)
Q Consensus 279 C~~C~rPr~~~~~~~~WsC~~CT~~ 303 (316)
|..|.++..--.....|.|..|.+.
T Consensus 38 Cp~C~~~~VkR~a~GIW~C~kCg~~ 62 (89)
T COG1997 38 CPFCGRTTVKRIATGIWKCRKCGAK 62 (89)
T ss_pred CCCCCCcceeeeccCeEEcCCCCCe
Confidence 7777776433335568999999864
No 116
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=24.37 E-value=36 Score=29.77 Aligned_cols=14 Identities=29% Similarity=0.662 Sum_probs=12.0
Q ss_pred HHHHHHHHHHhhhc
Q 038987 47 HEVLDTMLHELCHN 60 (316)
Q Consensus 47 ~~I~~vllHELaH~ 60 (316)
+.|..|++||+.|-
T Consensus 107 d~vthvliHEIgHh 120 (136)
T COG3824 107 DQVTHVLIHEIGHH 120 (136)
T ss_pred hHhhhhhhhhhhhh
Confidence 56889999999994
No 117
>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=24.16 E-value=48 Score=29.75 Aligned_cols=19 Identities=32% Similarity=0.309 Sum_probs=15.3
Q ss_pred HHHHHHHHHhhhcCCCCCC
Q 038987 48 EVLDTMLHELCHNDIAPHD 66 (316)
Q Consensus 48 ~I~~vllHELaH~~~~~H~ 66 (316)
....|++|||-|.+--.|.
T Consensus 91 ~~~~~i~HElgHaLG~~HE 109 (198)
T cd04327 91 EFSRVVLHEFGHALGFIHE 109 (198)
T ss_pred hHHHHHHHHHHHHhcCccc
Confidence 4568999999999866664
No 118
>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=23.49 E-value=52 Score=30.41 Aligned_cols=23 Identities=26% Similarity=0.197 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHhhhcCCCCCChh
Q 038987 46 FHEVLDTMLHELCHNDIAPHDAK 68 (316)
Q Consensus 46 ~~~I~~vllHELaH~~~~~H~~~ 68 (316)
.+.+..+++|||.|+.--+|=..
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 46677999999999998888544
No 119
>KOG3314 consensus Ku70-binding protein [Replication, recombination and repair]
Probab=22.83 E-value=89 Score=28.80 Aligned_cols=19 Identities=26% Similarity=0.205 Sum_probs=15.8
Q ss_pred CCChHHHHHHHHHHhhhcC
Q 038987 43 SLPFHEVLDTMLHELCHND 61 (316)
Q Consensus 43 flP~~~I~~vllHELaH~~ 61 (316)
.+....+..|++|||-|..
T Consensus 85 l~~q~h~n~vv~HElIH~f 103 (194)
T KOG3314|consen 85 LTIQDHVNQVVIHELIHAF 103 (194)
T ss_pred cchHHHHHHHHHHHHHHHH
Confidence 4556889999999999964
No 120
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=22.18 E-value=48 Score=34.76 Aligned_cols=34 Identities=18% Similarity=0.082 Sum_probs=22.8
Q ss_pred ccEEEEeeecCCCCCCCCChHHHHHHHHHHhhhcCCC
Q 038987 27 GVHIKLLLRKLNRDRESLPFHEVLDTMLHELCHNDIA 63 (316)
Q Consensus 27 G~~I~LRLR~~~~~~~flP~~~I~~vllHELaH~~~~ 63 (316)
|..|-|+--..- .--....|-.||.||+.|+..+
T Consensus 111 Gg~v~vntGLll---~ae~esElagViAHEigHv~qr 144 (484)
T COG4783 111 GGYVVVNTGLLL---TAENESELAGVIAHEIGHVAQR 144 (484)
T ss_pred CceEEEehHHHH---hcCCHHHHHHHHHHHHHHHhhh
Confidence 666766643320 1123478999999999999765
No 121
>KOG2760 consensus Vacuolar sorting protein VPS36 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.00 E-value=60 Score=33.44 Aligned_cols=43 Identities=14% Similarity=0.206 Sum_probs=26.7
Q ss_pred CCCCCccccCcceeccCC-----CCCCCCCC-------CCCCCCCceeeccCCcc
Q 038987 261 PEEPAMWECKACTFLNHG-----CGSVPHQG-------DASANDRVWTCKFWTLE 303 (316)
Q Consensus 261 ~~~~~~W~C~~CTllN~~-----C~~C~rPr-------~~~~~~~~WsC~~CT~~ 303 (316)
+.....|.|+.|+++|-. |-.|.+-- .+.+....=-|++|||.
