Query 012792
Match_columns 456
No_of_seqs 330 out of 1492
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 06:21:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012792.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012792hhsearch_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 3.4E-28 7.5E-33 228.2 14.7 149 254-451 3-151 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.9 2.4E-25 5.1E-30 214.9 15.9 135 278-450 36-170 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.9 2E-23 4.3E-28 198.5 16.1 129 282-450 25-153 (208)
4 cd05709 S2P-M50 Site-2 proteas 99.9 1.7E-21 3.6E-26 179.3 10.1 138 289-450 2-155 (180)
5 cd06163 S2P-M50_PDZ_RseP-like 99.8 4.9E-21 1.1E-25 179.8 11.6 113 289-447 3-145 (182)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.8 4.3E-20 9.3E-25 182.4 15.6 123 282-451 105-230 (263)
7 cd06158 S2P-M50_like_1 Unchara 99.8 5E-21 1.1E-25 179.1 8.2 134 290-452 4-158 (181)
8 cd06162 S2P-M50_PDZ_SREBP Ster 99.8 8.5E-19 1.8E-23 174.3 13.2 114 290-451 130-250 (277)
9 PF02163 Peptidase_M50: Peptid 99.8 2.1E-19 4.6E-24 166.2 5.9 127 290-446 2-157 (192)
10 TIGR00054 RIP metalloprotease 99.5 9.8E-14 2.1E-18 144.7 10.9 81 289-369 8-119 (420)
11 COG1994 SpoIVFB Zn-dependent p 99.4 3.9E-13 8.5E-18 129.9 5.7 128 284-451 41-176 (230)
12 PRK10779 zinc metallopeptidase 99.0 5.8E-10 1.3E-14 117.4 6.9 84 287-370 7-120 (449)
13 COG0750 Predicted membrane-ass 98.7 4.4E-09 9.5E-14 106.5 2.2 243 167-450 82-338 (375)
14 PF13398 Peptidase_M50B: Pepti 97.5 0.00031 6.8E-09 67.1 7.5 66 295-368 22-88 (200)
15 PRK10779 zinc metallopeptidase 97.4 0.00012 2.7E-09 77.4 4.3 34 413-446 377-410 (449)
16 KOG2921 Intramembrane metallop 96.3 0.0028 6.2E-08 66.7 3.1 152 285-442 120-281 (484)
17 COG0750 Predicted membrane-ass 96.1 0.017 3.7E-07 58.8 7.9 82 288-369 6-120 (375)
18 PF11667 DUF3267: Protein of u 84.2 0.63 1.4E-05 40.3 1.9 68 295-370 4-72 (111)
19 PF00413 Peptidase_M10: Matrix 70.0 2.6 5.7E-05 37.3 1.7 21 296-316 106-126 (154)
20 cd04279 ZnMc_MMP_like_1 Zinc-d 67.4 3.3 7.1E-05 37.5 1.7 22 295-316 104-125 (156)
21 cd04268 ZnMc_MMP_like Zinc-dep 60.1 5.8 0.00012 35.6 1.9 23 294-316 93-115 (165)
22 cd04278 ZnMc_MMP Zinc-dependen 59.1 4.2 9.1E-05 36.9 0.9 23 295-317 107-129 (157)
23 PF13485 Peptidase_MA_2: Pepti 55.6 11 0.00025 31.2 2.9 18 297-314 27-44 (128)
24 KOG1832 HIV-1 Vpr-binding prot 50.5 23 0.00049 42.0 4.9 20 4-23 1353-1372(1516)
25 PF07423 DUF1510: Protein of u 49.6 9.3 0.0002 37.8 1.6 55 173-231 159-214 (217)
26 cd04277 ZnMc_serralysin_like Z 48.9 9.5 0.0002 35.5 1.5 23 295-317 113-135 (186)
27 PF14247 DUF4344: Domain of un 48.4 18 0.00039 35.8 3.4 25 291-316 88-112 (220)
28 PF05572 Peptidase_M43: Pregna 48.0 9 0.00019 35.5 1.1 15 296-310 70-84 (154)
29 smart00235 ZnMc Zinc-dependent 47.5 9.7 0.00021 33.6 1.2 20 298-317 89-108 (140)
30 PF01434 Peptidase_M41: Peptid 46.4 16 0.00035 35.2 2.7 18 297-314 30-47 (213)
31 PF12315 DUF3633: Protein of u 46.4 14 0.00031 36.5 2.2 29 284-315 84-112 (212)
32 cd00203 ZnMc Zinc-dependent me 46.2 10 0.00022 33.9 1.2 22 294-315 95-116 (167)
33 PF01435 Peptidase_M48: Peptid 45.9 14 0.00031 34.4 2.2 12 296-307 90-101 (226)
34 PF06114 DUF955: Domain of unk 45.4 13 0.00028 30.5 1.7 17 297-313 44-60 (122)
35 cd04327 ZnMc_MMP_like_3 Zinc-d 42.2 16 0.00035 34.6 1.9 21 296-316 93-113 (198)
36 PF13688 Reprolysin_5: Metallo 42.0 13 0.00027 34.6 1.1 21 295-315 142-162 (196)
37 PF14891 Peptidase_M91: Effect 42.0 17 0.00036 34.1 1.9 16 296-311 104-119 (174)
38 PTZ00429 beta-adaptin; Provisi 41.2 25 0.00054 40.6 3.5 32 75-106 608-639 (746)
39 PF13574 Reprolysin_2: Metallo 41.0 16 0.00035 34.1 1.7 21 295-315 111-131 (173)
40 KOG3320 40S ribosomal protein 39.8 50 0.0011 32.1 4.7 27 197-223 74-100 (192)
41 PF13582 Reprolysin_3: Metallo 37.7 15 0.00032 31.5 0.8 14 297-310 109-122 (124)
42 PF10263 SprT-like: SprT-like 35.2 27 0.00059 31.3 2.2 19 294-312 59-77 (157)
43 PF02031 Peptidase_M7: Strepto 34.3 24 0.00053 32.6 1.7 10 298-307 80-89 (132)
44 COG2856 Predicted Zn peptidase 33.7 23 0.00051 34.8 1.6 15 298-312 75-89 (213)
45 PHA02456 zinc metallopeptidase 33.1 26 0.00056 31.9 1.6 20 298-317 82-101 (141)
46 cd04269 ZnMc_adamalysin_II_lik 32.8 29 0.00063 32.3 2.0 20 295-314 131-150 (194)
47 PF13583 Reprolysin_4: Metallo 32.4 15 0.00032 35.4 -0.1 20 297-316 139-158 (206)
48 PF01447 Peptidase_M4: Thermol 32.1 29 0.00062 32.3 1.8 13 297-309 137-149 (150)
49 cd04270 ZnMc_TACE_like Zinc-de 31.7 29 0.00063 34.3 1.9 20 294-313 166-185 (244)
50 PRK03001 M48 family peptidase; 31.0 30 0.00066 34.7 1.9 12 296-307 125-136 (283)
51 PRK03982 heat shock protein Ht 30.5 31 0.00068 34.7 1.9 12 296-307 126-137 (288)
52 cd04267 ZnMc_ADAM_like Zinc-de 30.3 23 0.0005 32.9 0.9 20 295-314 133-152 (192)
53 PRK12462 phosphoserine aminotr 30.2 86 0.0019 33.2 5.2 67 149-223 8-76 (364)
54 PF09471 Peptidase_M64: IgA Pe 30.2 22 0.00048 36.0 0.8 14 296-309 217-230 (264)
55 COG0830 UreF Urease accessory 29.7 62 0.0013 32.4 3.8 31 415-445 156-186 (229)
56 smart00731 SprT SprT homologue 29.3 39 0.00085 30.6 2.2 18 294-311 58-75 (146)
57 PRK11037 hypothetical protein; 28.4 1.4E+02 0.0031 25.6 5.1 65 152-217 4-81 (83)
58 COG0501 HtpX Zn-dependent prot 27.4 39 0.00084 33.2 1.9 12 296-307 158-169 (302)
59 PF12388 Peptidase_M57: Dual-a 26.9 34 0.00074 33.8 1.4 25 291-315 129-153 (211)
60 PF13699 DUF4157: Domain of un 26.8 37 0.00081 28.2 1.4 12 297-308 63-74 (79)
61 PRK04860 hypothetical protein; 26.6 61 0.0013 30.6 3.0 21 293-313 61-81 (160)
62 PF04298 Zn_peptidase_2: Putat 26.4 39 0.00084 33.7 1.7 14 296-309 90-103 (222)
63 COG5309 Exo-beta-1,3-glucanase 26.2 1.1E+02 0.0023 31.9 4.8 61 158-222 218-281 (305)
64 PRK04897 heat shock protein Ht 26.1 42 0.0009 34.2 1.9 12 296-307 138-149 (298)
65 PF01432 Peptidase_M3: Peptida 25.7 42 0.00092 35.5 2.0 20 297-316 244-263 (458)
66 cd04280 ZnMc_astacin_like Zinc 25.7 36 0.00077 32.1 1.3 20 297-316 76-95 (180)
67 cd06459 M3B_Oligoendopeptidase 25.6 39 0.00085 34.9 1.7 16 297-312 224-239 (427)
68 PLN02452 phosphoserine transam 25.3 1.2E+02 0.0027 31.7 5.3 67 149-223 11-79 (365)
69 cd04927 ACT_ACR-like_2 Second 25.0 93 0.002 25.1 3.5 35 169-214 40-74 (76)
70 PRK03072 heat shock protein Ht 24.8 46 0.00099 33.8 1.9 12 296-307 128-139 (288)
71 PRK01345 heat shock protein Ht 24.7 46 0.00099 34.4 1.9 12 296-307 125-136 (317)
72 COG3824 Predicted Zn-dependent 24.6 33 0.00072 31.5 0.8 14 294-307 108-121 (136)
73 PRK02391 heat shock protein Ht 24.2 48 0.001 33.9 1.9 11 296-306 134-144 (296)
74 PF01421 Reprolysin: Reprolysi 24.1 54 0.0012 30.7 2.2 21 294-314 130-150 (199)
75 PRK05457 heat shock protein Ht 23.6 50 0.0011 33.6 1.9 11 296-306 135-145 (284)
76 cd04283 ZnMc_hatching_enzyme Z 23.3 45 0.00097 32.0 1.5 21 297-317 79-99 (182)
77 PF06167 Peptidase_M90: Glucos 22.6 49 0.0011 33.3 1.7 14 297-310 156-169 (253)
78 COG3091 SprT Zn-dependent meta 22.0 1.3E+02 0.0029 28.6 4.2 33 280-316 49-81 (156)
79 cd04272 ZnMc_salivary_gland_MP 21.9 55 0.0012 31.4 1.8 21 296-316 146-166 (220)
80 PRK01265 heat shock protein Ht 21.6 57 0.0012 34.0 1.9 11 296-306 141-151 (324)
81 TIGR02289 M3_not_pepF oligoend 21.4 53 0.0012 36.1 1.8 14 297-310 339-352 (549)
82 PRK02870 heat shock protein Ht 21.3 58 0.0013 34.1 1.9 11 296-306 174-184 (336)
83 cd04281 ZnMc_BMP1_TLD Zinc-dep 21.2 51 0.0011 32.0 1.4 20 297-316 89-108 (200)
84 PF01400 Astacin: Astacin (Pep 20.8 57 0.0012 31.0 1.7 21 297-317 81-101 (191)
85 PF04228 Zn_peptidase: Putativ 20.8 71 0.0015 33.0 2.4 16 296-311 171-186 (292)
86 KOG2719 Metalloprotease [Gener 20.5 56 0.0012 35.5 1.7 15 295-309 280-294 (428)
87 PRK10733 hflB ATP-dependent me 20.3 71 0.0015 36.1 2.5 29 296-324 409-439 (644)
88 PF10692 DUF2498: Protein of u 20.2 1.6E+02 0.0035 25.1 3.9 64 153-217 4-80 (82)
89 COG5495 Uncharacterized conser 20.2 64 0.0014 33.0 1.9 38 156-215 128-165 (289)
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=99.95 E-value=3.4e-28 Score=228.17 Aligned_cols=149 Identities=42% Similarity=0.742 Sum_probs=124.7
Q ss_pred HHHHHHHHHHhhccccccccccccccchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEE
Q 012792 254 FGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAI 333 (456)
Q Consensus 254 l~l~Tl~T~~~~~~~~l~~~~~~~~~~~~~l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGav 333 (456)
++++|+.+....+.-.... +..+++..+..++++++++++++++||+||+++||++|+|+..++++|...+|++|++
T Consensus 3 ~~~~s~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~l~~~l~iHElgH~~~A~~~G~~~~~~~l~P~~~~G~~G~~ 79 (183)
T cd06160 3 LLVLTLLTTLLVGAWLSGN---DVPGNPLLLLQGLPFALALLAILGIHEMGHYLAARRHGVKASLPYFIPFPFIGTFGAF 79 (183)
T ss_pred HHHHHHHHHHHHHHHHhcc---cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCccceeeeehHhcCcEEEE
Confidence 4566666666554321111 1235677788899999999999999999999999999999999999998779999999
Q ss_pred EEcCccccCccceeEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccch
Q 012792 334 TRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVN 413 (456)
Q Consensus 334 i~~~s~~~~R~alf~IAlAGPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lh 413 (456)
++.++..++|+++++|++|||++|+++++++++++
T Consensus 80 ~~~~~~~~~~~~~~~IalAGPl~nl~lali~~~~~--------------------------------------------- 114 (183)
T cd06160 80 IRMRSPIPNRKALFDIALAGPLAGLLLALPVLIIG--------------------------------------------- 114 (183)
T ss_pred EEecCCCCChhHhehhhhhHHHHHHHHHHHHHHHH---------------------------------------------
