Query 012885
Match_columns 454
No_of_seqs 279 out of 829
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 07:19:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012885.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012885hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06160 S2P-M50_like_2 Unchara 100.0 1.1E-30 2.4E-35 245.5 19.4 152 188-397 29-181 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.9 1.3E-22 2.7E-27 196.7 17.3 130 188-367 41-170 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.9 6.1E-21 1.3E-25 182.3 16.7 128 188-367 26-153 (208)
4 cd05709 S2P-M50 Site-2 proteas 99.8 3.3E-19 7.1E-24 165.2 13.4 135 194-370 2-158 (180)
5 cd06163 S2P-M50_PDZ_RseP-like 99.8 1.2E-17 2.5E-22 157.4 14.4 113 194-364 3-145 (182)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.7 1.4E-16 2.9E-21 158.0 15.7 121 191-370 109-232 (263)
7 PF02163 Peptidase_M50: Peptid 99.7 2.2E-17 4.7E-22 154.0 9.1 128 195-364 2-158 (192)
8 cd06162 S2P-M50_PDZ_SREBP Ster 99.6 2.3E-15 4.9E-20 150.0 13.6 122 193-370 128-252 (277)
9 cd06158 S2P-M50_like_1 Unchara 99.6 4E-15 8.8E-20 139.8 10.8 136 195-371 4-160 (181)
10 COG1994 SpoIVFB Zn-dependent p 99.1 1.6E-09 3.5E-14 105.3 16.8 134 189-370 41-178 (230)
11 COG0750 Predicted membrane-ass 98.9 2E-09 4.3E-14 109.9 6.6 150 199-370 181-341 (375)
12 PRK10779 zinc metallopeptidase 98.4 3.7E-07 8E-12 96.8 7.6 83 192-274 7-119 (449)
13 TIGR00054 RIP metalloprotease 98.4 4E-07 8.8E-12 95.9 7.0 81 194-274 8-119 (420)
14 TIGR00054 RIP metalloprotease 97.0 0.0013 2.8E-08 69.6 6.5 33 331-363 349-381 (420)
15 PRK10779 zinc metallopeptidase 96.9 0.0017 3.7E-08 69.2 6.2 34 330-363 377-410 (449)
16 PF13398 Peptidase_M50B: Pepti 96.7 0.0028 6.1E-08 60.7 5.5 65 202-273 24-88 (200)
17 COG0750 Predicted membrane-ass 94.9 0.074 1.6E-06 54.5 7.6 82 193-274 6-120 (375)
18 KOG2921 Intramembrane metallop 92.4 0.13 2.7E-06 54.5 3.8 76 191-270 121-202 (484)
19 PF05572 Peptidase_M43: Pregna 59.5 4.5 9.8E-05 37.4 1.1 13 201-213 70-82 (154)
20 PF00413 Peptidase_M10: Matrix 54.1 7.6 0.00016 34.5 1.7 18 202-219 107-124 (154)
21 cd04279 ZnMc_MMP_like_1 Zinc-d 51.1 9.3 0.0002 34.6 1.7 26 200-225 104-130 (156)
22 PF13485 Peptidase_MA_2: Pepti 50.8 12 0.00027 31.1 2.4 17 202-218 27-43 (128)
23 PF01435 Peptidase_M48: Peptid 49.2 11 0.00024 35.3 2.0 19 201-221 90-108 (226)
24 PF06114 DUF955: Domain of unk 46.5 11 0.00025 31.1 1.5 17 203-219 45-61 (122)
25 cd04268 ZnMc_MMP_like Zinc-dep 43.9 21 0.00046 32.0 2.9 23 196-218 90-112 (165)
26 PF13688 Reprolysin_5: Metallo 38.6 15 0.00033 34.1 1.1 21 200-220 142-162 (196)
27 PF09585 Lin0512_fam: Conserve 38.5 14 0.00029 33.1 0.7 60 30-93 32-91 (113)
28 cd04278 ZnMc_MMP Zinc-dependen 38.3 14 0.00031 33.5 0.9 21 200-220 107-127 (157)
29 PHA02456 zinc metallopeptidase 37.5 19 0.00042 32.3 1.5 18 204-221 83-100 (141)
30 PF13582 Reprolysin_3: Metallo 37.5 17 0.00036 31.2 1.1 14 202-215 109-122 (124)
31 cd04927 ACT_ACR-like_2 Second 37.4 35 0.00076 27.5 2.9 34 72-116 41-74 (76)
32 PF02031 Peptidase_M7: Strepto 37.2 21 0.00044 32.8 1.7 10 203-212 80-89 (132)
33 PF13574 Reprolysin_2: Metallo 37.0 18 0.00039 33.8 1.3 18 202-219 113-130 (173)
34 COG2856 Predicted Zn peptidase 35.3 19 0.00042 35.3 1.3 15 204-218 76-90 (213)
35 cd00203 ZnMc Zinc-dependent me 35.2 19 0.00042 32.2 1.2 20 199-218 95-114 (167)
36 cd04277 ZnMc_serralysin_like Z 34.2 22 0.00048 33.1 1.5 19 201-219 114-132 (186)
37 smart00235 ZnMc Zinc-dependent 34.1 21 0.00045 31.5 1.2 13 203-215 89-101 (140)
38 COG5309 Exo-beta-1,3-glucanase 33.9 60 0.0013 33.4 4.5 66 58-126 215-283 (305)
39 PF14891 Peptidase_M91: Effect 33.8 27 0.00058 32.7 1.9 16 201-216 104-119 (174)
40 PRK03001 M48 family peptidase; 32.9 27 0.00058 35.1 1.9 12 201-212 125-136 (283)
41 cd04269 ZnMc_adamalysin_II_lik 32.6 26 0.00055 32.8 1.6 20 200-219 131-150 (194)
42 cd04270 ZnMc_TACE_like Zinc-de 31.8 29 0.00062 34.3 1.9 18 198-215 165-182 (244)
43 COG3824 Predicted Zn-dependent 31.7 21 0.00046 32.5 0.8 15 198-212 107-121 (136)
44 PF12315 DUF3633: Protein of u 31.5 32 0.0007 33.9 2.1 28 189-219 84-111 (212)
45 PRK03982 heat shock protein Ht 31.2 30 0.00065 34.9 1.9 11 202-212 127-137 (288)
46 cd04267 ZnMc_ADAM_like Zinc-de 31.1 22 0.00047 33.1 0.9 19 201-219 134-152 (192)
47 PF13699 DUF4157: Domain of un 31.0 28 0.00062 28.7 1.4 13 202-214 63-75 (79)
48 PF01434 Peptidase_M41: Peptid 29.7 44 0.00096 32.2 2.8 18 201-218 29-46 (213)
49 PF12388 Peptidase_M57: Dual-a 29.2 27 0.00059 34.3 1.2 24 195-218 128-151 (211)
50 PRK04897 heat shock protein Ht 28.8 35 0.00075 34.8 1.9 11 202-212 139-149 (298)
51 PF11667 DUF3267: Protein of u 28.0 18 0.0004 31.1 -0.2 22 200-221 4-25 (111)
52 PF14247 DUF4344: Domain of un 27.0 64 0.0014 31.9 3.4 23 196-219 88-110 (220)
53 COG0612 PqqL Predicted Zn-depe 26.8 65 0.0014 33.8 3.6 95 2-111 122-222 (438)
54 PF13583 Reprolysin_4: Metallo 26.7 33 0.00072 33.0 1.3 16 204-219 141-156 (206)
55 PF09471 Peptidase_M64: IgA Pe 26.1 29 0.00063 35.1 0.8 15 200-214 216-230 (264)
56 PRK01345 heat shock protein Ht 26.0 42 0.0009 34.7 1.9 11 202-212 126-136 (317)
57 COG0501 HtpX Zn-dependent prot 25.8 43 0.00093 33.0 1.9 17 202-220 159-175 (302)
58 smart00731 SprT SprT homologue 25.5 42 0.00092 30.4 1.7 17 200-216 59-75 (146)
59 PRK02391 heat shock protein Ht 25.3 44 0.00095 34.2 1.9 10 202-211 135-144 (296)
60 cd04327 ZnMc_MMP_like_3 Zinc-d 25.3 39 0.00085 32.0 1.5 11 203-213 95-105 (198)
61 TIGR03592 yidC_oxa1_cterm memb 25.3 62 0.0013 30.4 2.8 47 8-54 43-90 (181)
62 PRK03072 heat shock protein Ht 24.7 46 0.00099 33.8 1.9 10 202-211 129-138 (288)
63 PRK05457 heat shock protein Ht 24.6 46 0.001 33.8 1.9 10 202-211 136-145 (284)
64 PLN02259 branched-chain-amino- 24.5 67 0.0015 34.2 3.2 74 35-112 293-372 (388)
65 PRK01265 heat shock protein Ht 24.3 47 0.001 34.6 1.9 10 202-211 142-151 (324)
66 PF10263 SprT-like: SprT-like 23.6 57 0.0012 29.3 2.2 18 199-216 59-76 (157)
67 PF01447 Peptidase_M4: Thermol 23.2 52 0.0011 30.5 1.8 11 203-213 138-148 (150)
68 PRK02870 heat shock protein Ht 23.1 51 0.0011 34.5 1.9 10 202-211 175-184 (336)
69 PF01421 Reprolysin: Reprolysi 22.9 59 0.0013 30.5 2.2 21 199-219 130-150 (199)
70 KOG2987 Fatty acid desaturase 22.8 2.8E+02 0.006 28.7 6.9 29 201-229 84-120 (324)
71 TIGR02500 type_III_yscD type I 22.3 1.8E+02 0.0038 31.1 5.8 44 83-126 302-345 (410)
72 PF08002 DUF1697: Protein of u 22.1 3.3E+02 0.0072 24.6 6.8 60 58-124 18-79 (137)
73 cd04272 ZnMc_salivary_gland_MP 21.7 55 0.0012 31.4 1.8 20 201-220 146-165 (220)
74 KOG2264 Exostosin EXT1L [Signa 21.6 1E+02 0.0022 34.8 3.9 101 8-126 131-235 (907)
75 PRK10245 adrA diguanylate cycl 21.5 1.9E+02 0.0042 30.1 5.8 21 97-117 258-278 (366)
76 PLN02782 Branched-chain amino 21.1 1.1E+02 0.0024 32.8 4.0 76 35-112 307-387 (403)
77 cd04275 ZnMc_pappalysin_like Z 21.0 15 0.00034 36.1 -2.2 45 75-124 50-95 (225)
78 PF06262 DUF1025: Possibl zinc 20.6 66 0.0014 27.8 1.8 15 198-212 71-85 (97)
79 PRK14474 F0F1 ATP synthase sub 20.5 3.4E+02 0.0075 27.0 7.1 32 94-125 183-215 (250)
80 PRK09966 putative inner membra 20.3 2.6E+02 0.0056 28.7 6.5 23 97-119 300-322 (407)
81 cd06459 M3B_Oligoendopeptidase 20.2 50 0.0011 34.3 1.2 14 202-215 224-237 (427)
No 1
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=99.97 E-value=1.1e-30 Score=245.52 Aligned_cols=152 Identities=39% Similarity=0.661 Sum_probs=134.3
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCCCCcccceeeEEechHHhHHHHH
Q 012885 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSL 267 (454)
Q Consensus 188 ~~~~~lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~p~RkaLfdIaiAGPlaG~v~al 267 (454)
.+..+++++++++.++.+||+||+++||++|+|++.++++|.+.+|++|+++++++..++|++.++|++|||++|+++++
T Consensus 29 ~~~~~~~~~l~l~~~l~iHElgH~~~A~~~G~~~~~~~l~P~~~~G~~G~~~~~~~~~~~~~~~~~IalAGPl~nl~lal 108 (183)
T cd06160 29 LLLQGLPFALALLAILGIHEMGHYLAARRHGVKASLPYFIPFPFIGTFGAFIRMRSPIPNRKALFDIALAGPLAGLLLAL 108 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCccceeeeehHhcCcEEEEEEecCCCCChhHhehhhhhHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999888999999999999999999999999999999998887
Q ss_pred HHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhh
Q 012885 268 ALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNL 347 (454)
Q Consensus 268 ~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNL 347 (454)
++.+++ +..++|+|+++++|||
T Consensus 109 i~~~~~----------------------------------------------------------~~~~~~~nl~l~~fNL 130 (183)
T cd06160 109 PVLIIG----------------------------------------------------------LAVAGWVGLLVTALNL 130 (183)
T ss_pred HHHHHH----------------------------------------------------------HHHHHHHHHHHHHHHh
Confidence 654432 1246889999999999
Q ss_pred cCCCCCChHHHHHHHhchhhHHHHHHHHHHHHHHHHhhhh-HHHHHHHHHH
Q 012885 348 LPCGRLEGGRIAQAMFGRNTANLLSFATSLLLGIGGLSGS-VLCLAWGLFA 397 (454)
Q Consensus 348 LPvgqLDGGrI~~Al~G~r~~~~~~~~~~~lL~l~~~~~~-~l~l~w~lli 397 (454)
+|++|||||||+|+++++|.+...++++.+++++.++..+ ..|+.|..++
T Consensus 131 LPi~PLDGGril~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 181 (183)
T cd06160 131 LPVGQLDGGHIVRALFGRRVAALIGIGLLVALGLLALYLSFSIWLLWALLL 181 (183)
T ss_pred CCCCCcChHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 9999999999999999999999999999998888877543 2577776554
No 2
>cd06164 S2P-M50_SpoIVFB_CBS SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain. SpoIVFB is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB. It has been proposed tha
Probab=99.90 E-value=1.3e-22 Score=196.70 Aligned_cols=130 Identities=22% Similarity=0.278 Sum_probs=105.8
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCCCCcccceeeEEechHHhHHHHH
Q 012885 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSL 267 (454)
Q Consensus 188 ~~~~~lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~p~RkaLfdIaiAGPlaG~v~al 267 (454)
.+..|+.++++++.++++||+||+++||++|+|+....+. .||+++++++..+++++.+.|++|||++|+++++
T Consensus 41 ~~~~g~~~~~~l~~~v~iHElgH~~~A~~~G~~v~~i~l~------p~Gg~~~~~~~~~~~~~~~~IalAGPl~Nllla~ 114 (227)
T cd06164 41 AWLLGLAAALLLFASVLLHELGHSLVARRYGIPVRSITLF------LFGGVARLEREPETPGQEFVIAIAGPLVSLVLAL 114 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCeECeEEEE------eeeEEEEecCCCCCHHHHhhhhhhHHHHHHHHHH
Confidence 4667899999999999999999999999999999765544 5799999999988999999999999999999998
Q ss_pred HHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhh
Q 012885 268 ALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNL 347 (454)
Q Consensus 268 ~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNL 347 (454)
++.+........ . ++. ...-+.+.+|+|+++++|||
T Consensus 115 i~~~l~~~~~~~----~------------~~~----------------------------~~~~~~~~~~~Nl~l~~fNL 150 (227)
T cd06164 115 LFLLLSLALPGS----G------------AGP----------------------------LGVLLGYLALINLLLAVFNL 150 (227)
T ss_pred HHHHHHHHhccc----c------------chH----------------------------HHHHHHHHHHHHHHHHHHhC
Confidence 766554322100 0 000 01124567899999999999
Q ss_pred cCCCCCChHHHHHHHhchhh
Q 012885 348 LPCGRLEGGRIAQAMFGRNT 367 (454)
Q Consensus 348 LPvgqLDGGrI~~Al~G~r~ 367 (454)
+|+.|||||||+++++.++.
