Query 012863
Match_columns 455
No_of_seqs 276 out of 1413
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 07:05:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012863.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012863hhsearch_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 2.9E-28 6.4E-33 228.4 14.9 149 254-451 3-151 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.9 6.6E-25 1.4E-29 211.5 16.4 134 279-450 37-170 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.9 7E-23 1.5E-27 194.5 14.8 129 282-450 25-153 (208)
4 cd06163 S2P-M50_PDZ_RseP-like 99.8 8.6E-21 1.9E-25 178.0 12.2 113 289-447 3-145 (182)
5 cd05709 S2P-M50 Site-2 proteas 99.8 5.4E-21 1.2E-25 175.6 10.5 138 289-450 2-155 (180)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.8 1.1E-19 2.4E-24 179.3 16.1 121 283-450 106-229 (263)
7 cd06158 S2P-M50_like_1 Unchara 99.8 2.2E-19 4.7E-24 167.9 8.2 133 290-451 4-157 (181)
8 cd06162 S2P-M50_PDZ_SREBP Ster 99.8 4.2E-18 9.2E-23 169.2 13.7 114 290-451 130-250 (277)
9 PF02163 Peptidase_M50: Peptid 99.8 5.2E-19 1.1E-23 163.3 6.4 127 290-446 2-157 (192)
10 PRK10779 zinc metallopeptidase 99.5 5.5E-14 1.2E-18 147.3 11.2 82 288-369 8-119 (449)
11 TIGR00054 RIP metalloprotease 99.5 6.6E-14 1.4E-18 145.8 11.4 80 290-369 9-119 (420)
12 COG1994 SpoIVFB Zn-dependent p 99.3 2.8E-12 6.1E-17 123.9 7.7 128 284-451 41-176 (230)
13 COG0750 Predicted membrane-ass 98.9 5.8E-10 1.3E-14 112.6 2.7 242 167-450 82-338 (375)
14 PF13398 Peptidase_M50B: Pepti 97.4 0.00054 1.2E-08 65.4 7.5 67 295-369 22-89 (200)
15 KOG2921 Intramembrane metallop 96.9 0.001 2.2E-08 69.9 5.1 154 285-444 120-283 (484)
16 COG0750 Predicted membrane-ass 96.4 0.0095 2.1E-07 60.5 7.8 81 289-369 7-120 (375)
17 PF11667 DUF3267: Protein of u 78.0 0.77 1.7E-05 39.7 0.3 69 295-370 4-72 (111)
18 PF00413 Peptidase_M10: Matrix 66.3 3.4 7.4E-05 36.5 1.6 21 296-316 106-126 (154)
19 cd04279 ZnMc_MMP_like_1 Zinc-d 63.6 4.2 9.2E-05 36.7 1.7 22 295-316 104-125 (156)
20 cd04268 ZnMc_MMP_like Zinc-dep 54.2 8.1 0.00018 34.6 1.9 22 294-315 93-114 (165)
21 PF07423 DUF1510: Protein of u 53.5 7.3 0.00016 38.5 1.5 55 173-231 159-214 (217)
22 cd04278 ZnMc_MMP Zinc-dependen 52.9 6.1 0.00013 35.8 0.8 23 295-317 107-129 (157)
23 PF13485 Peptidase_MA_2: Pepti 51.7 14 0.00031 30.6 2.8 18 297-314 27-44 (128)
24 PF05572 Peptidase_M43: Pregna 50.1 7.8 0.00017 35.9 1.1 15 296-310 70-84 (154)
25 PTZ00429 beta-adaptin; Provisi 45.1 20 0.00044 41.3 3.6 32 75-106 608-639 (746)
26 PF01435 Peptidase_M48: Peptid 44.9 15 0.00032 34.2 2.1 12 296-307 90-101 (226)
27 PF06114 DUF955: Domain of unk 44.1 14 0.0003 30.4 1.6 17 297-313 44-60 (122)
28 cd04277 ZnMc_serralysin_like Z 43.6 13 0.00027 34.6 1.4 22 296-317 114-135 (186)
29 smart00235 ZnMc Zinc-dependent 42.5 13 0.00027 32.8 1.2 20 298-317 89-108 (140)
30 cd00203 ZnMc Zinc-dependent me 42.3 13 0.00028 33.3 1.2 22 294-315 95-116 (167)