Confidence 99988888999999999999999999998776543
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchHHHHHHhhcccch
Q 012792 414 PLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKVF 451 (456)
Q Consensus 414 pL~~ag~inLvLtafNLLPigPLDGGRIL~Allgrr~~ 451 (456)
+..++|+|+++++|||+|++|||||||+++++++|++
T Consensus 115 -~~~~~~~nl~l~~fNLLPi~PLDGGril~~~l~~~~~ 151 (183)
T cd06160 115 -LAVAGWVGLLVTALNLLPVGQLDGGHIVRALFGRRVA 151 (183)
T ss_pred -HHHHHHHHHHHHHHHhCCCCCcChHHHHHHHhCHHHH
Confidence 1245889999999999999999999999999999864
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=99.93 E-value=2.4e-25 Score=214.91 Aligned_cols=135 Identities=30% Similarity=0.383 Sum_probs=113.7
Q ss_pred ccchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEEEEcCccccCccceeEEEEchHHHH
Q 012792 278 FDNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAG 357 (456)
Q Consensus 278 ~~~~~~l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGavi~~~s~~~~R~alf~IAlAGPLan 357 (456)
..+...+..++.+++++++++++||+||+++||++|+++. .+.+.+||+++.+++...++++++.|++|||++|
T Consensus 36 ~~~~~~~~~g~~~~~~l~~~v~iHElgH~~~A~~~G~~v~------~i~l~p~Gg~~~~~~~~~~~~~~~~IalAGPl~N 109 (227)
T cd06164 36 ALGAVAWLLGLAAALLLFASVLLHELGHSLVARRYGIPVR------SITLFLFGGVARLEREPETPGQEFVIAIAGPLVS 109 (227)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCeEC------eEEEEeeeEEEEecCCCCCHHHHhhhhhhHHHHH
Confidence 3456678889999999999999999999999999999997 7788889999999888888899999999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCc
Q 012792 358 FSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELD 437 (456)
Q Consensus 358 fllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigPLD 437 (456)
++++++++++........ .+ .....+.+++++|+++++|||+|++|||
T Consensus 110 llla~i~~~l~~~~~~~~------------~~--------------------~~~~~~~~~~~~Nl~l~~fNLlP~~PLD 157 (227)
T cd06164 110 LVLALLFLLLSLALPGSG------------AG--------------------PLGVLLGYLALINLLLAVFNLLPAFPLD 157 (227)
T ss_pred HHHHHHHHHHHHHhcccc------------ch--------------------HHHHHHHHHHHHHHHHHHHhCcCCCCCC
Confidence 999998887765432110 00 0112356789999999999999999999
Q ss_pred hHHHHHHhhcccc
Q 012792 438 GGRIAFALWGRKV 450 (456)
Q Consensus 438 GGRIL~Allgrr~ 450 (456)
||||+++++.++.
T Consensus 158 Ggril~~ll~~~~ 170 (227)
T cd06164 158 GGRVLRALLWRRT 170 (227)
T ss_pred hHHHHHHHHHHhc
Confidence 9999999988876
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=99.91 E-value=2e-23 Score=198.49 Aligned_cols=129 Identities=29% Similarity=0.426 Sum_probs=109.1
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEEEEcCccccCccceeEEEEchHHHHHHHH
Q 012792 282 NLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLG 361 (456)
Q Consensus 282 ~~l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGavi~~~s~~~~R~alf~IAlAGPLanfllA 361 (456)
..|..++.+++.+++++++||+||+++||++|++++ .+.+.+||+.+++++...+|++++.|++|||++|++++
T Consensus 25 ~~~~~~~~~~l~l~~~v~iHElgH~~~A~~~G~~v~------~i~l~p~Gg~~~~~~~~~~~~~~~lIalAGPl~n~~la 98 (208)
T cd06161 25 VAWLLGLLEALLLFLSVLLHELGHALVARRYGIRVR------SITLLPFGGVAELEEEPETPKEEFVIALAGPLVSLLLA 98 (208)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcc------ceEEEeeeeeeeeccCCCChhHheeeeeehHHHHHHHH
Confidence 457788899999999999999999999999999987 78888899999887766688999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCchHHH
Q 012792 362 FVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRI 441 (456)
Q Consensus 362 ll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigPLDGGRI 441 (456)
+++.++....+.. ......+.+.+++|+.+++|||+|++|||||||
T Consensus 99 ~~~~~l~~~~~~~----------------------------------~~~~~~~~~~~~~N~~l~lfNLlPi~pLDGg~i 144 (208)
T cd06161 99 GLFYLLYLLLPGG----------------------------------GPLSSLLEFLAQVNLILGLFNLLPALPLDGGRV 144 (208)
T ss_pred HHHHHHHHHcccc----------------------------------hHHHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 9887665432110 001134567889999999999999999999999
Q ss_pred HHHhhcccc
Q 012792 442 AFALWGRKV 450 (456)
Q Consensus 442 L~Allgrr~ 450 (456)
++++++++.
T Consensus 145 l~~ll~~~~ 153 (208)
T cd06161 145 LRALLWRRT 153 (208)
T ss_pred HHHHHHHhc
Confidence 999988776
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=99.85 E-value=1.7e-21 Score=179.31 Aligned_cols=138 Identities=28% Similarity=0.326 Sum_probs=99.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCC----ccccc-------ccceeeeeEEEEcCcccc-----CccceeEEEEc
Q 012792 289 PGALVTALVIGVHELGHILAAKSTGVELGV----PYFVP-------SWQIGSFGAITRIRNIVS-----KREDLLKVAAA 352 (456)
Q Consensus 289 p~aL~Ll~iL~iHElGHalaAr~~Gvkvs~----P~fIP-------~i~Lg~FGavi~~~s~~~-----~R~alf~IAlA 352 (456)
.+.+++++++.+||+||+++||++|+++.. ..+.| .+.+.++|+++++.+... +|++++.|++|
T Consensus 2 ~~~~~~~i~i~iHE~gH~~~A~~~G~~~~~~~~~~~~~~~~~~~~~~~~~ip~gG~~~~~~~~~~~~~~~~~~~~~i~la 81 (180)
T cd05709 2 AFILALLISVTVHELGHALVARRLGVKVARFSGGFTLNPLKHGDPYGIILIPLGGYAKPVGENPRAFKKPRWQRLLVALA 81 (180)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHcCCCchheeeeEEECCcCCCCEehHHHHhccCeeccCCCChhhhccchhhhhhhhhh
Confidence 356778889999999999999999998752 11111 122344688877766543 48899999999
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcC
Q 012792 353 GPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIP 432 (456)
Q Consensus 353 GPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLP 432 (456)
||++|+++|++++++.......... .. ..+ ......+.+.+++++|+.+++|||+|
T Consensus 82 GPl~nllla~i~~~~~~~~~~~~~~----~~---~~~-----------------~~~~~~~~l~~~~~~n~~l~~fNLlP 137 (180)
T cd05709 82 GPLANLLLALLLLLLLLLLGGLPPA----PV---GQA-----------------ASSGLANLLAFLALINLNLAVFNLLP 137 (180)
T ss_pred hHHHHHHHHHHHHHHHHHHccCCcc----ch---hhh-----------------HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 9999999999988776654321100 00 000 00112346778899999999999999
Q ss_pred CCCCchHHHHHHhhcccc
Q 012792 433 AGELDGGRIAFALWGRKV 450 (456)
Q Consensus 433 igPLDGGRIL~Allgrr~ 450 (456)
++||||||++++++.++.
T Consensus 138 i~plDGg~il~~~l~~~~ 155 (180)
T cd05709 138 IPPLDGGRILRALLEAIR 155 (180)
T ss_pred CCCCChHHHHHHHHhHHH
Confidence 999999999999988765
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=99.85 E-value=4.9e-21 Score=179.81 Aligned_cols=113 Identities=34% Similarity=0.444 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCC------ccccc--------ccceeeeeEEEEcCccc--------------
Q 012792 289 PGALVTALVIGVHELGHILAAKSTGVELGV------PYFVP--------SWQIGSFGAITRIRNIV-------------- 340 (456)
Q Consensus 289 p~aL~Ll~iL~iHElGHalaAr~~Gvkvs~------P~fIP--------~i~Lg~FGavi~~~s~~-------------- 340 (456)
.+.+++.+++++||+||+++||++|+++.. |-+.- .+.+.++|+++++.+..
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 356677889999999999999999999863 21100 13466799998875421
Q ss_pred --cCccceeEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHH
Q 012792 341 --SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIW 418 (456)
Q Consensus 341 --~~R~alf~IAlAGPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~a 418 (456)
.++++++.|++|||++|+++|++++++. +.++
T Consensus 83 ~~~~~~~ri~V~lAGP~~NlilA~i~~~~~----------------------------------------------~~~~ 116 (182)
T cd06163 83 NSKPVWQRILIVFAGPLANFLLAIVLFAVL----------------------------------------------LSFL 116 (182)
T ss_pred ccCCcchhhhhhhhHHHHHHHHHHHHHHHH----------------------------------------------HHHH
Confidence 1478899999999999999998765431 2345
Q ss_pred HHHHHHHHHHhhcCCCCCchHHHHHHhhc
Q 012792 419 AWAGLLINAINSIPAGELDGGRIAFALWG 447 (456)
Q Consensus 419 g~inLvLtafNLLPigPLDGGRIL~Allg 447 (456)
+++|+.+++|||+|++||||||++++++.
T Consensus 117 ~~~n~~l~~fNLlPippLDGg~il~~~~~ 145 (182)
T cd06163 117 ALLSINLGILNLLPIPALDGGHLLFLLIE 145 (182)
T ss_pred HHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 78999999999999999999999999875
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=99.84 E-value=4.3e-20 Score=182.38 Aligned_cols=123 Identities=26% Similarity=0.328 Sum_probs=94.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEEEEcCccc---cCccceeEEEEchHHHHH
Q 012792 282 NLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIV---SKREDLLKVAAAGPLAGF 358 (456)
Q Consensus 282 ~~l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGavi~~~s~~---~~R~alf~IAlAGPLanf 358 (456)
..+...+.+.+++++++++||+||+++||++|+++..--+ .+.+.++|+++++.+.. .++++++.|++|||++|+
T Consensus 105 ~~~i~~~~~~iaL~isv~iHElgHa~~Ar~~G~~V~~iGl--~l~~ip~Gg~v~~~~~~~~~~~~~~~~~Ia~AGP~~Nl 182 (263)
T cd06159 105 NIFIPLPYGIIALVVGVVVHELSHGILARVEGIKVKSGGL--LLLIIPPGAFVEPDEEELNKADRRIRLRIFAAGVTANF 182 (263)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCEECchhH--HHHhhhcEEEEEecchhhccCChhheeeeeeehHHHHH
Confidence 3344566677788899999999999999999999973100 01123478888775543 467899999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCch
Q 012792 359 SLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDG 438 (456)
Q Consensus 359 llAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigPLDG 438 (456)
++|++++++.. +.+.+++|+.+++|||+|++||||
T Consensus 183 vla~i~~~l~~---------------------------------------------l~~~~~~N~~l~lFNLlP~~PLDG 217 (263)
T cd06159 183 VVALIAFALFF---------------------------------------------LYWIFWINFLLGLFNCLPAIPLDG 217 (263)
T ss_pred HHHHHHHHHHH---------------------------------------------HHHHHHHHHHHHHHhCCCCCCCCh
Confidence 99987764321 224578999999999999999999
Q ss_pred HHHHHHhhcccch
Q 012792 439 GRIAFALWGRKVF 451 (456)
Q Consensus 439 GRIL~Allgrr~~ 451 (456)
||++++++.....