T Consensus 151 lP~~PLDGgril~~ll~~~~ 170 (227)
T cd06164 151 LPAFPLDGGRVLRALLWRRT 170 (227)
T ss_pred cCCCCCChHHHHHHHHHHhc
Confidence 99999999999999998877
No 3
>cd06161 S2P-M50_SpoIVFB SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB.
Probab=99.86 E-value=6.1e-21 Score=182.32 Aligned_cols=128 Identities=22% Similarity=0.229 Sum_probs=103.5
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCCCCcccceeeEEechHHhHHHHH
Q 012885 188 YLANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSL 267 (454)
Q Consensus 188 ~~~~~lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~p~RkaLfdIaiAGPlaG~v~al 267 (454)
.+..++.+++.++.++++||+||+++||++|+++.... +..+|+.+++++...+|++.+.|++|||++|+++++
T Consensus 26 ~~~~~~~~~l~l~~~v~iHElgH~~~A~~~G~~v~~i~------l~p~Gg~~~~~~~~~~~~~~~lIalAGPl~n~~la~ 99 (208)
T cd06161 26 AWLLGLLEALLLFLSVLLHELGHALVARRYGIRVRSIT------LLPFGGVAELEEEPETPKEEFVIALAGPLVSLLLAG 99 (208)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccceE------EEeeeeeeeeccCCCChhHheeeeeehHHHHHHHHH
Confidence 35577889999999999999999999999999987554 445899999988877899999999999999999887
Q ss_pred HHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhh
Q 012885 268 ALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNL 347 (454)
Q Consensus 268 ~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNL 347 (454)
++.+....... .+ .....+...+|+|+.++++||
T Consensus 100 ~~~~l~~~~~~------------------~~----------------------------~~~~~~~~~~~~N~~l~lfNL 133 (208)
T cd06161 100 LFYLLYLLLPG------------------GG----------------------------PLSSLLEFLAQVNLILGLFNL 133 (208)
T ss_pred HHHHHHHHccc------------------ch----------------------------HHHHHHHHHHHHHHHHHHHHc
Confidence 76544322110 00 011235567899999999999
Q ss_pred cCCCCCChHHHHHHHhchhh
Q 012885 348 LPCGRLEGGRIAQAMFGRNT 367 (454)
Q Consensus 348 LPvgqLDGGrI~~Al~G~r~ 367 (454)
+|+.|||||||+++++.++.
T Consensus 134 lPi~pLDGg~il~~ll~~~~ 153 (208)
T cd06161 134 LPALPLDGGRVLRALLWRRT 153 (208)
T ss_pred cCCCCCChHHHHHHHHHHhc
Confidence 99999999999999998776
No 4
>cd05709 S2P-M50 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. The domain core structure appears to contain at least three transmembrane helices with a catalytic zinc atom coordinated by three conserved residues contained within the consensus sequence HExxH, together with a conserved aspartate residue. The S2P/M50 family of RIP proteases is widely distributed; in eukaryotic cells, they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum (ER) stress responses. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of sterol regulatory element-bindin
Probab=99.80 E-value=3.3e-19 Score=165.23 Aligned_cols=135 Identities=24% Similarity=0.334 Sum_probs=99.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeec-----------------cccccccccccccceeEecCCCCCC-----cccc
Q 012885 194 PLFGGLITILGVSEISTRLTAARYGVKLS-----------------PSFLVPSNWTGCLGVMNNYESLLPN-----KKAL 251 (454)
Q Consensus 194 p~al~ll~iL~vHElGH~laAr~~gv~~s-----------------lP~fIP~~~lGtfGAvi~~ks~~p~-----RkaL 251 (454)
.+.++++.++.+||+||+++||++|+++. ...++| +|++.++.+..++ |++.
T Consensus 2 ~~~~~~~i~i~iHE~gH~~~A~~~G~~~~~~~~~~~~~~~~~~~~~~~~~ip------~gG~~~~~~~~~~~~~~~~~~~ 75 (180)
T cd05709 2 AFILALLISVTVHELGHALVARRLGVKVARFSGGFTLNPLKHGDPYGIILIP------LGGYAKPVGENPRAFKKPRWQR 75 (180)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHcCCCchheeeeEEECCcCCCCEehHHHHh------ccCeeccCCCChhhhccchhhh
Confidence 46678889999999999999999999662 233343 4889988887654 8888
Q ss_pred eeeEEechHHhHHHHHHHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccH
Q 012885 252 FDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDP 331 (454)
Q Consensus 252 fdIaiAGPlaG~v~al~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hP 331 (454)
+.|++|||++|+++++++........... .... +.. ......+.
T Consensus 76 ~~i~laGPl~nllla~i~~~~~~~~~~~~-~~~~-----------~~~------------------------~~~~~~~~ 119 (180)
T cd05709 76 LLVALAGPLANLLLALLLLLLLLLLGGLP-PAPV-----------GQA------------------------ASSGLANL 119 (180)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHccCC-ccch-----------hhh------------------------HHHHHHHH
Confidence 89999999999999988765544322100 0000 000 00112245
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHH
Q 012885 332 LAFAGLLGMVVTSLNLLPCGRLEGGRIAQAMFGRNTANL 370 (454)
Q Consensus 332 la~agw~GL~vtalNLLPvgqLDGGrI~~Al~G~r~~~~ 370 (454)
+.+++|+|+.++++||+|+.||||||++++++.++..+.
T Consensus 120 l~~~~~~n~~l~~fNLlPi~plDGg~il~~~l~~~~~~~ 158 (180)
T cd05709 120 LAFLALINLNLAVFNLLPIPPLDGGRILRALLEAIRGRV 158 (180)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCChHHHHHHHHhHHHHHH
Confidence 778899999999999999999999999999999887653
No 5
>cd06163 S2P-M50_PDZ_RseP-like RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog RseP is involved in the sigmaE pathway of extracytoplasmic stress responses. Also included in this group are such homologs as Bacillus subtilis YluC, Mycobacterium tuberculosis Rv2869c S2P, and Bordetella bronchiseptica HurP. Rv2869c S2P appears to have a role in the regulation of prokaryotic lipid biosynthesis and membrane composition and YluC of Bacillus has a role in transducing membrane stress. This group includes bacterial and eukaryotic S2P/M50s homologs with either one or two PDZ domains present. PDZ domains are believed to have a regulatory role. The RseP PDZ domain is required for the inhibitory reaction that prevents cleavage of its substrate, RseA.
Probab=99.75 E-value=1.2e-17 Score=157.39 Aligned_cols=113 Identities=25% Similarity=0.237 Sum_probs=85.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeecc--ccccccc------------cccccceeEecCCCCC-------------
Q 012885 194 PLFGGLITILGVSEISTRLTAARYGVKLSP--SFLVPSN------------WTGCLGVMNNYESLLP------------- 246 (454)
Q Consensus 194 p~al~ll~iL~vHElGH~laAr~~gv~~sl--P~fIP~~------------~lGtfGAvi~~ks~~p------------- 246 (454)
-+.+++..++.+||+||+++||++|+|+.. .=|=|.. -+-++|++.++++..+
T Consensus 3 ~~~i~l~~~v~iHElGH~~~Ar~~Gv~v~~f~iGfGp~l~~~~~~~t~~~i~~iPlGGyv~~~~~~~~~~~~~~~~~~~f 82 (182)
T cd06163 3 AFILVLGILIFVHELGHFLVAKLFGVKVEEFSIGFGPKLFSFKKGETEYSISAIPLGGYVKMLGEDPEEEADPEDDPRSF 82 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeeeEeeeecCceeeeeecCCeEEEEEEEEeccEEEecCCCcccccccccchHHH
Confidence 366778889999999999999999999863 1111110 1235899998875422
Q ss_pred ---CcccceeeEEechHHhHHHHHHHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCcccccc
Q 012885 247 ---NKKALFDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVE 323 (454)
Q Consensus 247 ---~RkaLfdIaiAGPlaG~v~al~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~ 323 (454)
+|++.+-|++|||++|+++++++.+.-
T Consensus 83 ~~~~~~~ri~V~lAGP~~NlilA~i~~~~~-------------------------------------------------- 112 (182)
T cd06163 83 NSKPVWQRILIVFAGPLANFLLAIVLFAVL-------------------------------------------------- 112 (182)
T ss_pred ccCCcchhhhhhhhHHHHHHHHHHHHHHHH--------------------------------------------------
Confidence 355667799999999998887553221
Q ss_pred CCCcCccHHHHHHHHHHHHHHhhhcCCCCCChHHHHHHHhc
Q 012885 324 GVGVPCDPLAFAGLLGMVVTSLNLLPCGRLEGGRIAQAMFG 364 (454)
Q Consensus 324 ~~~v~~hPla~agw~GL~vtalNLLPvgqLDGGrI~~Al~G 364 (454)
+.+..++|+.+..|||+|+.||||||++++++.
T Consensus 113 --------~~~~~~~n~~l~~fNLlPippLDGg~il~~~~~ 145 (182)
T cd06163 113 --------LSFLALLSINLGILNLLPIPALDGGHLLFLLIE 145 (182)
T ss_pred --------HHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 123457899999999999999999999999995
No 6
>cd06159 S2P-M50_PDZ_Arch Uncharacterized Archaeal homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group appears to be limited to Archaeal S2P/M50s homologs with additional putative N-terminal transmembrane spanning regions, relative to the core protein, and either one or two PDZ domains present.
Probab=99.71 E-value=1.4e-16 Score=157.97 Aligned_cols=121 Identities=17% Similarity=0.170 Sum_probs=93.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCC---CCcccceeeEEechHHhHHHHH
Q 012885 191 NVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLL---PNKKALFDIPVARTASAYLTSL 267 (454)
Q Consensus 191 ~~lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~---p~RkaLfdIaiAGPlaG~v~al 267 (454)
..+.+.++++.++.+||+||+++||++|+++...-+. ..+-.+||+++..+.. .+|++.+.|+.|||++|+++++
T Consensus 109 ~~~~~~iaL~isv~iHElgHa~~Ar~~G~~V~~iGl~--l~~ip~Gg~v~~~~~~~~~~~~~~~~~Ia~AGP~~Nlvla~ 186 (263)
T cd06159 109 PLPYGIIALVVGVVVHELSHGILARVEGIKVKSGGLL--LLIIPPGAFVEPDEEELNKADRRIRLRIFAAGVTANFVVAL 186 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCEECchhHH--HHhhhcEEEEEecchhhccCChhheeeeeeehHHHHHHHHH
Confidence 5667778899999999999999999999998753221 0112478998887654 4577888999999999998886
Q ss_pred HHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhh
Q 012885 268 ALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNL 347 (454)
Q Consensus 268 ~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNL 347 (454)
++.+... +....|+|+.+.+|||
T Consensus 187 i~~~l~~---------------------------------------------------------l~~~~~~N~~l~lFNL 209 (263)
T cd06159 187 IAFALFF---------------------------------------------------------LYWIFWINFLLGLFNC 209 (263)
T ss_pred HHHHHHH---------------------------------------------------------HHHHHHHHHHHHHHhC
Confidence 5543210 1234689999999999
Q ss_pred cCCCCCChHHHHHHHhchhhHHH
Q 012885 348 LPCGRLEGGRIAQAMFGRNTANL 370 (454)
Q Consensus 348 LPvgqLDGGrI~~Al~G~r~~~~ 370 (454)
+|+.||||||++++++..+.++.