31 PF01434 Peptidase_M41: Peptid 41.4 21 0.00046 34.3 2.6 19 296-314 29-47 (213)
32 PF12315 DUF3633: Protein of u 40.9 19 0.00041 35.6 2.2 29 284-315 84-112 (212)
33 PF14247 DUF4344: Domain of un 40.6 28 0.0006 34.5 3.3 25 291-316 88-112 (220)
34 PF13688 Reprolysin_5: Metallo 39.9 14 0.0003 34.3 1.1 22 294-315 141-162 (196)
35 PF13574 Reprolysin_2: Metallo 38.1 19 0.0004 33.7 1.6 21 295-315 111-131 (173)
36 PF14891 Peptidase_M91: Effect 37.8 21 0.00045 33.4 1.9 16 296-311 104-119 (174)
37 cd04327 ZnMc_MMP_like_3 Zinc-d 34.7 25 0.00054 33.4 1.9 20 297-316 94-113 (198)
38 PF13582 Reprolysin_3: Metallo 33.1 19 0.00041 30.8 0.7 14 297-310 109-122 (124)
39 cd04269 ZnMc_adamalysin_II_lik 32.3 30 0.00064 32.2 2.0 20 295-314 131-150 (194)
40 KOG1832 HIV-1 Vpr-binding prot 32.2 46 0.001 39.6 3.7 19 4-22 1353-1371(1516)
41 COG2856 Predicted Zn peptidase 32.2 25 0.00055 34.6 1.5 15 298-312 75-89 (213)
42 PF02031 Peptidase_M7: Strepto 32.1 27 0.00059 32.3 1.6 10 298-307 80-89 (132)
43 COG0830 UreF Urease accessory 31.6 52 0.0011 32.9 3.6 31 415-445 156-186 (229)
44 PF10263 SprT-like: SprT-like 31.1 34 0.00074 30.6 2.1 19 294-312 59-77 (157)
45 PRK12462 phosphoserine aminotr 30.9 83 0.0018 33.3 5.2 67 149-223 8-76 (364)
46 PRK11037 hypothetical protein; 29.9 1.3E+02 0.0028 25.8 5.1 65 152-217 4-81 (83)
47 cd04270 ZnMc_TACE_like Zinc-de 29.8 32 0.0007 33.9 1.8 20 294-313 166-185 (244)
48 cd04267 ZnMc_ADAM_like Zinc-de 29.4 24 0.00052 32.7 0.9 20 295-314 133-152 (192)
49 PRK03001 M48 family peptidase; 28.9 34 0.00074 34.3 1.9 12 296-307 125-136 (283)
50 PRK03982 heat shock protein Ht 28.2 36 0.00078 34.3 1.9 12 296-307 126-137 (288)
51 PF13583 Reprolysin_4: Metallo 27.9 20 0.00044 34.4 0.1 20 297-316 139-158 (206)
52 PF01447 Peptidase_M4: Thermol 27.4 38 0.00083 31.4 1.8 13 297-309 137-149 (150)
53 PHA02456 zinc metallopeptidase 27.1 37 0.0008 31.0 1.6 20 298-317 82-101 (141)
54 COG5309 Exo-beta-1,3-glucanase 26.6 1E+02 0.0023 32.0 4.8 61 158-222 218-281 (305)
55 PF13699 DUF4157: Domain of un 26.5 37 0.00081 28.2 1.4 12 297-308 63-74 (79)
56 PF09471 Peptidase_M64: IgA Pe 26.4 28 0.0006 35.3 0.7 14 296-309 217-230 (264)
57 KOG3320 40S ribosomal protein 26.4 92 0.002 30.4 4.1 27 197-223 74-100 (192)
58 PLN02452 phosphoserine transam 26.3 1.2E+02 0.0025 31.9 5.3 67 149-223 11-79 (365)
59 cd04927 ACT_ACR-like_2 Second 25.7 90 0.002 25.2 3.5 35 169-214 40-74 (76)
60 smart00731 SprT SprT homologue 25.4 50 0.0011 29.9 2.1 18 294-311 58-75 (146)
61 COG0501 HtpX Zn-dependent prot 24.8 46 0.00099 32.7 1.9 12 296-307 158-169 (302)
62 PF01421 Reprolysin: Reprolysi 24.5 52 0.0011 30.8 2.1 22 293-314 129-150 (199)
63 PF12388 Peptidase_M57: Dual-a 24.4 38 0.00083 33.5 1.2 25 291-315 129-153 (211)
64 PRK04897 heat shock protein Ht 24.2 47 0.001 33.8 1.9 12 296-307 138-149 (298)
65 cd06459 M3B_Oligoendopeptidase 23.4 46 0.00099 34.4 1.7 14 297-310 224-237 (427)