T Consensus 218 g~il~~ll~~~~~ 230 (263)
T cd06159 218 GHVFRDLLEALLR 230 (263)
T ss_pred HHHHHHHHHHHhC
Confidence 9999998765543
No 7
>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=99.83 E-value=5e-21 Score=179.08 Aligned_cols=134 Identities=28% Similarity=0.355 Sum_probs=95.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCC--------cc--ccc-------ccceeeeeEEE----EcCccccCccceeE
Q 012792 290 GALVTALVIGVHELGHILAAKSTGVELGV--------PY--FVP-------SWQIGSFGAIT----RIRNIVSKREDLLK 348 (456)
Q Consensus 290 ~aL~Ll~iL~iHElGHalaAr~~Gvkvs~--------P~--fIP-------~i~Lg~FGavi----~~~s~~~~R~alf~ 348 (456)
..+++++++.+||+||+++|+++|+++.. |+ ..| .+.+..|||.. +.++.+++|++++.
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 45567789999999999999999999863 32 122 11122577762 33444567789999
Q ss_pred EEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHH
Q 012792 349 VAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAI 428 (456)
Q Consensus 349 IAlAGPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtaf 428 (456)
|++|||++|++++++++++........+ ...+. ....+....++|+.+++|
T Consensus 84 valAGP~~n~~la~i~~~~~~~~~~~~~---------~~~~~--------------------l~~~~~~~~~~Ni~l~lf 134 (181)
T cd06158 84 VSLAGPLSNLLLALLFALLLRLLPAFGG---------VVASF--------------------LFLMLAYGVLINLVLAVF 134 (181)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhccccc---------hhhHH--------------------HHHHHHHHHHHHHHHHHH
Confidence 9999999999999988765543321100 00011 112355668899999999
Q ss_pred hhcCCCCCchHHHHHHhhcccchh
Q 012792 429 NSIPAGELDGGRIAFALWGRKVFH 452 (456)
Q Consensus 429 NLLPigPLDGGRIL~Allgrr~~~ 452 (456)
||+|++|||||||++++++++..+
T Consensus 135 NLlPipPLDG~~il~~~l~~~~~~ 158 (181)
T cd06158 135 NLLPIPPLDGSKILAALLPRRLAE 158 (181)
T ss_pred HhCCCCCCChHHHHHHHcchhHHH
Confidence 999999999999999999887653
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=99.79 E-value=8.5e-19 Score=174.29 Aligned_cols=114 Identities=25% Similarity=0.238 Sum_probs=89.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeee----eEEEEcCcc---ccCccceeEEEEchHHHHHHHHH
Q 012792 290 GALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSF----GAITRIRNI---VSKREDLLKVAAAGPLAGFSLGF 362 (456)
Q Consensus 290 ~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~F----Gavi~~~s~---~~~R~alf~IAlAGPLanfllAl 362 (456)
+.+++++++.+||+||+++|+++|+++. .+.+..| |+++++... ..++++++.|++|||++|+++|+
T Consensus 130 ~l~al~isvvvHElgHal~A~~~gi~V~------~iGl~l~~~~pGa~ve~~~e~~~~~~~~~~l~Ia~AGp~~NlvLa~ 203 (277)
T cd06162 130 YFTALLISGVVHEMGHGVAAVREQVRVN------GFGIFFFIIYPGAYVDLFTDHLNLISPVQQLRIFCAGVWHNFVLGL 203 (277)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCeec------eEEEeeeeccCeeEEeecccccccCChhhhhheehhhHHHHHHHHH
Confidence 4456788999999999999999999997 5444444 888877332 23566789999999999999999
Q ss_pred HHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCchHHHH
Q 012792 363 VLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIA 442 (456)
Q Consensus 363 l~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigPLDGGRIL 442 (456)
+++++.+. ..+.+++++|+.+++|||+|++|||||||+
T Consensus 204 i~~~l~~~------------------------------------------~~l~~la~iNl~lavfNLlP~~pLDGg~il 241 (277)
T cd06162 204 VGYLLLIE------------------------------------------TFLKYLISLSGALAVINAVPCFALDGQWIL 241 (277)
T ss_pred HHHHHHHH------------------------------------------HHHHHHHHHHHHHHHhhcCCCCCCChHHHH
Confidence 87654210 024466889999999999999999999999
Q ss_pred HHhhcccch
Q 012792 443 FALWGRKVF 451 (456)
Q Consensus 443 ~Allgrr~~ 451 (456)
++++.++..
T Consensus 242 ~~ll~~~~~ 250 (277)
T cd06162 242 STFLEATLV 250 (277)
T ss_pred HHHHHHHhC
Confidence 998766544
No 9
>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=99.77 E-value=2.1e-19 Score=166.20 Aligned_cols=127 Identities=31% Similarity=0.401 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCCcc--c-------cc-c----c-------ceeeeeE--------EEEcCccc
Q 012792 290 GALVTALVIGVHELGHILAAKSTGVELGVPY--F-------VP-S----W-------QIGSFGA--------ITRIRNIV 340 (456)
Q Consensus 290 ~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~--f-------IP-~----i-------~Lg~FGa--------vi~~~s~~ 340 (456)
+.+++++++++||+||+++|+++|+++.... + .+ . + ....+|+ ..+.+...
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 4567888999999999999999999997531 1 00 0 0 0112343 22333345
Q ss_pred cCccceeEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHH
Q 012792 341 SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAW 420 (456)
Q Consensus 341 ~~R~alf~IAlAGPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~ 420 (456)
.++++.+.|++|||++|++++++++++......... ......+.+.++++
T Consensus 82 ~~~~~~~~i~laGp~~nllla~i~~~l~~~~~~~~~------------------------------~~~~~~~~~~~~~~ 131 (192)
T PF02163_consen 82 RSRWKRILIALAGPLANLLLAIIALLLLYLLSGSVG------------------------------WSSFFAEFLFFFAW 131 (192)
T ss_dssp --TTCHHHHHHHHHHHHHHHHHHHHHHTTS-------------------------------------EETTEEHHHHHHH
T ss_pred CCccceEEEEEEcHHHHHHHHHHHHHHHHHHhcccc------------------------------ccHHHHHHHHHHHH
Confidence 567889999999999999999988766443211100 01123356889999
Q ss_pred HHHHHHHHhhcCCCCCchHHHHHHhh
Q 012792 421 AGLLINAINSIPAGELDGGRIAFALW 446 (456)
Q Consensus 421 inLvLtafNLLPigPLDGGRIL~All 446 (456)
+|+.++++||+|++||||||++++++
T Consensus 132 ~n~~l~~~NllPi~~lDG~~il~~l~ 157 (192)
T PF02163_consen 132 LNFILALFNLLPIPPLDGGRILRALL 157 (192)
T ss_dssp HHHHHHHHTTSSSSSSHHHHHHHHHH
T ss_pred HHHHHhhhhcccCCcCCHHHHHHHHH
Confidence 99999999999999999999999987
No 10
>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=99.49 E-value=9.8e-14 Score=144.71 Aligned_cols=81 Identities=26% Similarity=0.433 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCC------ccccc--------ccceeeeeEEEEcCcc----c----------
Q 012792 289 PGALVTALVIGVHELGHILAAKSTGVELGV------PYFVP--------SWQIGSFGAITRIRNI----V---------- 340 (456)
Q Consensus 289 p~aL~Ll~iL~iHElGHalaAr~~Gvkvs~------P~fIP--------~i~Lg~FGavi~~~s~----~---------- 340 (456)
.+.+++.+++++||+||+++||++|+++.. |-+.- .+.+.++|+++++... .
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 345667778999999999999999999863 21110 1346779999888311 0
Q ss_pred ---cCccceeEEEEchHHHHHHHHHHHHHHHH
Q 012792 341 ---SKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (456)
Q Consensus 341 ---~~R~alf~IAlAGPLanfllAll~lligl 369 (456)
.+.++++.|++|||++|+++|++++++.+
T Consensus 88 f~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 88 FNNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred hccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 25678899999999999999998877554
No 11
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=99.38 E-value=3.9e-13 Score=129.95 Aligned_cols=128 Identities=26% Similarity=0.270 Sum_probs=84.1
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEEEEcCcccc-------CccceeEEEEc-hHH
Q 012792 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVS-------KREDLLKVAAA-GPL 355 (456)
Q Consensus 284 l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGavi~~~s~~~-------~R~alf~IAlA-GPL 355 (456)
+..+....+.++..+..||+||...++++|.++. .+.++.+|++...+.... .|.+...+++| ||+
T Consensus 41 ~~~~~~~~~~l~~rl~l~~~gh~~~~~~~~~~l~------~~~i~~~~g~~~~~~~~v~~~~~~~~~~~g~lvs~algpl 114 (230)
T COG1994 41 LGDGTAAFVGLAHRLVLHPLGHSDEAGRLGLKLL------LALLFGFGGFGFLKPVPVNPRGEFLIRLAGPLVSLALGPL 114 (230)
T ss_pred HhhhHHHHHHHhHHHhhhHhhHHHHHHHHHHHHH------HHHHHhccceeeecCcCcCHHHHhhhhccchhHHHHHHHH
Confidence 4445555555777899999999999999999885 333322444443333322 34555666777 888
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCC
Q 012792 356 AGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGE 435 (456)
Q Consensus 356 anfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigP 435 (456)
.|+++++++ .. ..+... . .......+...+.+|+++++|||+|++|
T Consensus 115 ~ni~la~~~-~~--~~~~~~-----------~--------------------~~~~~~~~~~la~~Nl~L~lFNLiPi~P 160 (230)
T COG1994 115 TNIALAVLG-LL--ALSLFL-----------Y--------------------HSVLFAFLAALALVNLVLALFNLLPIPP 160 (230)
T ss_pred HHHHHHHHH-HH--hhcccc-----------c--------------------chhHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 887777664 11 111000 0 0011123456788999999999999999
Q ss_pred CchHHHHHHhhcccch
Q 012792 436 LDGGRIAFALWGRKVF 451 (456)
Q Consensus 436 LDGGRIL~Allgrr~~ 451 (456)
|||||++++++.++..
T Consensus 161 LDGg~vlr~~~~~~~~ 176 (230)
T COG1994 161 LDGGRVLRALLPRRYG 176 (230)
T ss_pred CChHHHHHHHccHHHH
Confidence 9999999999887754
No 12
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.99 E-value=5.8e-10 Score=117.37 Aligned_cols=84 Identities=21% Similarity=0.341 Sum_probs=62.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcCCccCC------c-cccc--------ccceeeeeEEEEcCcc------------
Q 012792 287 GLPGALVTALVIGVHELGHILAAKSTGVELGV------P-YFVP--------SWQIGSFGAITRIRNI------------ 339 (456)
Q Consensus 287 glp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~------P-~fIP--------~i~Lg~FGavi~~~s~------------ 339 (456)
.+.+.+++.+++++||+||+++||++|+++.. | .|=- .+.+.++|+++++...