T Consensus 210 lP~~PLDGg~il~~ll~~~~~~~ 232 (263)
T cd06159 210 LPAIPLDGGHVFRDLLEALLRRF 232 (263)
T ss_pred CCCCCCChHHHHHHHHHHHhCCC
Confidence 99999999999999987665543
No 7
>PF02163 Peptidase_M50: Peptidase family M50; InterPro: IPR008915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This entry contains metallopeptidases belonging to MEROPS peptidase family M50 (S2P protease family, clan MM). Members of the M50 metallopeptidase family include: mammalian sterol-regulatory element binding protein (SREBP) site 2 protease, Escherichia coli protease EcfE, stage IV sporulation protein FB and various hypothetical bacterial and eukaryotic homologues. A number of proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity.; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3B4R_A 3ID4_A 3ID2_A 2ZPL_B 3ID1_A 2ZPM_A 3ID3_B 2HGA_A.
Probab=99.71 E-value=2.2e-17 Score=153.97 Aligned_cols=128 Identities=21% Similarity=0.227 Sum_probs=79.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCeecccccc--cccc---------------cc----c--------cceeEecCCCC
Q 012885 195 LFGGLITILGVSEISTRLTAARYGVKLSPSFLV--PSNW---------------TG----C--------LGVMNNYESLL 245 (454)
Q Consensus 195 ~al~ll~iL~vHElGH~laAr~~gv~~slP~fI--P~~~---------------lG----t--------fGAvi~~ks~~ 245 (454)
+.++++.++.+||+||.++||++|+|+.....- |.+. +| . .++..+.+...
T Consensus 2 ~~~~~~i~i~~HE~gH~~~a~~~G~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~G~~~~~~~~~~~~~~~~~ 81 (192)
T PF02163_consen 2 FILALLISIVLHELGHALAARLYGDKVPRFEGGFGLNIFSHRDGFTIWSIRLIPLGGYVGGFGWSNVNPFPAPISESFRK 81 (192)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTT--B--EEE------------------------------------------------
T ss_pred CcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCC
Confidence 467888999999999999999999999655211 1100 11 1 23344444445
Q ss_pred CCcccceeeEEechHHhHHHHHHHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCC
Q 012885 246 PNKKALFDIPVARTASAYLTSLALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGV 325 (454)
Q Consensus 246 p~RkaLfdIaiAGPlaG~v~al~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~ 325 (454)
.+|++.+.+++|||+++++++++........... ....
T Consensus 82 ~~~~~~~~i~laGp~~nllla~i~~~l~~~~~~~------------------------------------------~~~~ 119 (192)
T PF02163_consen 82 RSRWKRILIALAGPLANLLLAIIALLLLYLLSGS------------------------------------------VGWS 119 (192)
T ss_dssp --TTCHHHHHHHHHHHHHHHHHHHHHHTTS-------------------------------------------------E
T ss_pred CCccceEEEEEEcHHHHHHHHHHHHHHHHHHhcc------------------------------------------cccc
Confidence 6677788999999999999997665442211100 0001
Q ss_pred CcCccHHHHHHHHHHHHHHhhhcCCCCCChHHHHHHHhc
Q 012885 326 GVPCDPLAFAGLLGMVVTSLNLLPCGRLEGGRIAQAMFG 364 (454)
Q Consensus 326 ~v~~hPla~agw~GL~vtalNLLPvgqLDGGrI~~Al~G 364 (454)
....+.+.+++|+|+.++++||+|+.||||||++++++.
T Consensus 120 ~~~~~~~~~~~~~n~~l~~~NllPi~~lDG~~il~~l~~ 158 (192)
T PF02163_consen 120 SFFAEFLFFFAWLNFILALFNLLPIPPLDGGRILRALLE 158 (192)
T ss_dssp ETTEEHHHHHHHHHHHHHHHTTSSSSSSHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHhhhhcccCCcCCHHHHHHHHHH
Confidence 223467889999999999999999999999999999983
No 8
>cd06162 S2P-M50_PDZ_SREBP Sterol regulatory element-binding protein (SREBP) Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50A), regulates intramembrane proteolysis (RIP) of SREBP and is part of a signal transduction mechanism involved in sterol and lipid metabolism. In sterol-depleted mammalian cells, a two-step proteolytic process releases the N-terminal domains of SREBPs from membranes of the endoplasmic reticulum (ER). These domains translocate into the nucleus, where they activate genes of cholesterol and fatty acid biosynthesis. The first cleavage occurs at Site-1 within the ER lumen to generate an intermediate that is subsequently released from the membrane by cleavage at Site-2, which lies within the first transmembrane domain. It is the second proteolytic step that is carried out by the SREBP Site-2 protease (S2P) which is present in this CD family. This group appears to be limited to eumetazoan proteins and contains one PDZ domain.
Probab=99.63 E-value=2.3e-15 Score=150.01 Aligned_cols=122 Identities=16% Similarity=0.130 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCC---CCCcccceeeEEechHHhHHHHHHH
Q 012885 193 VPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESL---LPNKKALFDIPVARTASAYLTSLAL 269 (454)
Q Consensus 193 lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~---~p~RkaLfdIaiAGPlaG~v~al~l 269 (454)
.-+.++++.++.+||+||.++||++|+++..--+.+...+. ||+.+..+. ..++++.+-|+.|||+++++++++.
T Consensus 128 ~~~l~al~isvvvHElgHal~A~~~gi~V~~iGl~l~~~~p--Ga~ve~~~e~~~~~~~~~~l~Ia~AGp~~NlvLa~i~ 205 (277)
T cd06162 128 GYYFTALLISGVVHEMGHGVAAVREQVRVNGFGIFFFIIYP--GAYVDLFTDHLNLISPVQQLRIFCAGVWHNFVLGLVG 205 (277)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCeeceEEEeeeeccC--eeEEeecccccccCChhhhhheehhhHHHHHHHHHHH
Confidence 33456788999999999999999999999754333221122 889887432 2345556689999999999988765
Q ss_pred HHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhhcC
Q 012885 270 AVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNLLP 349 (454)
Q Consensus 270 ~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNLLP 349 (454)
.+..+ . +. +....++++.+.++||+|
T Consensus 206 ~~l~~--~--------------------~~--------------------------------l~~la~iNl~lavfNLlP 231 (277)
T cd06162 206 YLLLI--E--------------------TF--------------------------------LKYLISLSGALAVINAVP 231 (277)
T ss_pred HHHHH--H--------------------HH--------------------------------HHHHHHHHHHHHHhhcCC
Confidence 43211 0 00 334567888889999999
Q ss_pred CCCCChHHHHHHHhchhhHHH
Q 012885 350 CGRLEGGRIAQAMFGRNTANL 370 (454)
Q Consensus 350 vgqLDGGrI~~Al~G~r~~~~ 370 (454)
+.|||||||+++++.++..+.
T Consensus 232 ~~pLDGg~il~~ll~~~~~~~ 252 (277)
T cd06162 232 CFALDGQWILSTFLEATLVSV 252 (277)
T ss_pred CCCCChHHHHHHHHHHHhCCc
Confidence 999999999999987766553
No 9
>cd06158 S2P-M50_like_1 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with a minimal core protein and no PDZ domains.
Probab=99.60 E-value=4e-15 Score=139.82 Aligned_cols=136 Identities=21% Similarity=0.245 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCeecc----ccccccc---cccc---------cceeEe-----cCCCCCCccccee
Q 012885 195 LFGGLITILGVSEISTRLTAARYGVKLSP----SFLVPSN---WTGC---------LGVMNN-----YESLLPNKKALFD 253 (454)
Q Consensus 195 ~al~ll~iL~vHElGH~laAr~~gv~~sl----P~fIP~~---~lGt---------fGAvi~-----~ks~~p~RkaLfd 253 (454)
..++++.++..||+||.++|+++|.++.. -.+=|.- .+|+ .++..+ .+....+|++.+.
T Consensus 4 ~~~~~~~~i~~HE~aHa~~A~~~Gd~t~~~~Grltlnp~~hid~~g~l~~~~~~~~~~G~a~p~~~~~~~~~~~r~~~~~ 83 (181)
T cd06158 4 VIIAVLLAITLHEFAHAYVAYRLGDPTARRAGRLTLNPLAHIDPIGTIILPLLLPFLFGWAKPVPVNPRNFKNPRRGMLL 83 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcHHHHcCceecCcHHhcCcchHHHHHHHHHhCeEEecccccChHhhcccHhhHhh
Confidence 44667888999999999999999998741 1111210 0110 122322 1122235678889
Q ss_pred eEEechHHhHHHHHHHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHH
Q 012885 254 IPVARTASAYLTSLALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLA 333 (454)
Q Consensus 254 IaiAGPlaG~v~al~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla 333 (454)
|++|||++|++++++..+........ .+ . .++.+. .-+.
T Consensus 84 valAGP~~n~~la~i~~~~~~~~~~~----~~-~-------~~~~l~-----------------------------~~~~ 122 (181)
T cd06158 84 VSLAGPLSNLLLALLFALLLRLLPAF----GG-V-------VASFLF-----------------------------LMLA 122 (181)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhccc----cc-h-------hhHHHH-----------------------------HHHH
Confidence 99999999999987655432221100 00 0 001111 1133
Q ss_pred HHHHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHH
Q 012885 334 FAGLLGMVVTSLNLLPCGRLEGGRIAQAMFGRNTANLL 371 (454)
Q Consensus 334 ~agw~GL~vtalNLLPvgqLDGGrI~~Al~G~r~~~~~ 371 (454)
...++|+.+..|||+|+.|||||||+++++.++.....
T Consensus 123 ~~~~~Ni~l~lfNLlPipPLDG~~il~~~l~~~~~~~~ 160 (181)
T cd06158 123 YGVLINLVLAVFNLLPIPPLDGSKILAALLPRRLAEAY 160 (181)
T ss_pred HHHHHHHHHHHHHhCCCCCCChHHHHHHHcchhHHHHH
Confidence 45678999999999999999999999999998877543
No 10
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=99.14 E-value=1.6e-09 Score=105.35 Aligned_cols=134 Identities=30% Similarity=0.395 Sum_probs=91.0
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCCCCcccceeeEEechHHhHHH---
Q 012885 189 LANVVPLFGGLITILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLT--- 265 (454)
Q Consensus 189 ~~~~lp~al~ll~iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~p~RkaLfdIaiAGPlaG~v~--- 265 (454)
+.++....++++.-+..||+||+..+++++++.....+ +.+|++..++..+.+.+..+.+..+||+.+..+
T Consensus 41 ~~~~~~~~~~l~~rl~l~~~gh~~~~~~~~~~l~~~~i------~~~~g~~~~~~~~v~~~~~~~~~~~g~lvs~algpl 114 (230)
T COG1994 41 LGDGTAAFVGLAHRLVLHPLGHSDEAGRLGLKLLLALL------FGFGGFGFLKPVPVNPRGEFLIRLAGPLVSLALGPL 114 (230)
T ss_pred HhhhHHHHHHHhHHHhhhHhhHHHHHHHHHHHHHHHHH------HhccceeeecCcCcCHHHHhhhhccchhHHHHHHHH
Confidence 44555566667789999999999999999887654332 237779999999888888888888888765543
Q ss_pred -HHHHHHHHHHhccCCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHH
Q 012885 266 -SLALAVAAFVADGSFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTS 344 (454)
Q Consensus 266 -al~l~~~g~~~~~~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vta 344 (454)
++.+.+.+.... + ... ..+++. .-+...+-+|++++.
T Consensus 115 ~ni~la~~~~~~~-~-------~~~-----~~~~~~-----------------------------~~~~~la~~Nl~L~l 152 (230)
T COG1994 115 TNIALAVLGLLAL-S-------LFL-----YHSVLF-----------------------------AFLAALALVNLVLAL 152 (230)
T ss_pred HHHHHHHHHHHhh-c-------ccc-----cchhHH-----------------------------HHHHHHHHHHHHHHH
Confidence 122222221000 0 000 000110 112345568999999
Q ss_pred hhhcCCCCCChHHHHHHHhchhhHHH
Q 012885 345 LNLLPCGRLEGGRIAQAMFGRNTANL 370 (454)
Q Consensus 345 lNLLPvgqLDGGrI~~Al~G~r~~~~ 370 (454)
|||+|+.||||||++|+...++....