T Consensus 85 ~~~~~~~~~pls~vI~v~~~~~~~~~~g~~~~i~~~~~~~~~~~~~gp~~a~~~~ 139 (432)
T KOG2760|consen 85 ADVEVTWVCPLSMVINVGEPAKSELTFGKINRIVVILHKPNPRFSPGPCPASTFA 139 (432)
T ss_pred cccceeeeeceeEEEEecCccchhhcccccceEEEEeCCCCCcCCCCCcccceee
Confidence 344568999999999977 55543211 01112234678999875
No 122
>KOG1986 consensus Vesicle coat complex COPII, subunit SEC23 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.82 E-value=64 Score=35.42 Aligned_cols=40 Identities=25% Similarity=0.536 Sum_probs=28.4
Q ss_pred CCCCCCccccCcce-eccCCCCCCCCCCCCCCCCCceeeccCCcccCc
Q 038987 260 NPEEPAMWECKACT-FLNHGCGSVPHQGDASANDRVWTCKFWTLENCV 306 (316)
Q Consensus 260 ~~~~~~~W~C~~CT-llN~~C~~C~rPr~~~~~~~~WsC~~CT~~N~~ 306 (316)
+.....+-.|..|. ++||-|.+ . ...+.|.|.||-=.|..
T Consensus 47 ~~~~y~P~~C~~C~AvlNPyc~v-d------~~a~~W~CpfC~qrN~~ 87 (745)
T KOG1986|consen 47 PPIQYDPLRCSKCGAVLNPYCSV-D------FRAKSWICPFCNQRNPF 87 (745)
T ss_pred CccCCCCchhccchhhcCcceee-c------ccCceEeccccccCCCC
Confidence 34555677888885 67777887 2 13457999999888854
No 123
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.71 E-value=44 Score=30.25 Aligned_cols=21 Identities=24% Similarity=0.820 Sum_probs=15.6
Q ss_pred ccccCcceeccCC-----CCCCCCCC
Q 038987 266 MWECKACTFLNHG-----CGSVPHQG 286 (316)
Q Consensus 266 ~W~C~~CTllN~~-----C~~C~rPr 286 (316)
.|-|+.|-++=.. |.+|..|+
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~k 159 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAPK 159 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCChH
Confidence 7999999886444 77776554
No 124
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=21.44 E-value=52 Score=29.86 Aligned_cols=15 Identities=40% Similarity=0.483 Sum_probs=11.5
Q ss_pred HHHHHHHHHhhhcCC
Q 038987 48 EVLDTMLHELCHNDI 62 (316)
Q Consensus 48 ~I~~vllHELaH~~~ 62 (316)
.+..|++||+.|.+.