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 44466677788899999999999999999974 2 1100 1345678999876432
Q ss_pred ---ccCccceeEEEEchHHHHHHHHHHHHHHHHh
Q 012792 340 ---VSKREDLLKVAAAGPLAGFSLGFVLFLVGFI 370 (456)
Q Consensus 340 ---~~~R~alf~IAlAGPLanfllAll~lligl~ 370 (456)
..+.++++.|.+|||++|+++|++++.+.+.
T Consensus 87 ~f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~~ 120 (449)
T PRK10779 87 AFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVFI 120 (449)
T ss_pred hhccCCHHHhhhhhhhhHHHHHHHHHHHHHHHHh
Confidence 1235888999999999999999988766553
No 13
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=98.72 E-value=4.4e-09 Score=106.49 Aligned_cols=243 Identities=15% Similarity=0.079 Sum_probs=133.9
Q ss_pred ccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecCCCCCcEEEEecCCCCCCCCCChh
Q 012792 167 QVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNPEDDKPVAVVVPRKTLQPETTAVP 246 (456)
Q Consensus 167 ~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~~~~kPv~~v~P~~~~~p~~~~~~ 246 (456)
.+++.++|+.....+ ...+++.|.+.......+..+...+ ..|..+ ...|+.. + .. .
T Consensus 82 ~~~~~~~f~~~~~~~-~~~~~~~Gp~~n~i~~~~~~~~~~~--~~G~~~---------~~~~~~~---~--v~---~--- 138 (375)
T COG0750 82 PEPRPRAFNAKSVWQ-RIAIVFAGPLFNFILAIVLFVVLFF--VIGLVP---------VASPVVG---E--VA---P--- 138 (375)
T ss_pred cCcchhhhhcccccc-hhheeechHHHHHHHHHHHHHhhhe--Eeeeee---------eccCeee---e--cC---C---
Confidence 588889999999999 9999999999987766655544333 223111 1122221 0 00 0
Q ss_pred HHHHHHHHHHHHHHHHHhhccccccccc--cccccchHHHH---hhHHHHHHHHHHHHHH--HHHHHHHHHHcCCccCCc
Q 012792 247 EWFAAGAFGLVTVFTLLLRNVPALQSNL--LSTFDNLNLLT---NGLPGALVTALVIGVH--ELGHILAAKSTGVELGVP 319 (456)
Q Consensus 247 ~~~~~~ll~l~Tl~T~~~~~~~~l~~~~--~~~~~~~~~l~---~glp~aL~Ll~iL~iH--ElGHalaAr~~Gvkvs~P 319 (456)
.+++. .+.+..|.-.+..+- ...+++..... .+.++. .+.+.+.| +..|+.+++.++.....|
T Consensus 139 -~s~a~-------~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~P 208 (375)
T COG0750 139 -KSAAA-------LAGLRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFN--LLTILVIRLDGEAHAVAAEIIKSLGLTP 208 (375)
T ss_pred -CCHHH-------HcCCCCCCEEEeECCEEccCHHHHHHHHHhccCCccc--ceEEEEEeccceeeeccccceeeEeeec
Confidence 01111 112222222222211 11111111111 122211 34566788 999999999888888889
Q ss_pred ccccccceeeeeEEEE--cCccccC-----ccceeEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhh
Q 012792 320 YFVPSWQIGSFGAITR--IRNIVSK-----REDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLA 392 (456)
Q Consensus 320 ~fIP~i~Lg~FGavi~--~~s~~~~-----R~alf~IAlAGPLanfllAll~lligl~l~~~~~~~l~v~~~~f~~S~L~ 392 (456)
+++| ...+..+..++ .....++ ++...++..++++. ..+.-...++.+.+.... ......+..+.+.
T Consensus 209 ~~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~-~~v~~~~~~~~~~~~~l~----~~~~~~~~~~~l~ 282 (375)
T COG0750 209 VVIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVG-LAVEKTGRLVKLTLKMLK----KLITGDLSLKNLS 282 (375)
T ss_pred ceec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHH-HHHHHHHHHHHHHHHHHH----Hheeccccccccc
Confidence 8776 44444544432 2233333 77889999999999 333333333333221000 0001111222233
Q ss_pred hhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCchHHHHHHhhcccc
Q 012792 393 GGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKV 450 (456)
Q Consensus 393 g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPigPLDGGRIL~Allgrr~ 450 (456)
|.+.....+.... .....+++.+++|+|+.++++||+|+++|||||++++++.+..
T Consensus 283 Gpi~i~~~~~~~~--~~~~~~~l~~~~~lsi~lg~lNllP~p~LDGG~i~~~~~e~~~ 338 (375)
T COG0750 283 GPIGIAKIAGAAA--SLGLINLLFFLALLSINLGILNLLPIPPLDGGHLLFYLLEALR 338 (375)
T ss_pred CceehhhhhhHHH--hhHHHHHHHHHHHHHHHHHHHhccCCCccCccHHHHHHHHHHh
Confidence 2222221221111 1235689999999999999999999999999999999877654
No 14
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=97.48 E-value=0.00031 Score=67.09 Aligned_cols=66 Identities=30% Similarity=0.264 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCccCCcccccccceee-eeEEEEcCccccCccceeEEEEchHHHHHHHHHHHHHHH
Q 012792 295 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGS-FGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVG 368 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~-FGavi~~~s~~~~R~alf~IAlAGPLanfllAll~llig 368 (456)
++...+||+||+++|...|-++. .+.+.+ -++.+..+. +++...+.++.|||++..+++..++..+
T Consensus 22 ~l~t~~HE~gHal~a~l~G~~v~------~i~l~~~~~G~~~~~~--~~~~~~~~i~~aGyl~~~l~g~~~~~~~ 88 (200)
T PF13398_consen 22 LLVTFVHELGHALAALLTGGRVK------GIVLFPDGSGVTVSSG--PSGIGRFLIALAGYLGPALFGLLLLWLL 88 (200)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcc------eEEEEeCCCceEEEec--CCCcchhHHhcccchHHHHHHHHHHHHH
Confidence 34588999999999999999998 555544 356666655 5566788999999999999887766655
No 15
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=97.42 E-value=0.00012 Score=77.41 Aligned_cols=34 Identities=29% Similarity=0.397 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHHHHhhcCCCCCchHHHHHHhh
Q 012792 413 NPLVIWAWAGLLINAINSIPAGELDGGRIAFALW 446 (456)
Q Consensus 413 hpL~~ag~inLvLtafNLLPigPLDGGRIL~All 446 (456)
..+.+++.+++-++++||||+|.|||||++..++
T Consensus 377 ~~l~~~a~iSi~Lgi~NLlPiP~LDGG~l~f~~~ 410 (449)
T PRK10779 377 YYLMFLALISVNLGIINLFPLPVLDGGHLLFLAI 410 (449)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCccCchHHHHHHH
Confidence 4677889999999999999999999999998864
No 16
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0028 Score=66.70 Aligned_cols=152 Identities=26% Similarity=0.294 Sum_probs=84.7
Q ss_pred HhhHHHH-HHHHHHHHHHHHHHHHHHHHcCCccCCcccccccceeeeeEEEEcCcccc---CccceeEEEEchHHHHHHH
Q 012792 285 TNGLPGA-LVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVS---KREDLLKVAAAGPLAGFSL 360 (456)
Q Consensus 285 ~~glp~a-L~Ll~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~Lg~FGavi~~~s~~~---~R~alf~IAlAGPLanfll 360 (456)
+.+++|. ..+++...+||+||+|||.+-|+++.- |=-.+...--||++.+....- +.-..+.|--||-.=||++
T Consensus 120 l~~I~yf~t~lvi~~vvHElGHalAA~segV~vng--fgIfi~aiyPgafvdl~~dhLqsl~~fr~LrIfcAGIWHNfvf 197 (484)
T KOG2921|consen 120 LSGIAYFLTSLVITVVVHELGHALAAASEGVQVNG--FGIFIAAIYPGAFVDLDNDHLQSLPSFRALRIFCAGIWHNFVF 197 (484)
T ss_pred cccchhhhhhHHHHHHHHHhhHHHHHHhcCceeee--eEEEEEEEcCchhhhhhhhHHhhcchHHHHHHHhhhHHHHHHH
Confidence 3455554 346678899999999999999999971 100111122366665543211 1234567899999999999
Q ss_pred HHHHHHHHHhcC----CCC--CCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCC
Q 012792 361 GFVLFLVGFIFP----PSD--GIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAG 434 (456)
Q Consensus 361 All~lligl~l~----~~~--~~~l~v~~~~f~~S~L~g~la~l~LG~~l~~g~~i~lhpL~~ag~inLvLtafNLLPig 434 (456)
|+++.+...+++ +.. |.++.+ ...-..|.+.|.. -+..||.+.+-.+..+|- ..-|.-.+-+.+|+=|-.
T Consensus 198 allc~lal~~lpViLsPfya~g~gV~V-tev~~~Spl~gpr-GL~vgdvitsldgcpV~~--v~dW~ecl~tsl~~~ngy 273 (484)
T KOG2921|consen 198 ALLCVLALFLLPVILSPFYAHGEGVTV-TEVPSVSPLFGPR-GLSVGDVITSLDGCPVHK--VSDWLECLATSLDKENGY 273 (484)
T ss_pred HHHHHHHHHhhhHhhchhhhcCceEEE-EeccccCCCcCcc-cCCccceEEecCCcccCC--HHHHHHHHHhhcccCCCe
Confidence 998876655432 210 111110 0011123333322 234555544433444442 345666677778887777
Q ss_pred CCchHHHH
Q 012792 435 ELDGGRIA 442 (456)
Q Consensus 435 PLDGGRIL 442 (456)
--|+.-+.
T Consensus 274 cvsas~vq 281 (484)
T KOG2921|consen 274 CVSASLVQ 281 (484)
T ss_pred eecHHHHh
Confidence 76665443
No 17
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=96.13 E-value=0.017 Score=58.79 Aligned_cols=82 Identities=28% Similarity=0.404 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCccCCcc--ccc-------------ccceeeeeEEEEcCcccc-----------
Q 012792 288 LPGALVTALVIGVHELGHILAAKSTGVELGVPY--FVP-------------SWQIGSFGAITRIRNIVS----------- 341 (456)
Q Consensus 288 lp~aL~Ll~iL~iHElGHalaAr~~Gvkvs~P~--fIP-------------~i~Lg~FGavi~~~s~~~----------- 341 (456)
+.+.+.+...+.+||+||+|.||++|+++.... |-| .+...+.|+++.+.....
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 345556677889999999999999999997421 001 011233444432211110
Q ss_pred -------CccceeEEEEchHHHHHHHHHHHHHHHH
Q 012792 342 -------KREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (456)
Q Consensus 342 -------~R~alf~IAlAGPLanfllAll~lligl 369 (456)
+-+..+.+.+|||++|++.++...+...
T Consensus 86 ~~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 86 PRAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred hhhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 1133678999999999998877766554
No 18
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=84.15 E-value=0.63 Score=40.26 Aligned_cols=68 Identities=22% Similarity=0.270 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCccCCcccccccce-eeeeEEEEcCccccCccceeEEEEchHHHHHHHHHHHHHHHHh
Q 012792 295 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQI-GSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFI 370 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvkvs~P~fIP~i~L-g~FGavi~~~s~~~~R~alf~IAlAGPLanfllAll~lligl~ 370 (456)
++.+.+||+-|++..+.+|.+... .+.. +..+..-...+ .+-.|..+.+...-|+ ++++++.++++..