T Consensus 153 FNLiPi~PLDGg~vlr~~~~~~~~~~ 178 (230)
T COG1994 153 FNLLPIPPLDGGRVLRALLPRRYGAA 178 (230)
T ss_pred HhCCCCCCCChHHHHHHHccHHHHHH
Confidence 99999999999999999998887743
No 11
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=98.90 E-value=2e-09 Score=109.93 Aligned_cols=150 Identities=19% Similarity=0.188 Sum_probs=100.1
Q ss_pred HHHHHHHH--HHHHHHHHHHcCCeeccccccccccccccceeEe--cCCCCCC-----cccceeeEEechHHhHHHHHHH
Q 012885 199 LITILGVS--EISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNN--YESLLPN-----KKALFDIPVARTASAYLTSLAL 269 (454)
Q Consensus 199 ll~iL~vH--ElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~--~ks~~p~-----RkaLfdIaiAGPlaG~v~al~l 269 (454)
.+.+...| +..|+.+++.++.....|+++| ...|+.++.++ ..+..|+ ++.+++++.+++++. .++-..
T Consensus 181 ~~~i~~~~~~~~~~~~~~~~~~~~~~~P~~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~~-~v~~~~ 258 (375)
T COG0750 181 LLTILVIRLDGEAHAVAAEIIKSLGLTPVVIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVGL-AVEKTG 258 (375)
T ss_pred ceEEEEEeccceeeeccccceeeEeeecceec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHHH-HHHHHH
Confidence 46778889 9999999999999999999887 56788887775 6677777 999999999999983 333333
Q ss_pred HHHHHHhcc--CCCCCCCccccccccccCCchhHHHHHhhCCccCCCCCCccccccCCCcCccHHHHHHHHHHHHHHhhh
Q 012885 270 AVAAFVADG--SFNGGDNALFIRPQFFYNNPLLSFIQYVIGPYTDDLGNVLPYAVEGVGVPCDPLAFAGLLGMVVTSLNL 347 (454)
Q Consensus 270 ~~~g~~~~~--~~~~~~~~l~~~p~~~~~~pL~~~~~~~lg~~~~~lG~~lp~~~~~~~v~~hPla~agw~GL~vtalNL 347 (454)
.+....... ....++ ...+.. ..|. .. ....+. ..+....|++.+++|+++.++.+||
T Consensus 259 ~~~~~~~~~l~~~~~~~----~~~~~l-~Gpi-~i-~~~~~~-------------~~~~~~~~~l~~~~~lsi~lg~lNl 318 (375)
T COG0750 259 RLVKLTLKMLKKLITGD----LSLKNL-SGPI-GI-AKIAGA-------------AASLGLINLLFFLALLSINLGILNL 318 (375)
T ss_pred HHHHHHHHHHHHheecc----cccccc-cCce-eh-hhhhhH-------------HHhhHHHHHHHHHHHHHHHHHHHhc
Confidence 333332220 000000 000000 0111 00 001110 0002346999999999999999999
Q ss_pred cCCCCCChHHHHHHHhchhhHHH
Q 012885 348 LPCGRLEGGRIAQAMFGRNTANL 370 (454)
Q Consensus 348 LPvgqLDGGrI~~Al~G~r~~~~ 370 (454)
+|+.||||||++++++.+..++.
T Consensus 319 lP~p~LDGG~i~~~~~e~~~g~~ 341 (375)
T COG0750 319 LPIPPLDGGHLLFYLLEALRGKP 341 (375)
T ss_pred cCCCccCccHHHHHHHHHHhCCC
Confidence 99999999999999998766543
No 12
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.44 E-value=3.7e-07 Score=96.84 Aligned_cols=83 Identities=14% Similarity=0.041 Sum_probs=57.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcCCeecc--cccccc---cc----------ccccceeEecCCCCC----------
Q 012885 192 VVPLFGGLITILGVSEISTRLTAARYGVKLSP--SFLVPS---NW----------TGCLGVMNNYESLLP---------- 246 (454)
Q Consensus 192 ~lp~al~ll~iL~vHElGH~laAr~~gv~~sl--P~fIP~---~~----------lGtfGAvi~~ks~~p---------- 246 (454)
-+.|.+++..++++||+|||++||++||++.. --|=|. +. .=++|++.+|.+.-+
T Consensus 7 i~~fil~l~~li~vHElGHfl~Ar~~gv~V~~FsiGfGp~l~~~~~~~~Tey~i~~iPlGGyVk~~~e~~~~~~~~~~~~ 86 (449)
T PRK10779 7 LAAFIVALGVLITVHEFGHFWVARRCGVRVERFSIGFGKALWRRTDRQGTEYVIALIPLGGYVKMLDERVEPVAPELRHH 86 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCeeeEEEeecChhHeeEecCCCcEEEEEEEcCCCeeecCCCCCCcCChhhhhh
Confidence 34466777788899999999999999999963 112121 10 225788888764311
Q ss_pred -----CcccceeeEEechHHhHHHHHHHHHHHH
Q 012885 247 -----NKKALFDIPVARTASAYLTSLALAVAAF 274 (454)
Q Consensus 247 -----~RkaLfdIaiAGPlaG~v~al~l~~~g~ 274 (454)
+..+-+-|.+|||++|+++|++++..-+
T Consensus 87 ~f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~ 119 (449)
T PRK10779 87 AFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVF 119 (449)
T ss_pred hhccCCHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 1222245999999999999988765544
No 13
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.42 E-value=4e-07 Score=95.89 Aligned_cols=81 Identities=16% Similarity=0.036 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeecc--ccccccc------------cccccceeEecCCCC--------------
Q 012885 194 PLFGGLITILGVSEISTRLTAARYGVKLSP--SFLVPSN------------WTGCLGVMNNYESLL-------------- 245 (454)
Q Consensus 194 p~al~ll~iL~vHElGH~laAr~~gv~~sl--P~fIP~~------------~lGtfGAvi~~ks~~-------------- 245 (454)
.+.+.+..++++||+|||++||++|+++.. --|=|.+ -.-++|++.++.+.-
T Consensus 8 ~~~~~~~~~v~~HE~gH~~~a~~~g~~v~~FsiGfGp~l~~~~~~~tey~i~~~plGg~v~~~g~~~~~~~~~~~~~~~~ 87 (420)
T TIGR00054 8 ASILALAVLIFVHELGHFLAARLCGIKVERFSIGFGPKILKFKKNGTEYAISLIPLGGYVKMKGLDKEMEVKPPETDGDL 87 (420)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHcCCEEEEEEEccCchheEEecCCeEEEEEEecCcceEeeccCCcccccCCcchhhhh
Confidence 345677788999999999999999999852 1111110 133589999984110
Q ss_pred ---CCcccceeeEEechHHhHHHHHHHHHHHH
Q 012885 246 ---PNKKALFDIPVARTASAYLTSLALAVAAF 274 (454)
Q Consensus 246 ---p~RkaLfdIaiAGPlaG~v~al~l~~~g~ 274 (454)
.++.+-+-|.+|||++|++++++++...+
T Consensus 88 f~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 88 FNNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred hccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 12233346999999999999988766543
No 14
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=96.98 E-value=0.0013 Score=69.59 Aligned_cols=33 Identities=30% Similarity=0.564 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCCChHHHHHHHh
Q 012885 331 PLAFAGLLGMVVTSLNLLPCGRLEGGRIAQAMF 363 (454)
Q Consensus 331 Pla~agw~GL~vtalNLLPvgqLDGGrI~~Al~ 363 (454)
-+.+++-+++-+..+||||+..|||||++.+++
T Consensus 349 ~l~~~a~iSi~Lgi~NLLPiP~LDGG~llf~~i 381 (420)
T TIGR00054 349 LLQFGAFLSINLGIMNLLPIPALDGGQLLFLFI 381 (420)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHH
Confidence 466777888999999999999999999998875
No 15
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=96.87 E-value=0.0017 Score=69.22 Aligned_cols=34 Identities=26% Similarity=0.422 Sum_probs=30.2
Q ss_pred cHHHHHHHHHHHHHHhhhcCCCCCChHHHHHHHh
Q 012885 330 DPLAFAGLLGMVVTSLNLLPCGRLEGGRIAQAMF 363 (454)
Q Consensus 330 hPla~agw~GL~vtalNLLPvgqLDGGrI~~Al~ 363 (454)
+-+.+.+.+++-+..+||||+..|||||++..++
T Consensus 377 ~~l~~~a~iSi~Lgi~NLlPiP~LDGG~l~f~~~ 410 (449)
T PRK10779 377 YYLMFLALISVNLGIINLFPLPVLDGGHLLFLAI 410 (449)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCccCchHHHHHHH
Confidence 4577788899999999999999999999998764
No 16
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=96.67 E-value=0.0028 Score=60.73 Aligned_cols=65 Identities=22% Similarity=0.145 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHcCCeeccccccccccccccceeEecCCCCCCcccceeeEEechHHhHHHHHHHHHHH
Q 012885 202 ILGVSEISTRLTAARYGVKLSPSFLVPSNWTGCLGVMNNYESLLPNKKALFDIPVARTASAYLTSLALAVAA 273 (454)
Q Consensus 202 iL~vHElGH~laAr~~gv~~slP~fIP~~~lGtfGAvi~~ks~~p~RkaLfdIaiAGPlaG~v~al~l~~~g 273 (454)
...+||+||.++|.-.|-|++....-|. -++.+..+. +++-..+-++.|||++..+.+..+...+
T Consensus 24 ~t~~HE~gHal~a~l~G~~v~~i~l~~~-----~~G~~~~~~--~~~~~~~~i~~aGyl~~~l~g~~~~~~~ 88 (200)
T PF13398_consen 24 VTFVHELGHALAALLTGGRVKGIVLFPD-----GSGVTVSSG--PSGIGRFLIALAGYLGPALFGLLLLWLL 88 (200)
T ss_pred HHHHHHHHHHHHHHHhCCCcceEEEEeC-----CCceEEEec--CCCcchhHHhcccchHHHHHHHHHHHHH
Confidence 3689999999999999999987665553 566777777 5555566799999999888776655544
No 17
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=94.95 E-value=0.074 Score=54.53 Aligned_cols=82 Identities=20% Similarity=0.128 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCeeccc--ccccc-c------------cccccceeEecCCCCCC---------c
Q 012885 193 VPLFGGLITILGVSEISTRLTAARYGVKLSPS--FLVPS-N------------WTGCLGVMNNYESLLPN---------K 248 (454)
Q Consensus 193 lp~al~ll~iL~vHElGH~laAr~~gv~~slP--~fIP~-~------------~lGtfGAvi~~ks~~p~---------R 248 (454)
+.+.+.+...+.+||+||+|.||++|+++... -|-|. + ..-++|+..++...... +
T Consensus 6 i~~i~~~~~lv~~he~gh~~~a~~~~~~v~~f~ig~g~~l~~~~~~~~~~~~i~~~plggyv~~~~~~~~~~~~~~~~~~ 85 (375)
T COG0750 6 IAFIIALGVLVFVHELGHFWVARRCGVKVERFSIGFGPKLFSRKDKGGTEYVLSAIPLGGYVKMLGEDAEEVVLKGPEPR 85 (375)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHhcCceeEEEEeccCcceEEEEcCCceEEEEeecCccceEEEecCccccccccccCcc
Confidence 44666777888999999999999999999632 11120 0 01234554443332211 0
Q ss_pred cc---------ceeeEEechHHhHHHHHHHHHHHH
Q 012885 249 KA---------LFDIPVARTASAYLTSLALAVAAF 274 (454)
Q Consensus 249 ka---------LfdIaiAGPlaG~v~al~l~~~g~ 274 (454)
.+ -+-+-.|||+.+++.+..+.+...
T Consensus 86 ~~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 86 PRAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred hhhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 00 134789999999987776655443
No 18
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=92.41 E-value=0.13 Score=54.48 Aligned_cols=76 Identities=22% Similarity=0.326 Sum_probs=49.6
Q ss_pred hhHHHH-HHHHHHHHHHHHHHHHHHHHcCCeecc-ccccccccccccceeEecCC----CCCCcccceeeEEechHHhHH
Q 012885 191 NVVPLF-GGLITILGVSEISTRLTAARYGVKLSP-SFLVPSNWTGCLGVMNNYES----LLPNKKALFDIPVARTASAYL 264 (454)
Q Consensus 191 ~~lp~a-l~ll~iL~vHElGH~laAr~~gv~~sl-P~fIP~~~lGtfGAvi~~ks----~~p~RkaLfdIaiAGPlaG~v 264 (454)
.+++|. ..++....+||+||.|||.+.||++.. =.||-.+ .=||++.+.. ..|+-++| .|--||-.=+|+
T Consensus 121 ~~I~yf~t~lvi~~vvHElGHalAA~segV~vngfgIfi~ai---yPgafvdl~~dhLqsl~~fr~L-rIfcAGIWHNfv 196 (484)
T KOG2921|consen 121 SGIAYFLTSLVITVVVHELGHALAAASEGVQVNGFGIFIAAI---YPGAFVDLDNDHLQSLPSFRAL-RIFCAGIWHNFV 196 (484)
T ss_pred ccchhhhhhHHHHHHHHHhhHHHHHHhcCceeeeeEEEEEEE---cCchhhhhhhhHHhhcchHHHH-HHHhhhHHHHHH
Confidence 445554 456677899999999999999999873 2222111 1255554332 13444454 688899999988
Q ss_pred HHHHHH
Q 012885 265 TSLALA 270 (454)
Q Consensus 265 ~al~l~ 270 (454)
.+++..