T Consensus 21 ~~l~t~~HE~gHal~ 35 (200)
T PF13398_consen 21 RLLVTFVHELGHALA 35 (200)
T ss_pred HHHHHHHHHHHHHHH
Confidence 445599999999753
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=20.92 E-value=58 Score=32.51 Aligned_cols=38 Identities=21% Similarity=0.017 Sum_probs=28.4
Q ss_pred CChHHHHHHHHHHhhhcCCCCCChhHHHHHHHHHHHHH
Q 038987 44 LPFHEVLDTMLHELCHNDIAPHDAKFYKLWEELREECD 81 (316)
Q Consensus 44 lP~~~I~~vllHELaH~~~~~H~~~Fy~ll~~l~~e~~ 81 (316)
=|-+..+|+.+||.||-..-.|-+---..+.....+|-
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 34567789999999999988888766666666666653
No 126
>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=20.91 E-value=63 Score=23.90 Aligned_cols=33 Identities=15% Similarity=0.270 Sum_probs=18.5
Q ss_pred ccccCcceeccCCCCCCCCCCCCCCCCCceeeccCCccc
Q 038987 266 MWECKACTFLNHGCGSVPHQGDASANDRVWTCKFWTLEN 304 (316)
Q Consensus 266 ~W~C~~CTllN~~C~~C~rPr~~~~~~~~WsC~~CT~~N 304 (316)
.--|+.|-..|-. . |+. ....-+|.|.+|.+.|
T Consensus 22 aLIC~~C~~hNGl----a-~~~-~~~~i~y~C~~Cg~~N 54 (54)
T PF10058_consen 22 ALICSKCFSHNGL----A-PKE-EFEEIQYRCPYCGALN 54 (54)
T ss_pred eEECcccchhhcc----c-ccc-cCCceEEEcCCCCCcC
Confidence 3456666665532 1 111 1133479999998877
No 127
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.60 E-value=34 Score=33.94 Aligned_cols=17 Identities=24% Similarity=0.874 Sum_probs=12.7
Q ss_pred ccccCcceeccCCCCCCCCCC
Q 038987 266 MWECKACTFLNHGCGSVPHQG 286 (316)
Q Consensus 266 ~W~C~~CTllN~~C~~C~rPr 286 (316)
.|+|..|-+ |..|..|.
T Consensus 308 ~W~C~~C~l----C~IC~~P~ 324 (381)
T KOG1512|consen 308 FWKCSSCEL----CRICLGPV 324 (381)
T ss_pred chhhcccHh----hhccCCcc
Confidence 799988887 66666664
No 128
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=20.38 E-value=65 Score=30.31 Aligned_cols=20 Identities=45% Similarity=0.448 Sum_probs=15.5
Q ss_pred HHHHHHHHHHhhhcCCCCCC
Q 038987 47 HEVLDTMLHELCHNDIAPHD 66 (316)
Q Consensus 47 ~~I~~vllHELaH~~~~~H~ 66 (316)
..+..|++||+.|..+...+
T Consensus 90 ~~~~~~l~HE~GHAlI~~~~ 109 (220)
T PF14247_consen 90 GNVLFTLYHELGHALIDDLD 109 (220)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 45778999999998765544
No 129
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.06 E-value=70 Score=34.66 Aligned_cols=48 Identities=13% Similarity=0.265 Sum_probs=32.6
Q ss_pred ccccCcceeccCCCCCCCCCCCCCCCCCceeeccCCcccCcCccccccCCC
Q 038987 266 MWECKACTFLNHGCGSVPHQGDASANDRVWTCKFWTLENCVKLDKCSRVSK 316 (316)
Q Consensus 266 ~W~C~~CTllN~~C~~C~rPr~~~~~~~~WsC~~CT~~N~~~~~~C~~C~~ 316 (316)
.-.|..|-..-. |..|.-|-........=.|+.|.+. . .-+.|..||.
T Consensus 383 ~l~C~~Cg~~~~-C~~C~~~L~~h~~~~~l~Ch~CG~~-~-~p~~Cp~Cgs 430 (665)
T PRK14873 383 SLACARCRTPAR-CRHCTGPLGLPSAGGTPRCRWCGRA-A-PDWRCPRCGS 430 (665)
T ss_pred eeEhhhCcCeeE-CCCCCCceeEecCCCeeECCCCcCC-C-cCccCCCCcC
Confidence 457888865221 8888766543333456789999985 3 5789999984
Done!