T Consensus 4 ~~~~~~HEliH~l~~~~~~~~~~~-----~~g~~~~~~~~~~~~~-~~~sk~~~~i~~l~P~--ivl~~~~~~~~~~ 72 (111)
T PF11667_consen 4 IVLIPLHELIHGLFFKLFGKKPKV-----KFGFKWKLGPFYATCN-EPISKWRFIIILLAPF--IVLTILPLILGFF 72 (111)
T ss_pred EeeHHHHHHHHHHHHHHhCCCCce-----EEEEEeeeEEEEEecC-cEEeHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 345689999999999999996531 1111 11122221222 2334456666666675 4555555544443
No 19
>PF00413 Peptidase_M10: Matrixin This Prosite motif covers only the active site.; InterPro: IPR001818 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M10 (clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Sequences having this domain are extracellular metalloproteases, such as collagenase and stromelysin, which degrade the extracellular matrix, are known as matrixins. They are zinc-dependent, calcium-activated proteases synthesised as inactive precursors (zymogens), which are proteolytically cleaved to yield the active enzyme [, ]. All matrixins and related proteins possess 2 domains: an N-terminal domain, and a zinc-binding active site domain. The N-terminal domain peptide, cleaved during the activation step, includes a conserved PRCGVPDV octapeptide, known as the cysteine switch, whose Cys residue chelates the active site zinc atom, rendering the enzyme inactive [, ]. The active enzyme degrades components of the extracellular matrix, playing a role in the initial steps of tissue remodelling during morphogenesis, wound healing, angiogenesis and tumour invasion [, ].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0031012 extracellular matrix; PDB: 1Q3A_C 3V96_B 1HV5_D 1CXV_A 1SRP_A 1FBL_A 1ZVX_A 1JH1_A 1I76_A 2OY4_A ....
Probab=70.04 E-value=2.6 Score=37.29 Aligned_cols=21 Identities=24% Similarity=0.436 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHcCCcc
Q 012792 296 LVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 296 ~iL~iHElGHalaAr~~Gvkv 316 (456)
..+++||+||++=-.+-..+-
T Consensus 106 ~~v~~HEiGHaLGL~H~~~~~ 126 (154)
T PF00413_consen 106 QSVAIHEIGHALGLDHSNDPN 126 (154)
T ss_dssp HHHHHHHHHHHTTBESSSSTT
T ss_pred hhhhhhccccccCcCcCCCcc
Confidence 468899999998665554443
No 20
>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=67.44 E-value=3.3 Score=37.46 Aligned_cols=22 Identities=32% Similarity=0.364 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCcc
Q 012792 295 ALVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvkv 316 (456)
+..+++||+||++=.++...+-
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~ 125 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRP 125 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCc
Confidence 4578999999999988887775
No 21
>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=60.08 E-value=5.8 Score=35.61 Aligned_cols=23 Identities=26% Similarity=0.244 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHcCCcc
Q 012792 294 TALVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~~Gvkv 316 (456)
-....++||+||++=-.+-..+.
T Consensus 93 ~~~~~~~HEiGHaLGL~H~~~~~ 115 (165)
T cd04268 93 RLRNTAEHELGHALGLRHNFAAS 115 (165)
T ss_pred HHHHHHHHHHHHHhcccccCcCC
Confidence 45678899999998777666543
No 22
>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=59.11 E-value=4.2 Score=36.87 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCccC
Q 012792 295 ALVIGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvkvs 317 (456)
+..+++||+||++=-.+-..+.+
T Consensus 107 ~~~~~~HEiGHaLGL~H~~~~~~ 129 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSSDPDS 129 (157)
T ss_pred HHHHHHHHhccccccCCCCCCcC
Confidence 45788999999987766555443
No 23
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=55.55 E-value=11 Score=31.18 Aligned_cols=18 Identities=28% Similarity=0.233 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 012792 297 VIGVHELGHILAAKSTGV 314 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gv 314 (456)
.+++||++|.|.....+-
T Consensus 27 ~~l~HE~~H~~~~~~~~~ 44 (128)
T PF13485_consen 27 RVLAHELAHQWFGNYFGG 44 (128)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 678999999999999874
No 24
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=50.55 E-value=23 Score=42.00 Aligned_cols=20 Identities=25% Similarity=0.290 Sum_probs=11.3
Q ss_pred ccccccccccCCCCcccccc
Q 012792 4 TTTFRGNLSLLPHCSSCCDI 23 (456)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~ 23 (456)
.+||-|.-..+--|++-.+.
T Consensus 1353 iaTi~v~R~~~Dlct~~~D~ 1372 (1516)
T KOG1832|consen 1353 IATIPVDRCLLDLCTEPTDS 1372 (1516)
T ss_pred ceeeecccchhhhhcCCccc
Confidence 45555555556667665443
No 25
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=49.64 E-value=9.3 Score=37.80 Aligned_cols=55 Identities=27% Similarity=0.339 Sum_probs=39.0
Q ss_pred eeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEec-CCCCCcEEE
Q 012792 173 TFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVN-PEDDKPVAV 231 (456)
Q Consensus 173 tF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~-~~~~kPv~~ 231 (456)
..|+|++..-.=-+.|.||= |.|.++|.+|+.+= -+++|+|++-=- .++=||+-|
T Consensus 159 is~atgi~~~~mi~w~ign~-G~~~~a~gtVs~k~---~~~~YrV~i~WVd~eGWkP~kv 214 (217)
T PF07423_consen 159 ISYATGISEDNMIVWFIGNN-GSPQKAIGTVSDKD---TGKKYRVYIEWVDNEGWKPVKV 214 (217)
T ss_pred HHHhhCCChhheEEEhhhcC-CcccceeEEeccCC---CCceEEEEEEEecCCCccceee
Confidence 36889988877889999997 77799999987653 356899974221 122277743
No 26
>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=48.94 E-value=9.5 Score=35.49 Aligned_cols=23 Identities=30% Similarity=0.439 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCccC
Q 012792 295 ALVIGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvkvs 317 (456)
....++||+||++=-++-+....
T Consensus 113 ~~~t~~HEiGHaLGL~H~~~~~~ 135 (186)
T cd04277 113 GYQTIIHEIGHALGLEHPGDYNG 135 (186)
T ss_pred hHHHHHHHHHHHhcCCCCCcCCC
Confidence 34678999999998877666654
No 27
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=48.44 E-value=18 Score=35.81 Aligned_cols=25 Identities=32% Similarity=0.417 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcc
Q 012792 291 ALVTALVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 291 aL~Ll~iL~iHElGHalaAr~~Gvkv 316 (456)
++..+..++.||+||++... +++++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~-~~lPv 112 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDD-LDLPV 112 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHH-hcCCc
Confidence 45566778999999999875 34444
No 28
>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=48.04 E-value=9 Score=35.52 Aligned_cols=15 Identities=33% Similarity=0.275 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHH
Q 012792 296 LVIGVHELGHILAAK 310 (456)
Q Consensus 296 ~iL~iHElGHalaAr 310 (456)
.-.++||+||++=-+
T Consensus 70 g~TltHEvGH~LGL~ 84 (154)
T PF05572_consen 70 GKTLTHEVGHWLGLY 84 (154)
T ss_dssp SHHHHHHHHHHTT--
T ss_pred ccchhhhhhhhhccc
Confidence 367899999987544
No 29
>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=47.51 E-value=9.7 Score=33.56 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHcCCccC
Q 012792 298 IGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 298 L~iHElGHalaAr~~Gvkvs 317 (456)
+++||+||++-..+-..+-.
T Consensus 89 ~~~HEigHaLGl~H~~~~~d 108 (140)
T smart00235 89 VAAHELGHALGLYHEQSRSD 108 (140)
T ss_pred cHHHHHHHHhcCCcCCCCCc
Confidence 78999999997665555543
No 30
>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=46.41 E-value=16 Score=35.18 Aligned_cols=18 Identities=33% Similarity=0.316 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 012792 297 VIGVHELGHILAAKSTGV 314 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gv 314 (456)
.+.+||.||+++|...+.
T Consensus 30 ~~A~HEAGhAvva~~l~~ 47 (213)
T PF01434_consen 30 RIAYHEAGHAVVAYLLPP 47 (213)
T ss_dssp HHHHHHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 577999999999999874
No 31
>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=46.39 E-value=14 Score=36.52 Aligned_cols=29 Identities=31% Similarity=0.339 Sum_probs=20.5
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Q 012792 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVE 315 (456)
Q Consensus 284 l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvk 315 (456)
++.|+|-. +..++++||++|+|. +..|.+
T Consensus 84 vl~GLPrl--l~gsiLAHE~mHa~L-rl~g~~ 112 (212)
T PF12315_consen 84 VLYGLPRL--LTGSILAHELMHAWL-RLNGFP 112 (212)
T ss_pred EECCCCHH--HHhhHHHHHHHHHHh-cccCCC
Confidence 44566643 446899999999998 556644
No 32
>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=46.22 E-value=10 Score=33.88 Aligned_cols=22 Identities=27% Similarity=0.215 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHcCCc
Q 012792 294 TALVIGVHELGHILAAKSTGVE 315 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~~Gvk 315 (456)
....+++||+||++=.++-..+
T Consensus 95 ~~~~~~~HElGH~LGl~H~~~~ 116 (167)
T cd00203 95 EGAQTIAHELGHALGFYHDHDR 116 (167)
T ss_pred cchhhHHHHHHHHhCCCccCcC
Confidence 3456789999999987766553
No 33
>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=45.93 E-value=14 Score=34.41 Aligned_cols=12 Identities=50% Similarity=0.717 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||..
T Consensus 90 ~aVlaHElgH~~ 101 (226)
T PF01435_consen 90 AAVLAHELGHIK 101 (226)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 368899999986
No 34
>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=45.43 E-value=13 Score=30.55 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHcC
Q 012792 297 VIGVHELGHILAAKSTG 313 (456)
Q Consensus 297 iL~iHElGHalaAr~~G 313 (456)
..++||+||++.-....
T Consensus 44 f~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 44 FTLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHhhhccc
Confidence 36789999999766553
No 35
>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=42.15 E-value=16 Score=34.62 Aligned_cols=21 Identities=24% Similarity=0.251 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHcCCcc
Q 012792 296 LVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 296 ~iL~iHElGHalaAr~~Gvkv 316 (456)
...++||+||++=..+-.-+.
T Consensus 93 ~~~i~HElgHaLG~~HEh~rp 113 (198)
T cd04327 93 SRVVLHEFGHALGFIHEHQSP 113 (198)
T ss_pred HHHHHHHHHHHhcCcccccCC
Confidence 357889999998765544443
No 36
>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=42.00 E-value=13 Score=34.61 Aligned_cols=21 Identities=33% Similarity=0.414 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 012792 295 ALVIGVHELGHILAAKSTGVE 315 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvk 315 (456)
-..+++||+||.+=|.+=+..
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 346889999999999986665
No 37
>PF14891 Peptidase_M91: Effector protein
Probab=41.98 E-value=17 Score=34.08 Aligned_cols=16 Identities=31% Similarity=0.299 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 012792 296 LVIGVHELGHILAAKS 311 (456)
Q Consensus 296 ~iL~iHElGHalaAr~ 311 (456)
++++.|||+|++-+..
T Consensus 104 ~v~L~HEL~HA~~~~~ 119 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMN 119 (174)
T ss_pred HHHHHHHHHHHHHHHC
Confidence 5788999999997654
No 38
>PTZ00429 beta-adaptin; Provisional
Probab=41.17 E-value=25 Score=40.59 Aligned_cols=32 Identities=28% Similarity=0.251 Sum_probs=15.8
Q ss_pred ChhhhhcccCCCCCCCCCCcccCCCCCCCccC
Q 012792 75 NDKEKEVHDGQENQPATASDQEDDKSQPDSQL 106 (456)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (456)
.|||++|+++.++.|++.++...+++..++++
T Consensus 608 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 639 (746)
T PTZ00429 608 LDEEDTEDDDAVELPSTPSMGTQDGSPAPSAA 639 (746)
T ss_pred cccccccchhhccCCCCCCCCCCCCCCCcccc
Confidence 34444444455555665555545544444444
No 39
>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=40.96 E-value=16 Score=34.11 Aligned_cols=21 Identities=33% Similarity=0.286 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 012792 295 ALVIGVHELGHILAAKSTGVE 315 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gvk 315 (456)
..-+++||+||.+=|.+-+..
T Consensus 111 ~~~~~aHElGH~lGa~Hd~~~ 131 (173)
T PF13574_consen 111 GIDTFAHELGHQLGAPHDFDN 131 (173)
T ss_dssp HHHHHHHHHHHHHT---SSSS
T ss_pred eeeeehhhhHhhcCCCCCCCC
Confidence 445689999999999988875
No 40
>KOG3320 consensus 40S ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=39.80 E-value=50 Score=32.13 Aligned_cols=27 Identities=15% Similarity=0.321 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhhCCceEEEEEecC
Q 012792 197 AKTYEKISTRMKNKFGDQYKLFLLVNP 223 (456)
Q Consensus 197 e~~y~~l~~~l~~~fGd~y~lfl~~~~ 223 (456)
.+.|.+|...||.+|+|+|.+|+.+..