T Consensus 197 fallc~ 202 (484)
T KOG2921|consen 197 FALLCV 202 (484)
T ss_pred HHHHHH
Confidence 887643
No 19
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=59.46 E-value=4.5 Score=37.42 Aligned_cols=13 Identities=15% Similarity=-0.023 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHH
Q 012885 201 TILGVSEISTRLT 213 (454)
Q Consensus 201 ~iL~vHElGH~la 213 (454)
+-.++||+||++=
T Consensus 70 g~TltHEvGH~LG 82 (154)
T PF05572_consen 70 GKTLTHEVGHWLG 82 (154)
T ss_dssp SHHHHHHHHHHTT
T ss_pred ccchhhhhhhhhc
Confidence 3568999999974
No 20
>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=54.15 E-value=7.6 Score=34.45 Aligned_cols=18 Identities=17% Similarity=0.152 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 012885 202 ILGVSEISTRLTAARYGV 219 (454)
Q Consensus 202 iL~vHElGH~laAr~~gv 219 (454)
..+.||+||.+=-..-..
T Consensus 107 ~v~~HEiGHaLGL~H~~~ 124 (154)
T PF00413_consen 107 SVAIHEIGHALGLDHSND 124 (154)
T ss_dssp HHHHHHHHHHTTBESSSS
T ss_pred hhhhhccccccCcCcCCC
Confidence 468999999975544333
No 21
>cd04279 ZnMc_MMP_like_1 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=51.12 E-value=9.3 Score=34.58 Aligned_cols=26 Identities=8% Similarity=0.152 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHcCCee-cccc
Q 012885 200 ITILGVSEISTRLTAARYGVKL-SPSF 225 (454)
Q Consensus 200 l~iL~vHElGH~laAr~~gv~~-slP~ 225 (454)
+....+||+||.+=.+...-+- +..|
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~~siM~ 130 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRPEDAMY 130 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCccceee
Confidence 3456899999999888887765 4433
No 22
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=50.85 E-value=12 Score=31.11 Aligned_cols=17 Identities=12% Similarity=0.214 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHcC
Q 012885 202 ILGVSEISTRLTAARYG 218 (454)
Q Consensus 202 iL~vHElGH~laAr~~g 218 (454)
-+++||++|.+.....+
T Consensus 27 ~~l~HE~~H~~~~~~~~ 43 (128)
T PF13485_consen 27 RVLAHELAHQWFGNYFG 43 (128)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 56899999999998866
No 23
>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=49.18 E-value=11 Score=35.33 Aligned_cols=19 Identities=16% Similarity=-0.012 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHcCCee
Q 012885 201 TILGVSEISTRLTAARYGVKL 221 (454)
Q Consensus 201 ~iL~vHElGH~laAr~~gv~~ 221 (454)
..+++||+||+. .+|..+.
T Consensus 90 ~aVlaHElgH~~--~~h~~~~ 108 (226)
T PF01435_consen 90 AAVLAHELGHIK--HRHILKS 108 (226)
T ss_dssp HHHHHHHHHHHH--TTHCCCC
T ss_pred HHHHHHHHHHHH--cCCcchH
Confidence 366899999986 4555443
No 24
>PF06114 DUF955: Domain of unknown function (DUF955); InterPro: IPR010359 This is a family of bacterial and viral proteins with undetermined function. A conserved H-E-X-X-H motif is suggestive of a catalytic active site and shows similarity to IPR001915 from INTERPRO.; PDB: 3DTE_A 3DTK_A 3DTI_A.
Probab=46.55 E-value=11 Score=31.05 Aligned_cols=17 Identities=12% Similarity=-0.099 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHcCC
Q 012885 203 LGVSEISTRLTAARYGV 219 (454)
Q Consensus 203 L~vHElGH~laAr~~gv 219 (454)
.++||+||++.-+....
T Consensus 45 ~laHELgH~~~~~~~~~ 61 (122)
T PF06114_consen 45 TLAHELGHILLHHGDET 61 (122)
T ss_dssp HHHHHHHHHHHHH-HHH
T ss_pred HHHHHHHHHHhhhcccc
Confidence 47899999998776543
No 25
>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=43.93 E-value=21 Score=32.05 Aligned_cols=23 Identities=13% Similarity=0.003 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Q 012885 196 FGGLITILGVSEISTRLTAARYG 218 (454)
Q Consensus 196 al~ll~iL~vHElGH~laAr~~g 218 (454)
...-..-..+||+||.+=-+.-.
T Consensus 90 ~~~~~~~~~~HEiGHaLGL~H~~ 112 (165)
T cd04268 90 SGARLRNTAEHELGHALGLRHNF 112 (165)
T ss_pred HHHHHHHHHHHHHHHHhcccccC
Confidence 34455677899999997554433
No 26
>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=38.56 E-value=15 Score=34.15 Aligned_cols=21 Identities=29% Similarity=0.105 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCe
Q 012885 200 ITILGVSEISTRLTAARYGVK 220 (454)
Q Consensus 200 l~iL~vHElGH~laAr~~gv~ 220 (454)
-.+.++||+||-+=|..=+-.
T Consensus 142 ~~~~~AHEiGH~lGa~HD~~~ 162 (196)
T PF13688_consen 142 GAITFAHEIGHNLGAPHDGDY 162 (196)
T ss_dssp HHHHHHHHHHHHTT-----SS
T ss_pred eehhhHHhHHHhcCCCCCCCC
Confidence 346789999999998875543
No 27
>PF09585 Lin0512_fam: Conserved hypothetical protein (Lin0512_fam); InterPro: IPR011719 This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N terminus.
Probab=38.50 E-value=14 Score=33.09 Aligned_cols=60 Identities=20% Similarity=0.246 Sum_probs=44.3
Q ss_pred CChhhHhhhhhhhchhHHhhhhhhHhhhhccHhhHHhhhcccCcceEEEeeeeeeCCeEEEEec
Q 012885 30 DNPIMRLFNRLVRDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATDVRRFGDGGIFIGN 93 (454)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dl~~lk~~Fg~~tF~~t~~~~~~~~vi~~Gn 93 (454)
.|.+-+++..+-. +.++|+-..+-+....+.-|.+++|++|||.+ -+++-..+|.++.|.
T Consensus 32 ~nslp~l~~~~~~-~~~~M~v~V~igVp~pe~vD~e~v~~~~PyG~---~~v~vv~GGl~~sGi 91 (113)
T PF09585_consen 32 HNSLPGLFEILGL-DLDDMKVEVKIGVPRPEKVDIEAVKAVFPYGQ---VTVEVVKGGLITSGI 91 (113)
T ss_pred hcchHHHHHHcCC-ChHHEEEEEEEeCCCccccCHHHHHHhCCCCC---ceEEEEcCCccccCc
Confidence 4666667665555 67788888877777668889999999999998 455555666666653
No 28
>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=38.28 E-value=14 Score=33.47 Aligned_cols=21 Identities=14% Similarity=0.096 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCe
Q 012885 200 ITILGVSEISTRLTAARYGVK 220 (454)
Q Consensus 200 l~iL~vHElGH~laAr~~gv~ 220 (454)
+...+.||+||.+=-+.-..+
T Consensus 107 ~~~~~~HEiGHaLGL~H~~~~ 127 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSSDP 127 (157)
T ss_pred HHHHHHHHhccccccCCCCCC
Confidence 345689999999876544433
No 29
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=37.53 E-value=19 Score=32.31 Aligned_cols=18 Identities=17% Similarity=0.206 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHcCCee
Q 012885 204 GVSEISTRLTAARYGVKL 221 (454)
Q Consensus 204 ~vHElGH~laAr~~gv~~ 221 (454)
+.||+.|.|.-|.||.-.
T Consensus 83 L~HEL~H~WQ~RsYG~i~ 100 (141)
T PHA02456 83 LAHELNHAWQFRTYGLVQ 100 (141)
T ss_pred HHHHHHHHHhhhccceee
Confidence 689999999999999753
No 30
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=37.48 E-value=17 Score=31.21 Aligned_cols=14 Identities=21% Similarity=-0.021 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHH
Q 012885 202 ILGVSEISTRLTAA 215 (454)
Q Consensus 202 iL~vHElGH~laAr 215 (454)
...+||+||-+=++
T Consensus 109 ~~~~HEiGH~lGl~ 122 (124)
T PF13582_consen 109 DTFAHEIGHNLGLN 122 (124)
T ss_dssp THHHHHHHHHTT--
T ss_pred eEeeehhhHhcCCC
Confidence 56899999986443
No 31
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.39 E-value=35 Score=27.51 Aligned_cols=34 Identities=21% Similarity=0.151 Sum_probs=23.6
Q ss_pred CcceEEEeeeeeeCCeEEEEecCCCcHHHHHHHHHHHHHHhcCCc
Q 012885 72 GFDTFFATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRD 116 (454)
Q Consensus 72 g~~tF~~t~~~~~~~~vi~~GnlR~~~e~v~~~l~~~l~~~~G~~ 116 (454)
=.|+||+++- .|+ ..+++-.+++++.|++..|+.
T Consensus 41 v~D~F~V~d~---------~~~--~~~~~~~~~l~~~L~~~L~~~ 74 (76)
T cd04927 41 VLDLFFITDA---------REL--LHTKKRREETYDYLRAVLGDS 74 (76)
T ss_pred EEEEEEEeCC---------CCC--CCCHHHHHHHHHHHHHHHchh
Confidence 4589999764 223 244567788999999888863
No 32
>PF02031 Peptidase_M7: Streptomyces extracellular neutral proteinase (M7) family; InterPro: IPR000013 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M7 (snapalysin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. With a molecular weight of around 16kDa, Streptomyces extracellular neutral protease is one of the smallest known proteases []; it is capable of hydrolysing milk proteins []. The enzyme is synthesised as a proenzyme with a signal peptide, a propeptide and an active domain that contains the conserved HEXXH motif characteristic of metalloproteases. Although family M7 shows active site sequence similarity to other members, it differs in one major respect: the third zinc ligand appears to be an aspartate residue rather than the usual histidine.; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 1C7K_A 1KUH_A.
Probab=37.17 E-value=21 Score=32.75 Aligned_cols=10 Identities=20% Similarity=0.378 Sum_probs=8.7
Q ss_pred HHHHHHHHHH
Q 012885 203 LGVSEISTRL 212 (454)
Q Consensus 203 L~vHElGH~l 212 (454)
+.+||+||.+
T Consensus 80 IaaHE~GHiL 89 (132)
T PF02031_consen 80 IAAHELGHIL 89 (132)
T ss_dssp HHHHHHHHHH
T ss_pred eeeehhcccc
Confidence 5799999986
No 33
>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=37.02 E-value=18 Score=33.80 Aligned_cols=18 Identities=17% Similarity=-0.129 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 012885 202 ILGVSEISTRLTAARYGV 219 (454)
Q Consensus 202 iL~vHElGH~laAr~~gv 219 (454)
-.++||+||-+=|..-+-
T Consensus 113 ~~~aHElGH~lGa~Hd~~ 130 (173)
T PF13574_consen 113 DTFAHELGHQLGAPHDFD 130 (173)
T ss_dssp HHHHHHHHHHHT---SSS
T ss_pred eeehhhhHhhcCCCCCCC
Confidence 458999999999887655
No 34
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=35.35 E-value=19 Score=35.30 Aligned_cols=15 Identities=13% Similarity=0.091 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHcC
Q 012885 204 GVSEISTRLTAARYG 218 (454)
Q Consensus 204 ~vHElGH~laAr~~g 218 (454)
++||+||++.=++-.
T Consensus 76 lAHELGH~llH~~~~ 90 (213)
T COG2856 76 LAHELGHALLHTDLN 90 (213)
T ss_pred HHHHHhHHHhccccc
Confidence 689999999755543
No 35
>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=35.15 E-value=19 Score=32.21 Aligned_cols=20 Identities=10% Similarity=-0.227 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHcC
Q 012885 199 LITILGVSEISTRLTAARYG 218 (454)
Q Consensus 199 ll~iL~vHElGH~laAr~~g 218 (454)
.....++||+||.+=.+...