T Consensus 74 qki~~~LvreleKKF~gk~Vifia~Rr 100 (192)
T KOG3320|consen 74 QKIQVRLVRELEKKFSGKHVIFIAQRR 100 (192)
T ss_pred HHHHHHHHHHHHHhcCCceEEEEEeee
Confidence 455556666999999999999876654
No 41
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=37.74 E-value=15 Score=31.53 Aligned_cols=14 Identities=36% Similarity=0.423 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHH
Q 012792 297 VIGVHELGHILAAK 310 (456)
Q Consensus 297 iL~iHElGHalaAr 310 (456)
..++||+||.+=+.
T Consensus 109 ~~~~HEiGH~lGl~ 122 (124)
T PF13582_consen 109 DTFAHEIGHNLGLN 122 (124)
T ss_dssp THHHHHHHHHTT--
T ss_pred eEeeehhhHhcCCC
Confidence 67899999987543
No 42
>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=35.22 E-value=27 Score=31.32 Aligned_cols=19 Identities=21% Similarity=0.123 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHc
Q 012792 294 TALVIGVHELGHILAAKST 312 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~~ 312 (456)
.+.-.++||+.|+++-...
T Consensus 59 ~~~~tL~HEm~H~~~~~~~ 77 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVFG 77 (157)
T ss_pred HHHHHHHHHHHHHHhhhcc
Confidence 4557889999999996664
No 43
>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=34.27 E-value=24 Score=32.55 Aligned_cols=10 Identities=80% Similarity=1.291 Sum_probs=8.9
Q ss_pred HHHHHHHHHH
Q 012792 298 IGVHELGHIL 307 (456)
Q Consensus 298 L~iHElGHal 307 (456)
+.+||+||.+
T Consensus 80 IaaHE~GHiL 89 (132)
T PF02031_consen 80 IAAHELGHIL 89 (132)
T ss_dssp HHHHHHHHHH
T ss_pred eeeehhcccc
Confidence 7899999986
No 44
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=33.71 E-value=23 Score=34.84 Aligned_cols=15 Identities=40% Similarity=0.485 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHc
Q 012792 298 IGVHELGHILAAKST 312 (456)
Q Consensus 298 L~iHElGHalaAr~~ 312 (456)
.++||+||++.=+..
T Consensus 75 tlAHELGH~llH~~~ 89 (213)
T COG2856 75 TLAHELGHALLHTDL 89 (213)
T ss_pred HHHHHHhHHHhcccc
Confidence 578999999975543
No 45
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=33.10 E-value=26 Score=31.90 Aligned_cols=20 Identities=25% Similarity=0.280 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHcCCccC
Q 012792 298 IGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 298 L~iHElGHalaAr~~Gvkvs 317 (456)
-+.||++|+|.-|.||.-..
T Consensus 82 TL~HEL~H~WQ~RsYG~i~P 101 (141)
T PHA02456 82 TLAHELNHAWQFRTYGLVQP 101 (141)
T ss_pred HHHHHHHHHHhhhccceeee
Confidence 45899999999999997654
No 46
>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=32.84 E-value=29 Score=32.32 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 012792 295 ALVIGVHELGHILAAKSTGV 314 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gv 314 (456)
.+.+++||+||-+=+.+-+.
T Consensus 131 ~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 131 FAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHhhcCCCcCCC
Confidence 35688999999998876655
No 47
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=32.36 E-value=15 Score=35.43 Aligned_cols=20 Identities=25% Similarity=0.134 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012792 297 VIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkv 316 (456)
-+++||+||.+=|++-+..-
T Consensus 139 ~~~aHEiGH~lGl~H~~~~~ 158 (206)
T PF13583_consen 139 QTFAHEIGHNLGLRHDFDYS 158 (206)
T ss_pred hHHHHHHHHHhcCCCCcccC
Confidence 34889999999999887743
No 48
>PF01447 Peptidase_M4: Thermolysin metallopeptidase, catalytic domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification. ; InterPro: IPR013856 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases that belong to the MEROPS peptidase family M4 (thermolysin family, clan MA(E)). The protein fold of the peptidase domain of thermolysin, is the type example for members of the clan MA. The thermolysin family is composed only of secreted eubacterial endopeptidases. The zinc-binding residues are H-142, H-146 and E-166, with E-143 acting as the catalytic residue. Thermolysin also contains 4 calcium-binding sites, which contribute to its unusual thermostability. The family also includes enzymes from a number of pathogens, including Legionella and Listeria, and the protein pseudolysin, all with a substrate specificity for an aromatic residue in the P1' position. Three-dimensional structure analysis has shown that the enzymes undergo a hinge-bend motion during catalysis. Pseudolysin has a broader specificity, acting on large molecules such as elastin and collagen, possibly due to its wider active site cleft []. This entry represents a domain found in peptidase M4 family members.; GO: 0004222 metalloendopeptidase activity; PDB: 3NQX_A 3NQZ_B 3NQY_B 1BQB_A 1U4G_A 1EZM_A 3DBK_A 1ESP_A 1NPC_A 1LND_E ....
Probab=32.13 E-value=29 Score=32.26 Aligned_cols=13 Identities=31% Similarity=0.345 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHH
Q 012792 297 VIGVHELGHILAA 309 (456)
Q Consensus 297 iL~iHElGHalaA 309 (456)
=+++||++|.++-
T Consensus 137 DVvaHEltHGVte 149 (150)
T PF01447_consen 137 DVVAHELTHGVTE 149 (150)
T ss_dssp HHHHHHHHHHHHH
T ss_pred ceeeecccccccc
Confidence 3789999999863
No 49
>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=31.67 E-value=29 Score=34.26 Aligned_cols=20 Identities=25% Similarity=0.426 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHcC
Q 012792 294 TALVIGVHELGHILAAKSTG 313 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~~G 313 (456)
.+...++||+||-|=+.+=+
T Consensus 166 ~~a~t~AHElGHnlGm~HD~ 185 (244)
T cd04270 166 ESDLVTAHELGHNFGSPHDP 185 (244)
T ss_pred HHHHHHHHHHHHhcCCCCCC
Confidence 35578999999998876444
No 50
>PRK03001 M48 family peptidase; Provisional
Probab=31.03 E-value=30 Score=34.74 Aligned_cols=12 Identities=33% Similarity=0.426 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (283)
T PRK03001 125 RGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHh
Confidence 468899999975
No 51
>PRK03982 heat shock protein HtpX; Provisional
Probab=30.53 E-value=31 Score=34.72 Aligned_cols=12 Identities=42% Similarity=0.362 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||.-
T Consensus 126 ~AVlAHElgHi~ 137 (288)
T PRK03982 126 EGVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHHH
Confidence 468899999974
No 52
>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=30.27 E-value=23 Score=32.88 Aligned_cols=20 Identities=40% Similarity=0.531 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 012792 295 ALVIGVHELGHILAAKSTGV 314 (456)
Q Consensus 295 l~iL~iHElGHalaAr~~Gv 314 (456)
...+++||+||.+-+.+-+.
T Consensus 133 ~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 133 TALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred ehhhhhhhHHhhcCCcCCCC
Confidence 35688999999998887664
No 53
>PRK12462 phosphoserine aminotransferase; Provisional
Probab=30.21 E-value=86 Score=33.18 Aligned_cols=67 Identities=12% Similarity=0.160 Sum_probs=46.2
Q ss_pred cccccCCCChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 012792 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (456)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (456)
....+..+|+|.++++++++.-|. .-+-+++=.+---.+=.++|+.++++|+++|+ +.|.+++++-.
T Consensus 8 F~aGPa~lp~~Vl~~~~~~~~~~~--------~~g~si~eisHRs~~F~~i~~~~~~~Lr~Ll~~P~~y~Vlfl~Gg 76 (364)
T PRK12462 8 FSGGPGALPDTVLEQVRQAVVELP--------ETGLSVLGMSHRSSWFSSLLAQAEADLRDLLGIPDEYGVVFLQGG 76 (364)
T ss_pred ecCCCcCCCHHHHHHHHHHHhccc--------ccCccccccccccHHHHHHHHHHHHHHHHHhCCCCCCeEEEEecc
Confidence 456788999999999997543332 11123333333334568999999999999998 68988777654
No 54
>PF09471 Peptidase_M64: IgA Peptidase M64; InterPro: IPR019026 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This is a family of highly selective metallo-endopeptidases belonging to the MEROPS peptidase family M64 (IgA peptidase, clan MA). The primary structure of the Clostridium ramosum IgA peptidase shows no significant overall similarity to any other known metallo-endopeptidase []. ; PDB: 3P1V_A 4DF9_D.
Probab=30.17 E-value=22 Score=35.97 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHH
Q 012792 296 LVIGVHELGHILAA 309 (456)
Q Consensus 296 ~iL~iHElGHalaA 309 (456)
.-+++||+||.++-
T Consensus 217 ~~v~vHE~GHsf~~ 230 (264)
T PF09471_consen 217 KQVVVHEFGHSFGG 230 (264)
T ss_dssp HHHHHHHHHHHTT-
T ss_pred cceeeeeccccccc
Confidence 35789999998753
No 55
>COG0830 UreF Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
Probab=29.70 E-value=62 Score=32.40 Aligned_cols=31 Identities=32% Similarity=0.444 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchHHHHHHh
Q 012792 415 LVIWAWAGLLINAINSIPAGELDGGRIAFAL 445 (456)
Q Consensus 415 L~~ag~inLvLtafNLLPigPLDGGRIL~Al 445 (456)
+.+....|++.++.=|+|.+|+||=+|+..+
T Consensus 156 ~lya~~~~lv~aavRlipLgQ~~gq~il~~l 186 (229)
T COG0830 156 FLYAWASNLVSAAVRLIPLGQLDGQKILAQL 186 (229)
T ss_pred HHHHHHHHHHHHHHHhcccCcHHHHHHHHHh
Confidence 3455667999999999999999999999876
No 56
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=29.28 E-value=39 Score=30.63 Aligned_cols=18 Identities=22% Similarity=-0.023 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012792 294 TALVIGVHELGHILAAKS 311 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~ 311 (456)
.+.-++.||++|+++-..
T Consensus 58 ~l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 58 RLRETLLHELCHAALYLF 75 (146)
T ss_pred HHHhhHHHHHHHHHHHHh
Confidence 334588999999999874
No 57
>PRK11037 hypothetical protein; Provisional
Probab=28.41 E-value=1.4e+02 Score=25.55 Aligned_cols=65 Identities=20% Similarity=0.386 Sum_probs=42.7
Q ss_pred ccCCCChhHH-----HHhhcccccceeeeeccccccCceEEEEeccC----C----chHHHHHHHHHHHHhhhCCceEE
Q 012792 152 EYIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR----G----QAAKTYEKISTRMKNKFGDQYKL 217 (456)
Q Consensus 152 ~~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR----~----~~e~~y~~l~~~l~~~fGd~y~l 217 (456)
+..+|++++| +.||+.===+..-.+|++|-..+..+|||..= | +.-.||.. =+-|.-.+..+|.|
T Consensus 4 ~~~~I~~~~LL~~AN~iI~~Hedyi~GM~a~~Veqk~~VLVFkGeyFLD~~GlPT~KtTAvFNM-FK~LAh~LS~~y~L 81 (83)
T PRK11037 4 ETQPIDRETLLLEANKIIREHEDYLAGMRATDVEQKNGVLVFRGEYFLDEQGLPTAKTTAVFNM-FKHLAHVLSEKYHL 81 (83)
T ss_pred CCcccCHHHHHHHHHHHHHhhHHHhcccccceeeeeCCEEEEecceeecCCCCCCccchHHHHH-HHHHHHHhCcceec
Confidence 4567888888 46665333344568999999999999999832 2 22445543 33455556777876
No 58
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=27.40 E-value=39 Score=33.22 Aligned_cols=12 Identities=50% Similarity=0.672 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.+++.||+||..