T Consensus 95 ~~~~~~~HElGH~LGl~H~~ 114 (167)
T cd00203 95 EGAQTIAHELGHALGFYHDH 114 (167)
T ss_pred cchhhHHHHHHHHhCCCccC
Confidence 44567899999998666443
No 36
>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=34.19 E-value=22 Score=33.09 Aligned_cols=19 Identities=21% Similarity=0.060 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHcCC
Q 012885 201 TILGVSEISTRLTAARYGV 219 (454)
Q Consensus 201 ~iL~vHElGH~laAr~~gv 219 (454)
.-.++||+||.+=-+.-+-
T Consensus 114 ~~t~~HEiGHaLGL~H~~~ 132 (186)
T cd04277 114 YQTIIHEIGHALGLEHPGD 132 (186)
T ss_pred HHHHHHHHHHHhcCCCCCc
Confidence 3568999999986654433
No 37
>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=34.09 E-value=21 Score=31.48 Aligned_cols=13 Identities=15% Similarity=0.197 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHH
Q 012885 203 LGVSEISTRLTAA 215 (454)
Q Consensus 203 L~vHElGH~laAr 215 (454)
.++||+||.+-.+
T Consensus 89 ~~~HEigHaLGl~ 101 (140)
T smart00235 89 VAAHELGHALGLY 101 (140)
T ss_pred cHHHHHHHHhcCC
Confidence 6899999998433
No 38
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=33.94 E-value=60 Score=33.41 Aligned_cols=66 Identities=20% Similarity=0.301 Sum_probs=44.7
Q ss_pred hccHhhHHhhhcccCc-ceEEEeeeeeeCCeEEEEecCCC--cHHHHHHHHHHHHHHhcCCceEEEEEeecC
Q 012885 58 SFKALDLNKLRGCFGF-DTFFATDVRRFGDGGIFIGNLRK--PIEEVIPKLEKKLSEAAGRDVVVWFMEEKT 126 (454)
Q Consensus 58 ~~~~~dl~~lk~~Fg~-~tF~~t~~~~~~~~vi~~GnlR~--~~e~v~~~l~~~l~~~~G~~~~l~~~e~~~ 126 (454)
++=.+.++++|.++|- .+||++|+..--+|.-+-++.-. +.++.++++...|++ .|.++.+ .|-.+
T Consensus 215 ~f~~~q~e~vqsa~g~~k~~~v~EtGWPS~G~~~G~a~pS~anq~~~~~~i~~~~~~-~G~d~fv--feAFd 283 (305)
T COG5309 215 TFLLEQLERVQSACGTKKTVWVTETGWPSDGRTYGSAVPSVANQKIAVQEILNALRS-CGYDVFV--FEAFD 283 (305)
T ss_pred HHHHHHHHHHHHhcCCCccEEEeeccCCCCCCccCCcCCChhHHHHHHHHHHhhhhc-cCccEEE--eeecc
Confidence 3334557788888887 99999999766555555444333 345678888888877 5866555 46554
No 39
>PF14891 Peptidase_M91: Effector protein
Probab=33.78 E-value=27 Score=32.68 Aligned_cols=16 Identities=6% Similarity=-0.037 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 012885 201 TILGVSEISTRLTAAR 216 (454)
Q Consensus 201 ~iL~vHElGH~laAr~ 216 (454)
++.+.|||+|.+-...
T Consensus 104 ~v~L~HEL~HA~~~~~ 119 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMN 119 (174)
T ss_pred HHHHHHHHHHHHHHHC
Confidence 3669999999987653
No 40
>PRK03001 M48 family peptidase; Provisional
Probab=32.88 E-value=27 Score=35.14 Aligned_cols=12 Identities=8% Similarity=-0.092 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 012885 201 TILGVSEISTRL 212 (454)
Q Consensus 201 ~iL~vHElGH~l 212 (454)
..+++||+||+-
T Consensus 125 ~aVlAHElgHi~ 136 (283)
T PRK03001 125 RGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHh
Confidence 356899999974
No 41
>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=32.64 E-value=26 Score=32.77 Aligned_cols=20 Identities=10% Similarity=0.059 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 012885 200 ITILGVSEISTRLTAARYGV 219 (454)
Q Consensus 200 l~iL~vHElGH~laAr~~gv 219 (454)
.+.+.+||+||-+=+..-+-
T Consensus 131 ~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 131 FAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHhhcCCCcCCC
Confidence 45789999999987775443
No 42
>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=31.78 E-value=29 Score=34.29 Aligned_cols=18 Identities=6% Similarity=0.128 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012885 198 GLITILGVSEISTRLTAA 215 (454)
Q Consensus 198 ~ll~iL~vHElGH~laAr 215 (454)
...++.++||+||-+=+.
T Consensus 165 ~~~a~t~AHElGHnlGm~ 182 (244)
T cd04270 165 KESDLVTAHELGHNFGSP 182 (244)
T ss_pred hHHHHHHHHHHHHhcCCC
Confidence 446678999999988775
No 43
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=31.66 E-value=21 Score=32.46 Aligned_cols=15 Identities=20% Similarity=0.279 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHH
Q 012885 198 GLITILGVSEISTRL 212 (454)
Q Consensus 198 ~ll~iL~vHElGH~l 212 (454)
-.+...++||+||++
T Consensus 107 d~vthvliHEIgHhF 121 (136)
T COG3824 107 DQVTHVLIHEIGHHF 121 (136)
T ss_pred hHhhhhhhhhhhhhc
Confidence 467889999999986
No 44
>PF12315 DUF3633: Protein of unknown function (DUF3633); InterPro: IPR022087 This domain family is found in bacteria and eukaryotes, and is approximately 210 amino acids in length. The family is found in association with PF00412 from PFAM.
Probab=31.46 E-value=32 Score=33.89 Aligned_cols=28 Identities=14% Similarity=0.027 Sum_probs=20.3
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCC
Q 012885 189 LANVVPLFGGLITILGVSEISTRLTAARYGV 219 (454)
Q Consensus 189 ~~~~lp~al~ll~iL~vHElGH~laAr~~gv 219 (454)
+..|+|- .+.+.+++||++|.|. |..|.
T Consensus 84 vl~GLPr--ll~gsiLAHE~mHa~L-rl~g~ 111 (212)
T PF12315_consen 84 VLYGLPR--LLTGSILAHELMHAWL-RLNGF 111 (212)
T ss_pred EECCCCH--HHHhhHHHHHHHHHHh-cccCC
Confidence 4556773 3567889999999998 44554
No 45
>PRK03982 heat shock protein HtpX; Provisional
Probab=31.20 E-value=30 Score=34.90 Aligned_cols=11 Identities=9% Similarity=-0.124 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 012885 202 ILGVSEISTRL 212 (454)
Q Consensus 202 iL~vHElGH~l 212 (454)
.+++||+||+-
T Consensus 127 AVlAHElgHi~ 137 (288)
T PRK03982 127 GVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHH
Confidence 56899999973
No 46
>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=31.14 E-value=22 Score=33.12 Aligned_cols=19 Identities=21% Similarity=0.207 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHcCC
Q 012885 201 TILGVSEISTRLTAARYGV 219 (454)
Q Consensus 201 ~iL~vHElGH~laAr~~gv 219 (454)
+..++||+||.+=++.-+-
T Consensus 134 ~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 134 ALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred hhhhhhhHHhhcCCcCCCC
Confidence 4679999999988776554
No 47
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=31.01 E-value=28 Score=28.75 Aligned_cols=13 Identities=15% Similarity=0.143 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHH
Q 012885 202 ILGVSEISTRLTA 214 (454)
Q Consensus 202 iL~vHElGH~laA 214 (454)
-++.||++|.+.=
T Consensus 63 ~llaHEl~Hv~Qq 75 (79)
T PF13699_consen 63 ALLAHELAHVVQQ 75 (79)
T ss_pred hhHhHHHHHHHhh
Confidence 4689999998764
No 48
>PF01434 Peptidase_M41: Peptidase family M41 This is family M41 in the peptidase classification. ; InterPro: IPR000642 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M41 (FtsH endopeptidase family, clan MA(E)). The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The peptidase M41 family belong to a larger family of zinc metalloproteases. This family includes the cell division protein FtsH, and the yeast mitochondrial respiratory chain complexes assembly protein, which is a putative ATP-dependent protease required for assembly of the mitochondrial respiratory chain and ATPase complexes. FtsH is an integral membrane protein, which seems to act as an ATP-dependent zinc metallopeptidase that binds one zinc ion.; GO: 0004222 metalloendopeptidase activity, 0005524 ATP binding, 0006508 proteolysis; PDB: 4EIW_C 2DHR_E 1IY1_A 1IY2_A 1IY0_A 1IXZ_A 2CE7_F 2CEA_F 3KDS_E 2QZ4_A ....
Probab=29.74 E-value=44 Score=32.21 Aligned_cols=18 Identities=11% Similarity=0.001 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHcC
Q 012885 201 TILGVSEISTRLTAARYG 218 (454)
Q Consensus 201 ~iL~vHElGH~laAr~~g 218 (454)
-.+.+||.||.++|...+
T Consensus 29 ~~~A~HEAGhAvva~~l~ 46 (213)
T PF01434_consen 29 RRIAYHEAGHAVVAYLLP 46 (213)
T ss_dssp HHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 367899999999999876
No 49
>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=29.17 E-value=27 Score=34.33 Aligned_cols=24 Identities=13% Similarity=-0.025 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Q 012885 195 LFGGLITILGVSEISTRLTAARYG 218 (454)
Q Consensus 195 ~al~ll~iL~vHElGH~laAr~~g 218 (454)
+......-+++||+||.+=-|.-.
T Consensus 128 ~~~~~~~hvi~HEiGH~IGfRHTD 151 (211)
T PF12388_consen 128 YSVNVIEHVITHEIGHCIGFRHTD 151 (211)
T ss_pred CchhHHHHHHHHHhhhhccccccC
Confidence 445566678999999998776644
No 50
>PRK04897 heat shock protein HtpX; Provisional
Probab=28.82 E-value=35 Score=34.80 Aligned_cols=11 Identities=27% Similarity=-0.173 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 012885 202 ILGVSEISTRL 212 (454)
Q Consensus 202 iL~vHElGH~l 212 (454)
.+++||+||+-
T Consensus 139 aVlAHElgHi~ 149 (298)
T PRK04897 139 GVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHh
Confidence 56899999963
No 51
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=28.00 E-value=18 Score=31.12 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCee
Q 012885 200 ITILGVSEISTRLTAARYGVKL 221 (454)
Q Consensus 200 l~iL~vHElGH~laAr~~gv~~ 221 (454)
+..+.+||+-|.+..+.+|-+.
T Consensus 4 ~~~~~~HEliH~l~~~~~~~~~ 25 (111)
T PF11667_consen 4 IVLIPLHELIHGLFFKLFGKKP 25 (111)
T ss_pred EeeHHHHHHHHHHHHHHhCCCC
Confidence 4456899999999999999854
No 52
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=27.01 E-value=64 Score=31.88 Aligned_cols=23 Identities=13% Similarity=0.017 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCC
Q 012885 196 FGGLITILGVSEISTRLTAARYGV 219 (454)
Q Consensus 196 al~ll~iL~vHElGH~laAr~~gv 219 (454)
+++-+.-.+.||+||.+...+ ++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~~-~l 110 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDDL-DL 110 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHh-cC
Confidence 566666778999999998753 44
No 53
>COG0612 PqqL Predicted Zn-dependent peptidases [General function prediction only]
Probab=26.82 E-value=65 Score=33.85 Aligned_cols=95 Identities=22% Similarity=0.252 Sum_probs=57.0
Q ss_pred CChhH-HHHHHhhhhhhhhHhhhhcccCCCChhhHhhhhhhhchhH-----HhhhhhhHhhhhccHhhHHhhhcccCcce
Q 012885 2 GNPSI-EAAIKLEKKRADTKLKELDRESTDNPIMRLFNRLVRDSLT-----REKERLEKAEESFKALDLNKLRGCFGFDT 75 (454)
Q Consensus 2 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~e~~~~~~dl~~lk~~Fg~~t 75 (454)
-||++ |+.++.||+..-+.++..+. ||-.-.+..+...-.. +--.+-.+.-++++++|++ .
T Consensus 122 ~~p~f~~~~~e~Ek~vil~ei~~~~d----~p~~~~~~~l~~~~~~~~p~~~~~~G~~e~I~~it~~dl~---------~ 188 (438)
T COG0612 122 LNPTFDEEEVEREKGVILEEIRMRQD----DPDDLAFERLLEALYGNHPLGRPILGTEESIEAITREDLK---------D 188 (438)
T ss_pred hCCCCCHHHHHHHHHHHHHHHHhhcc----CchHHHHHHHHHHhhccCCCCCCCCCCHHHHHhCCHHHHH---------H
Confidence 35664 56788888877777665544 3444444444433333 3344556777778888777 3
Q ss_pred EEEeeeeeeCCeEEEEecCCCcHHHHHHHHHHHHHH
Q 012885 76 FFATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSE 111 (454)
Q Consensus 76 F~~t~~~~~~~~vi~~GnlR~~~e~v~~~l~~~l~~ 111 (454)
||-.--.+..=.+..-|+ -+++++.+.+++.+..