T Consensus 158 ~aVlaHElgHi~ 169 (302)
T COG0501 158 EAVLAHELGHIK 169 (302)
T ss_pred HHHHHHHHHHHh
Confidence 368899999974
No 59
>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=26.93 E-value=34 Score=33.82 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCc
Q 012792 291 ALVTALVIGVHELGHILAAKSTGVE 315 (456)
Q Consensus 291 aL~Ll~iL~iHElGHalaAr~~Gvk 315 (456)
..-+..-+++||+||.+--|+-...
T Consensus 129 ~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 129 SVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred chhHHHHHHHHHhhhhccccccCcC
Confidence 3345567899999999988775433
No 60
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=26.83 E-value=37 Score=28.21 Aligned_cols=12 Identities=33% Similarity=0.650 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 012792 297 VIGVHELGHILA 308 (456)
Q Consensus 297 iL~iHElGHala 308 (456)
.++.||++|.+-
T Consensus 63 ~llaHEl~Hv~Q 74 (79)
T PF13699_consen 63 ALLAHELAHVVQ 74 (79)
T ss_pred hhHhHHHHHHHh
Confidence 578999999874
No 61
>PRK04860 hypothetical protein; Provisional
Probab=26.58 E-value=61 Score=30.59 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHcC
Q 012792 293 VTALVIGVHELGHILAAKSTG 313 (456)
Q Consensus 293 ~Ll~iL~iHElGHalaAr~~G 313 (456)
..+.-++.||++|+++=..+|
T Consensus 61 ~~l~~~v~HEl~H~~~~~~~g 81 (160)
T PRK04860 61 AFIDEVVPHELAHLLVYQLFG 81 (160)
T ss_pred HHHHhHHHHHHHHHHHHHHcC
Confidence 455678899999999999988
No 62
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=26.36 E-value=39 Score=33.72 Aligned_cols=14 Identities=29% Similarity=0.729 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHH
Q 012792 296 LVIGVHELGHILAA 309 (456)
Q Consensus 296 ~iL~iHElGHalaA 309 (456)
+.+.+||.||++.=
T Consensus 90 vaVAAHEvGHAiQ~ 103 (222)
T PF04298_consen 90 VAVAAHEVGHAIQH 103 (222)
T ss_pred HHHHHHHHhHHHhc
Confidence 46789999999863
No 63
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=26.18 E-value=1.1e+02 Score=31.87 Aligned_cols=61 Identities=16% Similarity=0.312 Sum_probs=43.3
Q ss_pred hhHHHHhhcccccc-eeeeeccccccCceEEEEeccCC--chHHHHHHHHHHHHhhhCCceEEEEEec
Q 012792 158 KETIDILKDQVFGF-DTFFVTNQEPYEGGVLFKGNLRG--QAAKTYEKISTRMKNKFGDQYKLFLLVN 222 (456)
Q Consensus 158 ~edl~~ik~~~Fg~-dtF~~t~~~~~~~gvi~rGnLR~--~~e~~y~~l~~~l~~~fGd~y~lfl~~~ 222 (456)
.|.+++||. .||= .+||+||+-.--.|--+-++.-. +..+.++.+...|++. | |.+|+++-
T Consensus 218 ~~q~e~vqs-a~g~~k~~~v~EtGWPS~G~~~G~a~pS~anq~~~~~~i~~~~~~~-G--~d~fvfeA 281 (305)
T COG5309 218 LEQLERVQS-ACGTKKTVWVTETGWPSDGRTYGSAVPSVANQKIAVQEILNALRSC-G--YDVFVFEA 281 (305)
T ss_pred HHHHHHHHH-hcCCCccEEEeeccCCCCCCccCCcCCChhHHHHHHHHHHhhhhcc-C--ccEEEeee
Confidence 677999998 7776 99999998655555554444433 3467888888888884 7 66665554
No 64
>PRK04897 heat shock protein HtpX; Provisional
Probab=26.08 E-value=42 Score=34.22 Aligned_cols=12 Identities=33% Similarity=0.274 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||.-
T Consensus 138 ~aVlAHElgHi~ 149 (298)
T PRK04897 138 EGVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHHh
Confidence 368899999964
No 65
>PF01432 Peptidase_M3: Peptidase family M3 This Prosite motif covers only the active site. This family belongs to family M3 of the peptidase classification.; InterPro: IPR001567 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M3 (clan MA(E)), subfamilies M3A and M3B. The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. The Thimet oligopeptidase family, is a large family of archaeal, bacterial and eukaryotic oligopeptidases that cleave medium sized peptides. The group contains: mitochondrial intermediate peptidase (3.4.24.59 from EC) Neurolysin, mitochondrial precursor, (3.4.24.16 from EC) Thimet oligopeptidase (3.4.24.15 from EC) Dipeptidyl carboxypeptidase (3.4.15.5 from EC) Oligopeptidase A (3.4.24.70 from EC) Oligoendopeptidase F ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QR4_B 3CE2_A 1Y79_1 2H1J_A 2H1N_A 2O36_A 1S4B_P 2O3E_A 1I1I_P.
Probab=25.73 E-value=42 Score=35.54 Aligned_cols=20 Identities=20% Similarity=0.288 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012792 297 VIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkv 316 (456)
..++||+||++-...-..+.
T Consensus 244 ~tLfHE~GHa~H~~ls~~~~ 263 (458)
T PF01432_consen 244 ETLFHEFGHAMHSLLSRTKY 263 (458)
T ss_dssp HHHHHHHHHHHHHHHCCCSS
T ss_pred HHHHHHHhHHHHHHHhcccc
Confidence 57899999999988777664
No 66
>cd04280 ZnMc_astacin_like Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to yield the active protease domain, which is consequently always found at the N-terminus in multi-domain architectures. This family includes: astacin, a digestive enzyme from Crayfish; meprin, a multiple domain membrane component that is constructed from a homologous alpha and beta chain, proteins involved in (bone) morphogenesis, tolloid from drosophila, and the sea urchin SPAN protein, which may also play a role in development.
Probab=25.69 E-value=36 Score=32.05 Aligned_cols=20 Identities=30% Similarity=0.105 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012792 297 VIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkv 316 (456)
..++||+||++-..+-..+.
T Consensus 76 g~v~HE~~HalG~~HEh~R~ 95 (180)
T cd04280 76 GTIVHELMHALGFYHEQSRP 95 (180)
T ss_pred chhHHHHHHHhcCcchhccc
Confidence 57899999997665554444
No 67
>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=25.63 E-value=39 Score=34.94 Aligned_cols=16 Identities=31% Similarity=0.422 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHc
Q 012792 297 VIGVHELGHILAAKST 312 (456)
Q Consensus 297 iL~iHElGHalaAr~~ 312 (456)
..++||+||++-....
T Consensus 224 ~tl~HE~GHa~h~~~~ 239 (427)
T cd06459 224 FTLAHELGHAFHSYLS 239 (427)
T ss_pred HHHHHHhhHHHHHHHH
Confidence 4678999998755443
No 68
>PLN02452 phosphoserine transaminase
Probab=25.35 E-value=1.2e+02 Score=31.72 Aligned_cols=67 Identities=9% Similarity=0.186 Sum_probs=47.7
Q ss_pred cccccCCCChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 012792 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (456)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (456)
....+..+|++.+++++.+++-|. .-+-+++-.+---.+=.++++.++++|++.++ +.|.+++++-.
T Consensus 11 f~pGP~~lp~~Vl~~~~~~~~~~~--------~~g~s~~~~sHRs~~f~~i~~~~~~~L~~l~~~p~~y~v~~l~Gs 79 (365)
T PLN02452 11 FSAGPATLPANVLAKAQAELYNWE--------GSGMSVMEMSHRGKEFLSIIQKAEADLRELLDIPDNYEVLFLQGG 79 (365)
T ss_pred eeCCCCCCCHHHHHHHHHHHhccc--------ccCccccccCCCchHHHHHHHHHHHHHHHHhCCCCCceEEEEeCc
Confidence 456788999999999987554432 22334444444444567999999999999997 68988777654
No 69
>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=25.04 E-value=93 Score=25.12 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=25.1
Q ss_pred ccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCc
Q 012792 169 FGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQ 214 (456)
Q Consensus 169 Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~ 214 (456)
.-+||||+++.. |. ..+++..++|++.|++.+|+-
T Consensus 40 ~v~D~F~V~d~~---------~~--~~~~~~~~~l~~~L~~~L~~~ 74 (76)
T cd04927 40 RVLDLFFITDAR---------EL--LHTKKRREETYDYLRAVLGDS 74 (76)
T ss_pred EEEEEEEEeCCC---------CC--CCCHHHHHHHHHHHHHHHchh
Confidence 467999997531 11 245667788999999999863
No 70
>PRK03072 heat shock protein HtpX; Provisional
Probab=24.76 E-value=46 Score=33.80 Aligned_cols=12 Identities=33% Similarity=0.362 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||..
T Consensus 128 ~aVlAHElgHi~ 139 (288)
T PRK03072 128 RGVLGHELSHVY 139 (288)
T ss_pred HHHHHHHHHHHh
Confidence 468899999963
No 71
>PRK01345 heat shock protein HtpX; Provisional
Probab=24.71 E-value=46 Score=34.39 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 012792 296 LVIGVHELGHIL 307 (456)
Q Consensus 296 ~iL~iHElGHal 307 (456)
.++++||+||..
T Consensus 125 ~aVlAHElgHi~ 136 (317)
T PRK01345 125 AGVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHHH
Confidence 468899999985
No 72
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=24.63 E-value=33 Score=31.54 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHH
Q 012792 294 TALVIGVHELGHIL 307 (456)
Q Consensus 294 Ll~iL~iHElGHal 307 (456)
++..+++||+||.+
T Consensus 108 ~vthvliHEIgHhF 121 (136)
T COG3824 108 QVTHVLIHEIGHHF 121 (136)
T ss_pred Hhhhhhhhhhhhhc
Confidence 55678999999975
No 73
>PRK02391 heat shock protein HtpX; Provisional
Probab=24.16 E-value=48 Score=33.92 Aligned_cols=11 Identities=36% Similarity=0.582 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 012792 296 LVIGVHELGHI 306 (456)
Q Consensus 296 ~iL~iHElGHa 306 (456)
.++++||+||.
T Consensus 134 ~aVlaHElgHi 144 (296)
T PRK02391 134 EAVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHHH
Confidence 36889999995
No 74
>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=24.08 E-value=54 Score=30.72 Aligned_cols=21 Identities=43% Similarity=0.494 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 012792 294 TALVIGVHELGHILAAKSTGV 314 (456)
Q Consensus 294 Ll~iL~iHElGHalaAr~~Gv 314 (456)
.++.+++||+||.+=+.+-+.
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 445678999999988887777
No 75
>PRK05457 heat shock protein HtpX; Provisional
Probab=23.64 E-value=50 Score=33.56 Aligned_cols=11 Identities=36% Similarity=0.573 Sum_probs=9.3
Q ss_pred HHHHHHHHHHH
Q 012792 296 LVIGVHELGHI 306 (456)
Q Consensus 296 ~iL~iHElGHa 306 (456)
.++++||+||.
T Consensus 135 ~aVlAHElgHi 145 (284)
T PRK05457 135 EAVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHHH
Confidence 36889999996
No 76
>cd04283 ZnMc_hatching_enzyme Zinc-dependent metalloprotease, hatching enzyme-like subfamily. Hatching enzymes are secreted by teleost embryos to digest the egg envelope or chorion. In some teleosts, the hatching enzyme may be a system consisting of two evolutionary related metalloproteases, high choriolytic enzyme and low choriolytic enzyme (HCE and LCE), which may have different substrate specificities and cooperatively digest the chorion.
Probab=23.29 E-value=45 Score=31.99 Aligned_cols=21 Identities=29% Similarity=0.102 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHcCCccC
Q 012792 297 VIGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkvs 317 (456)
..++||++|++-..+---+..