T Consensus 189 f~~k~Y~p~n~~l~vvGd--i~~~~v~~~~~~~f~~ 222 (438)
T COG0612 189 FYQKWYQPDNMVLVVVGD--VDAEEVVELIEKYFGD 222 (438)
T ss_pred HHHHhcCcCceEEEEecC--CCHHHHHHHHHHHHcc
Confidence 433322233335666787 5788888888887644
No 54
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=26.73 E-value=33 Score=32.99 Aligned_cols=16 Identities=19% Similarity=-0.132 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHcCC
Q 012885 204 GVSEISTRLTAARYGV 219 (454)
Q Consensus 204 ~vHElGH~laAr~~gv 219 (454)
++||+||.+=|+.-+-
T Consensus 141 ~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 141 FAHEIGHNLGLRHDFD 156 (206)
T ss_pred HHHHHHHHhcCCCCcc
Confidence 7899999998876554
No 55
>PF09471 Peptidase_M64: IgA Peptidase M64; InterPro: IPR019026 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This is a family of highly selective metallo-endopeptidases belonging to the MEROPS peptidase family M64 (IgA peptidase, clan MA). The primary structure of the Clostridium ramosum IgA peptidase shows no significant overall similarity to any other known metallo-endopeptidase []. ; PDB: 3P1V_A 4DF9_D.
Probab=26.07 E-value=29 Score=35.09 Aligned_cols=15 Identities=13% Similarity=0.153 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHH
Q 012885 200 ITILGVSEISTRLTA 214 (454)
Q Consensus 200 l~iL~vHElGH~laA 214 (454)
..-+++||+||.++-
T Consensus 216 ~~~v~vHE~GHsf~~ 230 (264)
T PF09471_consen 216 FKQVVVHEFGHSFGG 230 (264)
T ss_dssp HHHHHHHHHHHHTT-
T ss_pred ccceeeeeccccccc
Confidence 346789999997653
No 56
>PRK01345 heat shock protein HtpX; Provisional
Probab=26.04 E-value=42 Score=34.67 Aligned_cols=11 Identities=9% Similarity=-0.094 Sum_probs=9.4
Q ss_pred HHHHHHHHHHH
Q 012885 202 ILGVSEISTRL 212 (454)
Q Consensus 202 iL~vHElGH~l 212 (454)
.+++||+||.-
T Consensus 126 aVlAHElgHi~ 136 (317)
T PRK01345 126 GVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHH
Confidence 56899999985
No 57
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=25.75 E-value=43 Score=33.04 Aligned_cols=17 Identities=12% Similarity=-0.003 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHcCCe
Q 012885 202 ILGVSEISTRLTAARYGVK 220 (454)
Q Consensus 202 iL~vHElGH~laAr~~gv~ 220 (454)
.++.||+||.. ++|.+.
T Consensus 159 aVlaHElgHi~--~rd~~~ 175 (302)
T COG0501 159 AVLAHELGHIK--NRHTLV 175 (302)
T ss_pred HHHHHHHHHHh--cccHHH
Confidence 45899999963 444443
No 58
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=25.50 E-value=42 Score=30.39 Aligned_cols=17 Identities=6% Similarity=-0.148 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 012885 200 ITILGVSEISTRLTAAR 216 (454)
Q Consensus 200 l~iL~vHElGH~laAr~ 216 (454)
+--.+.|||.|+++-..
T Consensus 59 l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 59 LRETLLHELCHAALYLF 75 (146)
T ss_pred HHhhHHHHHHHHHHHHh
Confidence 33468999999999865
No 59
>PRK02391 heat shock protein HtpX; Provisional
Probab=25.34 E-value=44 Score=34.17 Aligned_cols=10 Identities=20% Similarity=0.096 Sum_probs=8.5
Q ss_pred HHHHHHHHHH
Q 012885 202 ILGVSEISTR 211 (454)
Q Consensus 202 iL~vHElGH~ 211 (454)
.+++||+||+
T Consensus 135 aVlaHElgHi 144 (296)
T PRK02391 135 AVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHH
Confidence 5689999995
No 60
>cd04327 ZnMc_MMP_like_3 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=25.26 E-value=39 Score=32.05 Aligned_cols=11 Identities=18% Similarity=0.217 Sum_probs=9.0
Q ss_pred HHHHHHHHHHH
Q 012885 203 LGVSEISTRLT 213 (454)
Q Consensus 203 L~vHElGH~la 213 (454)
..+||+||.+=
T Consensus 95 ~i~HElgHaLG 105 (198)
T cd04327 95 VVLHEFGHALG 105 (198)
T ss_pred HHHHHHHHHhc
Confidence 57899999864
No 61
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=25.26 E-value=62 Score=30.44 Aligned_cols=47 Identities=15% Similarity=0.190 Sum_probs=31.8
Q ss_pred HHHHhhhhhhhhHhhhhcccCCCChhhHhhhhhhhchhH-HhhhhhhH
Q 012885 8 AAIKLEKKRADTKLKELDRESTDNPIMRLFNRLVRDSLT-REKERLEK 54 (454)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 54 (454)
+..|-+++|..++.+++.+|.+-||..+..+-+.+=++= .....+..
T Consensus 43 ~k~k~~~~~~~~e~~~l~k~~~~~p~~~~lp~liQ~Pif~~~~~~lr~ 90 (181)
T TIGR03592 43 EKYKDDPQKLQQEMMKLYKEEGVNPLGGCLPLLIQMPIFIALYQVLRR 90 (181)
T ss_pred HHHHhhHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345556667778889999999999998888776554443 24444443
No 62
>PRK03072 heat shock protein HtpX; Provisional
Probab=24.70 E-value=46 Score=33.79 Aligned_cols=10 Identities=20% Similarity=-0.140 Sum_probs=8.6
Q ss_pred HHHHHHHHHH
Q 012885 202 ILGVSEISTR 211 (454)
Q Consensus 202 iL~vHElGH~ 211 (454)
.+++||+||.
T Consensus 129 aVlAHElgHi 138 (288)
T PRK03072 129 GVLGHELSHV 138 (288)
T ss_pred HHHHHHHHHH
Confidence 5689999996
No 63
>PRK05457 heat shock protein HtpX; Provisional
Probab=24.57 E-value=46 Score=33.75 Aligned_cols=10 Identities=30% Similarity=0.122 Sum_probs=8.5
Q ss_pred HHHHHHHHHH
Q 012885 202 ILGVSEISTR 211 (454)
Q Consensus 202 iL~vHElGH~ 211 (454)
.+++||+||.
T Consensus 136 aVlAHElgHi 145 (284)
T PRK05457 136 AVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHH
Confidence 5689999996
No 64
>PLN02259 branched-chain-amino-acid aminotransferase 2
Probab=24.47 E-value=67 Score=34.17 Aligned_cols=74 Identities=14% Similarity=0.103 Sum_probs=52.7
Q ss_pred HhhhhhhhchhHH--hhhhhhHhhhhccHhhHHhhhcccCcceE----EEeeeeeeCCeEEEEecCCCcHHHHHHHHHHH
Q 012885 35 RLFNRLVRDSLTR--EKERLEKAEESFKALDLNKLRGCFGFDTF----FATDVRRFGDGGIFIGNLRKPIEEVIPKLEKK 108 (454)
Q Consensus 35 ~~~~~~~~~~~~~--~~~~~~~~e~~~~~~dl~~lk~~Fg~~tF----~~t~~~~~~~~vi~~GnlR~~~e~v~~~l~~~ 108 (454)
.+.+.+.|+++-+ +..+++-.|+.++.+||.+-.+||.-.|- -|.++.+.++.+.+.+. ..++.++|++.
T Consensus 293 ~iL~GITR~sIl~la~~~G~~V~Er~i~~~eL~~AdEvF~tgTa~~V~PV~~I~~~~~~~~~~~~----~g~~t~~L~~~ 368 (388)
T PLN02259 293 TILEGITRKSVMEIASDQGYQVVEKAVHVDEVMDADEVFCTGTAVVVAPVGTITYQEKRVEYKTG----DESVCQKLRSV 368 (388)
T ss_pred CcCcCHHHHHHHHHHHHCCCeEEEEECCHHHHHhCCEEEEcCCcceEEEEEEEecCCceEEeCCC----CCHHHHHHHHH
Confidence 4566676666654 55689999999999999999999998886 45556554455444332 24788888888
Q ss_pred HHHh
Q 012885 109 LSEA 112 (454)
Q Consensus 109 l~~~ 112 (454)
+.+.
T Consensus 369 l~~i 372 (388)
T PLN02259 369 LVGI 372 (388)
T ss_pred HHHH
Confidence 7764
No 65
>PRK01265 heat shock protein HtpX; Provisional
Probab=24.25 E-value=47 Score=34.60 Aligned_cols=10 Identities=10% Similarity=0.079 Sum_probs=8.6
Q ss_pred HHHHHHHHHH
Q 012885 202 ILGVSEISTR 211 (454)
Q Consensus 202 iL~vHElGH~ 211 (454)
.+++||+||+
T Consensus 142 aVlAHElgHi 151 (324)
T PRK01265 142 AVAGHELGHL 151 (324)
T ss_pred HHHHHHHHHH
Confidence 5689999996
No 66
>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=23.57 E-value=57 Score=29.27 Aligned_cols=18 Identities=6% Similarity=-0.147 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012885 199 LITILGVSEISTRLTAAR 216 (454)
Q Consensus 199 ll~iL~vHElGH~laAr~ 216 (454)
.+.-.+.|||.|+++-..
T Consensus 59 ~~~~tL~HEm~H~~~~~~ 76 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVF 76 (157)
T ss_pred HHHHHHHHHHHHHHhhhc
Confidence 444568999999999655
No 67
>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=23.19 E-value=52 Score=30.47 Aligned_cols=11 Identities=18% Similarity=0.283 Sum_probs=9.4
Q ss_pred HHHHHHHHHHH
Q 012885 203 LGVSEISTRLT 213 (454)
Q Consensus 203 L~vHElGH~la 213 (454)
+.+|||+|.++
T Consensus 138 VvaHEltHGVt 148 (150)
T PF01447_consen 138 VVAHELTHGVT 148 (150)
T ss_dssp HHHHHHHHHHH
T ss_pred eeeeccccccc
Confidence 47899999886
No 68
>PRK02870 heat shock protein HtpX; Provisional
Probab=23.13 E-value=51 Score=34.51 Aligned_cols=10 Identities=20% Similarity=0.112 Sum_probs=8.8
Q ss_pred HHHHHHHHHH
Q 012885 202 ILGVSEISTR 211 (454)
Q Consensus 202 iL~vHElGH~ 211 (454)
.+++||+||+
T Consensus 175 aVlAHELgHi 184 (336)
T PRK02870 175 AVMAHELSHI 184 (336)
T ss_pred HHHHHHHHHH
Confidence 5689999998
No 69
>PF01421 Reprolysin: Reprolysin (M12B) family zinc metalloprotease This Prosite motif covers only the active site.; InterPro: IPR001590 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12B (adamalysin family, clan (MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The adamalysins are zinc dependent endopeptidases found in snake venom. There are some mammalian proteins such as P78325 from SWISSPROT, and fertilin Q28472 from SWISSPROT. Fertilin and closely related proteins appear to not have some active site residues and may not be active enzymes. CD156 (also called ADAM8 (3.4.24 from EC) or MS2 human) has been implicated in extravasation of leukocytes. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2E3X_A 2W15_A 2W14_A 2W13_A 2W12_A 1ND1_A 3K7L_A 2DW2_A 2DW0_B 2DW1_A ....
Probab=22.90 E-value=59 Score=30.53 Aligned_cols=21 Identities=14% Similarity=0.186 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 012885 199 LITILGVSEISTRLTAARYGV 219 (454)
Q Consensus 199 ll~iL~vHElGH~laAr~~gv 219 (454)
..+..++||+||-+=+..-+-
T Consensus 130 ~~a~~~AHelGH~lGm~HD~~ 150 (199)
T PF01421_consen 130 SFAVIIAHELGHNLGMPHDGD 150 (199)
T ss_dssp HHHHHHHHHHHHHTT---TTT
T ss_pred HHHHHHHHHHHHhcCCCCCCC
Confidence 455778999999887777666
No 70
>KOG2987 consensus Fatty acid desaturase [Lipid transport and metabolism]
Probab=22.78 E-value=2.8e+02 Score=28.66 Aligned_cols=29 Identities=28% Similarity=0.336 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHH--------HHHcCCeecccccccc
Q 012885 201 TILGVSEISTRLT--------AARYGVKLSPSFLVPS 229 (454)
Q Consensus 201 ~iL~vHElGH~la--------Ar~~gv~~slP~fIP~ 229 (454)
.-|.+||++|-.+ -|.+|+=+.+|.-+|.
T Consensus 84 l~LAIHeiSHN~aFg~~rpl~NR~~g~fANLPigvP~ 120 (324)
T KOG2987|consen 84 LTLAIHEISHNLAFGTNRPLYNRIFGFFANLPIGVPM 120 (324)
T ss_pred HHHHHHHhhhhhhcccCchHHHHHHHHhhcCcccCce
Confidence 5678999999654 4567777788888875
No 71
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=22.34 E-value=1.8e+02 Score=31.06 Aligned_cols=44 Identities=14% Similarity=0.065 Sum_probs=38.3
Q ss_pred eeCCeEEEEecCCCcHHHHHHHHHHHHHHhcCCceEEEEEeecC
Q 012885 83 RFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEEKT 126 (454)
Q Consensus 83 ~~~~~vi~~GnlR~~~e~v~~~l~~~l~~~~G~~~~l~~~e~~~ 126 (454)
..++.+...|++..+..+.|+++.+++++++|..|.+.++.-+.
T Consensus 302 ~~~~~i~lsG~l~~~~~~~~~~~l~~f~~~~~~~~~~~~~~~~~ 345 (410)
T TIGR02500 302 ESGREIALSGQLDSEKRSRLQELLAAFKQRDGVIPDVVLQNIPA 345 (410)
T ss_pred ecCCEEEEEecCCHHHHHHHHHHHHHHHHhCCCCceEEEecCCc
Confidence 67789999999999999999999999999999878777666553
No 72
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=22.06 E-value=3.3e+02 Score=24.62 Aligned_cols=60 Identities=30% Similarity=0.371 Sum_probs=37.3
Q ss_pred hccHhhHHhhhcccCcceEEEeeeeeeCC--eEEEEecCCCcHHHHHHHHHHHHHHhcCCceEEEEEee
Q 012885 58 SFKALDLNKLRGCFGFDTFFATDVRRFGD--GGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEE 124 (454)
Q Consensus 58 ~~~~~dl~~lk~~Fg~~tF~~t~~~~~~~--~vi~~GnlR~~~e~v~~~l~~~l~~~~G~~~~l~~~e~ 124 (454)
+++-.||+.+-+-.|+ ++++-|-+ =|+|. -..+++++-.++++.|+++||.+..+++...
T Consensus 18 ki~MaeLr~~l~~~Gf-----~~V~Tyi~SGNvvf~--~~~~~~~l~~~ie~~l~~~fG~~v~v~vrs~ 79 (137)
T PF08002_consen 18 KIKMAELREALEDLGF-----TNVRTYIQSGNVVFE--SDRDPAELAAKIEKALEERFGFDVPVIVRSA 79 (137)
T ss_dssp ---HHHHHHHHHHCT------EEEEEETTTTEEEEE--ESS-HHHHHHHHHHHHHHH-TT---EEEEEH
T ss_pred cccHHHHHHHHHHcCC-----CCceEEEeeCCEEEe--cCCChHHHHHHHHHHHHHhcCCCeEEEEeeH
Confidence 3555666666544463 56666644 67788 5578999999999999999999888865543
No 73
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=21.74 E-value=55 Score=31.44 Aligned_cols=20 Identities=20% Similarity=0.130 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHcCCe
Q 012885 201 TILGVSEISTRLTAARYGVK 220 (454)
Q Consensus 201 ~iL~vHElGH~laAr~~gv~ 220 (454)
+..++||+||-+-+..-+-.
T Consensus 146 ~~~~AHElGH~lG~~HD~~~ 165 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGSP 165 (220)
T ss_pred HHHHHHHHHHHhCCCCCCCC
Confidence 37799999999988766543
No 74
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=21.62 E-value=1e+02 Score=34.84 Aligned_cols=101 Identities=25% Similarity=0.293 Sum_probs=56.2
Q ss_pred HHHHhhhhhhhhHhhhhcccCCCChhhHhhhhhhhchhHHhhhhhhHhhhhccHhhHHhhhcccCcceEEEee---e-ee
Q 012885 8 AAIKLEKKRADTKLKELDRESTDNPIMRLFNRLVRDSLTREKERLEKAEESFKALDLNKLRGCFGFDTFFATD---V-RR 83 (454)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dl~~lk~~Fg~~tF~~t~---~-~~ 83 (454)
.|+|-|-..|++.+||+...+ ||--.|=-++.-...++|++.++.+-.- ++-+||-++.--+|+ | -|
T Consensus 131 ~~Lk~~ieqaq~~~~El~~~n--~pkl~LP~sllP~~~pr~l~pp~~~~~c-------~lhncfdySRCsltSgfPVYvy 201 (907)
T KOG2264|consen 131 SALKGEIEQAQRQLEELRETN--NPKLFLPFSLLPLQIPRELEPPSQISPC-------QLHNCFDYSRCSLTSGFPVYVY 201 (907)
T ss_pred HHHHhHHHHHHHHHHHHHhhc--CCceeeccccCcccCcccCCCccccCcc-------cchhccccccccccCCceeEEe
Confidence 356666677777777776544 4433444455566677777777755333 777999887544443 1 12
Q ss_pred eCCeEEEEecCCCcHHHHHHHHHHHHHHhcCCceEEEEEeecC
Q 012885 84 FGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRDVVVWFMEEKT 126 (454)
Q Consensus 84 ~~~~vi~~GnlR~~~e~v~~~l~~~l~~~~G~~~~l~~~e~~~ 126 (454)
+.|... .|. +.++.. ++-+++..+ +.++++|+++
T Consensus 202 d~D~~~-~G~---~~d~~l---k~~fq~t~~--~n~~~ve~pd 235 (907)
T KOG2264|consen 202 DSDIIT-SGQ---SEDEWL---KQVFQETIP--NNVYLVETPD 235 (907)
T ss_pred ccceee-ccc---chHHHH---HHHHHHhcc--cceeEeeCCC
Confidence 223222 243 333333 333444444 5567778874
No 75
>PRK10245 adrA diguanylate cyclase AdrA; Provisional
Probab=21.48 E-value=1.9e+02 Score=30.05 Aligned_cols=21 Identities=19% Similarity=0.105 Sum_probs=15.3
Q ss_pred cHHHHHHHHHHHHHHhcCCce
Q 012885 97 PIEEVIPKLEKKLSEAAGRDV 117 (454)
Q Consensus 97 ~~e~v~~~l~~~l~~~~G~~~ 117 (454)
.-+++.+++.+.+++.+++.-
T Consensus 258 ~GD~lL~~vA~~L~~~l~~~d 278 (366)
T PRK10245 258 VGDEAIVALTRQLQITLRGSD 278 (366)
T ss_pred HHHHHHHHHHHHHHHhCCCCC
Confidence 346888888888888766543
No 76
>PLN02782 Branched-chain amino acid aminotransferase
Probab=21.06 E-value=1.1e+02 Score=32.81 Aligned_cols=76 Identities=14% Similarity=0.167 Sum_probs=52.2
Q ss_pred HhhhhhhhchhHH--hhhhhhHhhhhccHhhHHhhhcccCcceE-EEeeeeee--CCeEEEEecCCCcHHHHHHHHHHHH
Q 012885 35 RLFNRLVRDSLTR--EKERLEKAEESFKALDLNKLRGCFGFDTF-FATDVRRF--GDGGIFIGNLRKPIEEVIPKLEKKL 109 (454)
Q Consensus 35 ~~~~~~~~~~~~~--~~~~~~~~e~~~~~~dl~~lk~~Fg~~tF-~~t~~~~~--~~~vi~~GnlR~~~e~v~~~l~~~l 109 (454)
.+.+.+.|+++-+ +..+++-.|++++.+|+.+-.+||.-.|- -++-|... ++.-+..|+ +.+..+.++|++.+
T Consensus 307 ~iLpGITR~svlela~~~Gi~V~Er~i~~~eL~~AdEvF~tgTa~~V~PV~~I~~~g~~~~~~~--g~~Gpvt~~L~~~l 384 (403)
T PLN02782 307 TILPGITRKSIIDVARSQGFQVEERNVTVDELLEADEVFCTGTAVVVSPVGSITYKGKRVSYGE--GGFGTVSQQLYTVL 384 (403)
T ss_pred CcCcCHHHHHHHHHHHHcCCeEEEEECCHHHHhhCCEEEEccCcceEEEEEEEEECCEEEeCCC--CCcCHHHHHHHHHH
Confidence 4667777777664 55689999999999999999999998885 44444333 443343454 34556777888877
Q ss_pred HHh
Q 012885 110 SEA 112 (454)
Q Consensus 110 ~~~ 112 (454)
.+.
T Consensus 385 ~~i 387 (403)
T PLN02782 385 TSL 387 (403)
T ss_pred HHH
Confidence 663
No 77
>cd04275 ZnMc_pappalysin_like Zinc-dependent metalloprotease, pappalysin_like subfamily. The pregnancy-associated plasma protein A (PAPP-A or pappalysin-1) cleaves insulin-like growth factor-binding proteins 4 and 5, thereby promoting cell growth by releasing bound growth factor. This model includes pappalysins and related metalloprotease domains from all three kingdoms of life. The three-dimensional structure of an archaeal representative, ulilysin, has been solved.
Probab=21.02 E-value=15 Score=36.08 Aligned_cols=45 Identities=11% Similarity=0.133 Sum_probs=22.9
Q ss_pred eEEEeeeeeeCCeEEEEecCCCcHHHHHHHHHHHHHHhcCCc-eEEEEEee
Q 012885 75 TFFATDVRRFGDGGIFIGNLRKPIEEVIPKLEKKLSEAAGRD-VVVWFMEE 124 (454)
Q Consensus 75 tF~~t~~~~~~~~vi~~GnlR~~~e~v~~~l~~~l~~~~G~~-~~l~~~e~ 124 (454)
.|-+.++.+....-.+... ....+ .++++.+++ -+++ ..+|++..
T Consensus 50 ~F~Lagi~r~~n~~~~~~~-~~~~~---~~~k~~l~~-~~~~~LNIy~~~~ 95 (225)
T cd04275 50 EFVLAGTTRTVNSAWPVFA-GSGTE---DAMKSALRK-GGYKYLNIYVANF 95 (225)
T ss_pred EEEEeeeEEecCCCccccc-CcchH---HHHHHHhcc-CCcCeEEEEEECC
Confidence 3778888777664443311 22223 345555544 2233 45666655
No 78
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=20.60 E-value=66 Score=27.83 Aligned_cols=15 Identities=33% Similarity=0.262 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHH
Q 012885 198 GLITILGVSEISTRL 212 (454)
Q Consensus 198 ~ll~iL~vHElGH~l 212 (454)
-++-..++||+||++
T Consensus 71 ~~I~~tlvhEiah~f 85 (97)
T PF06262_consen 71 ELIRDTLVHEIAHHF 85 (97)
T ss_dssp HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHc
Confidence 466788999999986
No 79
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=20.51 E-value=3.4e+02 Score=27.04 Aligned_cols=32 Identities=6% Similarity=0.048 Sum_probs=25.1
Q ss_pred CCCcHHHHHHHHHHHHHH-hcCCceEEEEEeec
Q 012885 94 LRKPIEEVIPKLEKKLSE-AAGRDVVVWFMEEK 125 (454)
Q Consensus 94 lR~~~e~v~~~l~~~l~~-~~G~~~~l~~~e~~ 125 (454)
-+.-+++--+++++.+.+ .+|....+-|..+|
T Consensus 183 a~~l~~~~~~~~~~~l~~~~~~~~~~~~f~~~p 215 (250)
T PRK14474 183 SFELSQDLRAQILESLHQTHLIPGTDIHFVTSP 215 (250)
T ss_pred CCCCCHHHHHHHHHHHHHHhcCCCCceeeecCc
Confidence 345678888999999999 89988877666654
No 80
>PRK09966 putative inner membrane diguanylate cyclase; Provisional
Probab=20.35 E-value=2.6e+02 Score=28.70 Aligned_cols=23 Identities=22% Similarity=0.286 Sum_probs=16.6
Q ss_pred cHHHHHHHHHHHHHHhcCCceEE
Q 012885 97 PIEEVIPKLEKKLSEAAGRDVVV 119 (454)
Q Consensus 97 ~~e~v~~~l~~~l~~~~G~~~~l 119 (454)
.-+++.+++.++|++..+....+
T Consensus 300 ~gd~~l~~~a~~L~~~~~~~~~~ 322 (407)
T PRK09966 300 TGDRVLIEIAKRLAEFGGLRHKA 322 (407)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEE
Confidence 45788888999998876654444
No 81
>cd06459 M3B_Oligoendopeptidase_F Peptidase family M3B Oligopeptidase F (PepF; Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and includes oligoendopeptidase F from Lactococcus lactis. This enzyme hydrolyzes peptides containing between 7 and 17 amino acids with fairly broad specificity. The PepF gene is duplicated in L. lactis on the plasmid that bears it, while a shortened second copy is found in Bacillus subtilis. Most bacterial PepFs are cytoplasmic endopeptidases; however, the PepF Bacillus amyloliquefaciens oligopeptidase is a secreted protein and may facilitate the process of sporulation. Specifically, the yjbG gene encoding the homolog of the PepF1 and PepF2 oligoendopeptidases of Lactococcus lactis has been identified in Bacillus subtilis as an inhibitor of sporulation initiation when over expressed from a multicopy plasmid.
Probab=20.23 E-value=50 Score=34.35 Aligned_cols=14 Identities=7% Similarity=0.043 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHH
Q 012885 202 ILGVSEISTRLTAA 215 (454)
Q Consensus 202 iL~vHElGH~laAr 215 (454)
.-++||+||.+-..
T Consensus 224 ~tl~HE~GHa~h~~ 237 (427)
T cd06459 224 FTLAHELGHAFHSY 237 (427)
T ss_pred HHHHHHhhHHHHHH
Confidence 34799999976443
Done!