T Consensus 79 G~i~HEl~HaLG~~HEhsRpD 99 (182)
T cd04283 79 GIIQHELLHALGFYHEQTRSD 99 (182)
T ss_pred chHHHHHHHHhCCcccccccc
Confidence 478999999987766555543
No 77
>PF06167 Peptidase_M90: Glucose-regulated metallo-peptidase M90; InterPro: IPR010384 MtfA (earlier known as YeeI) is a transcription factor that binds Mlc (make large colonies), itself a repressor of glucose and hence a protein important in regulation of the phosphoenolpyruvate:glucose-phosphotransferase (PtsG) system, the major glucose transporter in Escherichia coli. Mlc is a repressor of ptsG, and MtfA is found to bind and inactivate Mlc with high affinity []. The membrane-bound protein EIICBGlc encoded by the ptsG gene is the major glucose transporter in E. coli. ; PDB: 3DL1_A 3KHI_A.
Probab=22.61 E-value=49 Score=33.33 Aligned_cols=14 Identities=29% Similarity=0.498 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHH
Q 012792 297 VIGVHELGHILAAK 310 (456)
Q Consensus 297 iL~iHElGHalaAr 310 (456)
=+++||++|.+-..
T Consensus 156 NVviHEfAH~LD~~ 169 (253)
T PF06167_consen 156 NVVIHEFAHKLDME 169 (253)
T ss_dssp -HHHHHHHHHHHCT
T ss_pred chHHHHHHHHHHhh
Confidence 47899999999664
No 78
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=22.01 E-value=1.3e+02 Score=28.60 Aligned_cols=33 Identities=24% Similarity=0.215 Sum_probs=23.3
Q ss_pred chHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcc
Q 012792 280 NLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 280 ~~~~l~~glp~aL~Ll~iL~iHElGHalaAr~~Gvkv 316 (456)
||.++.. ....++.-++-||++|+.+=..+| ++
T Consensus 49 NP~ll~e---n~~~f~~~vV~HELaHl~ly~~~g-r~ 81 (156)
T COG3091 49 NPKLLEE---NGEDFIEQVVPHELAHLHLYQEFG-RY 81 (156)
T ss_pred CHHHHHH---ccHHHHHHHHHHHHHHHHHHHHcC-CC
Confidence 5555443 233456678899999999998888 44
No 79
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=21.87 E-value=55 Score=31.42 Aligned_cols=21 Identities=33% Similarity=0.452 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHcCCcc
Q 012792 296 LVIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 296 ~iL~iHElGHalaAr~~Gvkv 316 (456)
+.+++||+||-+-+.+-|...
T Consensus 146 ~~~~AHElGH~lG~~HD~~~~ 166 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGSPP 166 (220)
T ss_pred HHHHHHHHHHHhCCCCCCCCC
Confidence 478899999999888776553
No 80
>PRK01265 heat shock protein HtpX; Provisional
Probab=21.59 E-value=57 Score=34.05 Aligned_cols=11 Identities=45% Similarity=0.827 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 012792 296 LVIGVHELGHI 306 (456)
Q Consensus 296 ~iL~iHElGHa 306 (456)
.++++||+||.
T Consensus 141 ~aVlAHElgHi 151 (324)
T PRK01265 141 KAVAGHELGHL 151 (324)
T ss_pred HHHHHHHHHHH
Confidence 36889999996
No 81
>TIGR02289 M3_not_pepF oligoendopeptidase, M3 family. This family consists of probable oligoendopeptidases in the M3 family, related to lactococcal PepF and group B streptococcal PepB (TIGR00181) but in a distinct clade with considerable sequence differences. The likely substrate is small peptides and not whole proteins, as with PepF, but members are not characterized and the activity profile may differ. Several bacteria have both a member of this family and a member of the PepF family.
Probab=21.39 E-value=53 Score=36.07 Aligned_cols=14 Identities=29% Similarity=0.363 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHH
Q 012792 297 VIGVHELGHILAAK 310 (456)
Q Consensus 297 iL~iHElGHalaAr 310 (456)
..++||+||++-..
T Consensus 339 ~TL~HElGHa~H~~ 352 (549)
T TIGR02289 339 DVLTHEAGHAFHVY 352 (549)
T ss_pred HHHHHHhhHHHHHH
Confidence 56799999998443
No 82
>PRK02870 heat shock protein HtpX; Provisional
Probab=21.30 E-value=58 Score=34.13 Aligned_cols=11 Identities=45% Similarity=0.673 Sum_probs=9.5
Q ss_pred HHHHHHHHHHH
Q 012792 296 LVIGVHELGHI 306 (456)
Q Consensus 296 ~iL~iHElGHa 306 (456)
.++++||+||.
T Consensus 174 ~aVlAHELgHi 184 (336)
T PRK02870 174 QAVMAHELSHI 184 (336)
T ss_pred HHHHHHHHHHH
Confidence 46889999998
No 83
>cd04281 ZnMc_BMP1_TLD Zinc-dependent metalloprotease; BMP1/TLD-like subfamily. BMP1 (Bone morphogenetic protein 1) and TLD (tolloid)-like metalloproteases play vital roles in extracellular matrix formation, by cleaving precursor proteins such as enzymes, structural proteins, and proteins involved in the mineralization of the extracellular matrix. The drosophila protein tolloid and its Xenopus homologue xolloid cleave and inactivate Sog and chordin, respectively, which are inhibitors of Dpp (the Drosophila decapentaplegic gene product) and its homologue BMP4, involved in dorso-ventral patterning.
Probab=21.18 E-value=51 Score=32.02 Aligned_cols=20 Identities=35% Similarity=0.401 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012792 297 VIGVHELGHILAAKSTGVEL 316 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkv 316 (456)
..++||++|++-..+---+.
T Consensus 89 Gti~HEl~HaLGf~HEhsRp 108 (200)
T cd04281 89 GIVVHELGHVIGFWHEHTRP 108 (200)
T ss_pred chHHHHHHHHhcCcchhccc
Confidence 47899999998655544443
No 84
>PF01400 Astacin: Astacin (Peptidase family M12A) This Prosite motif covers only the active site.; InterPro: IPR001506 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12A (astacin family, clan MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The astacin () family of metalloendopeptidases encompasses a range of proteins found in hydra to humans, in mature and developmental systems []. Their functions include activation of growth factors, degradation of polypeptides, and processing of extracellular proteins []. The proteins are synthesised with N-terminal signal and pro-enzyme sequences, and many contain multiple domains C-terminal to the protease domain. They are either secreted from cells, or are associated with the plasma membrane. The astacin molecule adopts a kidney shape, with a deep active-site cleft between its N- and C-terminal domains []. The zinc ion, which lies at the bottom of the cleft, exhibits a unique penta-coordinated mode of binding, involving 3 histidine residues, a tyrosine and a water molecule (which is also bound to the carboxylate side chain of Glu93) []. The N-terminal domain comprises 2 alpha-helices and a 5-stranded beta-sheet. The overall topology of this domain is shared by the archetypal zinc-endopeptidase thermolysin. Astacin protease domains also share common features with serralysins, matrix metalloendopeptidases, and snake venom proteases; they cleave peptide bonds in polypeptides such as insulin B chain and bradykinin, and in proteins such as casein and gelatin; and they have arylamidase activity [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3LQB_A 3EDH_A 3EDG_A 3EDI_A 1IAE_A 1IAB_A 1IAA_A 1AST_A 1IAC_A 1QJJ_A ....
Probab=20.82 E-value=57 Score=30.95 Aligned_cols=21 Identities=29% Similarity=0.200 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHcCCccC
Q 012792 297 VIGVHELGHILAAKSTGVELG 317 (456)
Q Consensus 297 iL~iHElGHalaAr~~Gvkvs 317 (456)
..++||++|++=..+--.+..
T Consensus 81 ~~i~HEl~HaLG~~HEh~RpD 101 (191)
T PF01400_consen 81 GTILHELGHALGFWHEHQRPD 101 (191)
T ss_dssp HHHHHHHHHHHTB--GGGSTT
T ss_pred cchHHHHHHHHhhhhhhhccc
Confidence 367999999987666555544
No 85
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=20.82 E-value=71 Score=32.96 Aligned_cols=16 Identities=25% Similarity=0.285 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 012792 296 LVIGVHELGHILAAKS 311 (456)
Q Consensus 296 ~iL~iHElGHalaAr~ 311 (456)
..+++||+||.+-...
T Consensus 171 ayVlAHEyGHHVQ~l~ 186 (292)
T PF04228_consen 171 AYVLAHEYGHHVQNLL 186 (292)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3478999999987653
No 86
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=20.52 E-value=56 Score=35.54 Aligned_cols=15 Identities=33% Similarity=0.452 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHH
Q 012792 295 ALVIGVHELGHILAA 309 (456)
Q Consensus 295 l~iL~iHElGHalaA 309 (456)
+.++++||+||.---
T Consensus 280 l~AVl~HELGHW~~~ 294 (428)
T KOG2719|consen 280 LVAVLAHELGHWKLN 294 (428)
T ss_pred HHHHHHHHhhHHHHh
Confidence 457899999997543
No 87
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=20.26 E-value=71 Score=36.07 Aligned_cols=29 Identities=17% Similarity=0.229 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHcC--CccCCcccccc
Q 012792 296 LVIGVHELGHILAAKSTG--VELGVPYFVPS 324 (456)
Q Consensus 296 ~iL~iHElGHalaAr~~G--vkvs~P~fIP~ 324 (456)
-.+..||.||++++..+. +++....++|.
T Consensus 409 ~~~a~he~gha~~~~~~~~~~~~~~v~i~pr 439 (644)
T PRK10733 409 ESTAYHEAGHAIIGRLVPEHDPVHKVTIIPR 439 (644)
T ss_pred HHHHHHHHHHHHHHHHccCCCceeEEEEecc
Confidence 467899999999999876 44443445664
No 88
>PF10692 DUF2498: Protein of unknown function (DUF2498); InterPro: IPR019633 This entry represents proteins found in gammaproteobacteria, including YciN from Escherichia coli. Their function is not known. ; PDB: 3M92_A.
Probab=20.21 E-value=1.6e+02 Score=25.14 Aligned_cols=64 Identities=16% Similarity=0.309 Sum_probs=36.1
Q ss_pred cCCCChhHH-----HHhhcccccceeeeeccccccCceEEEEeccC----Cch----HHHHHHHHHHHHhhhCCceEE
Q 012792 153 YIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR----GQA----AKTYEKISTRMKNKFGDQYKL 217 (456)
Q Consensus 153 ~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR----~~~----e~~y~~l~~~l~~~fGd~y~l 217 (456)
.-+|++++| +.||+.===+..-.+|++|-.++..+|||+.= |-| -.||. +=+-|.-.+.++|.|
T Consensus 4 ~~~I~~~~LL~~AN~iI~~Hddyi~GM~a~~Veqk~~VLVFkGeyFLD~~GlPT~KtTAvFN-mFK~LAh~LS~~y~L 80 (82)
T PF10692_consen 4 KQPISRQALLEIANQIIREHDDYIHGMRATSVEQKGDVLVFKGEYFLDEQGLPTAKTTAVFN-MFKHLAHVLSEKYHL 80 (82)
T ss_dssp SEEE-HHHHHHHHHHHHHHHHHHHTT--EEEEEECTTEEEEEE-----TTS---HHHHHHHH-HHHHHHHHHCCCEEE
T ss_pred CcccCHHHHHHHHHHHHHhhHhhhccccccceeeECCEEEEecceeecCCCCCCcchHHHHH-HHHHHHHHcCcceEe
Confidence 346777777 34554221223357899999999999999942 222 34444 334566667888976
No 89
>COG5495 Uncharacterized conserved protein [Function unknown]
Probab=20.21 E-value=64 Score=32.97 Aligned_cols=38 Identities=24% Similarity=0.319 Sum_probs=25.3
Q ss_pred CChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCce
Q 012792 156 IPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQY 215 (456)
Q Consensus 156 i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y 215 (456)
=.+||+++||+.||++ |+.+. +.-.|-++|...+|.+|
T Consensus 128 gl~edl~rl~d~~~~i-----~eaD~-----------------~g~ai~q~la~emgg~~ 165 (289)
T COG5495 128 GLDEDLSRLKDTIFGI-----TEADD-----------------VGYAIVQSLALEMGGEP 165 (289)
T ss_pred CCHHHHHhCcccEEEe-----ecccc-----------------cccHHHHHHHHHhCCCc
Confidence 3579999999988765 33332 22335666777677776
Done!