66 PF01432 Peptidase_M3: Peptida 23.2 50 0.0011 35.0 2.0 20 297-316 244-263 (458)
67 PRK04860 hypothetical protein; 23.1 76 0.0016 29.9 2.9 21 293-313 61-81 (160)
68 COG3824 Predicted Zn-dependent 23.1 37 0.0008 31.3 0.8 14 294-307 108-121 (136)
69 PF04298 Zn_peptidase_2: Putat 23.1 57 0.0012 32.6 2.2 14 296-309 90-103 (222)
70 PRK01345 heat shock protein Ht 22.8 51 0.0011 34.0 1.9 12 296-307 125-136 (317)
71 PRK03072 heat shock protein Ht 22.4 53 0.0012 33.3 1.9 12 296-307 128-139 (288)
72 PRK02391 heat shock protein Ht 22.1 55 0.0012 33.5 1.9 11 296-306 134-144 (296)
73 PF10692 DUF2498: Protein of u 21.7 1.5E+02 0.0032 25.4 4.0 64 153-217 4-80 (82)
74 PRK05457 heat shock protein Ht 21.6 57 0.0012 33.1 1.9 11 296-306 135-145 (284)
75 cd04272 ZnMc_salivary_gland_MP 21.1 57 0.0012 31.3 1.7 20 296-315 146-165 (220)
76 cd04280 ZnMc_astacin_like Zinc 21.0 49 0.0011 31.1 1.2 20 297-316 76-95 (180)
77 PF04228 Zn_peptidase: Putativ 20.7 70 0.0015 33.0 2.3 15 297-311 172-186 (292)
78 TIGR03490 Mycoplas_LppA mycoid 20.6 9.7E+02 0.021 27.1 10.9 29 151-179 121-150 (541)
79 TIGR01364 serC_1 phosphoserine 20.4 1.7E+02 0.0036 30.2 5.1 60 155-222 2-63 (349)
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=99.96 E-value=2.9e-28 Score=228.41 Aligned_cols=149 Identities=42% Similarity=0.750 Sum_probs=125.7
Q ss_pred HHHHHHHHHHhhccccccccccccccchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEE
Q 012863 254 FGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAI 333 (455)
Q Consensus 254 l~L~Tl~T~~~~~~~~L~~~~~~~~~~~~~l~~glp~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGav 333 (455)
++++|+.+....+.-.... +..++++.+..++++++++++++++||+||+++||++|+|++.++++|...+|++|++
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 1235677888999999999999999999999999999999999999998779999999
Q ss_pred EEccccccCccceEEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccch
Q 012863 334 TRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVN 413 (455)
Q Consensus 334 i~~~s~~p~RkalfdIAlAGPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lh 413 (455)
++.++..++++++++|++|||++|+++++++++++
T Consensus 80 ~~~~~~~~~~~~~~~IalAGPl~nl~lali~~~~~--------------------------------------------- 114 (183)
T cd06160 80 IRMRSPIPNRKALFDIALAGPLAGLLLALPVLIIG--------------------------------------------- 114 (183)
T ss_pred EEecCCCCChhHhehhhhhHHHHHHHHHHHHHHHH---------------------------------------------
Confidence 99998888999999999999999999998876553
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCChHHHHHHhhhhhhh
Q 012863 414 PLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKVS 451 (455)
Q Consensus 414 PLa~agwlgLvltafNLLPigpLDGGrIl~Allgrr~a 451 (455)
+..++|+|+++++|||+|++|||||||+++++++|++
T Consensus 115 -~~~~~~~nl~l~~fNLLPi~PLDGGril~~~l~~~~~ 151 (183)
T cd06160 115 -LAVAGWVGLLVTALNLLPVGQLDGGHIVRALFGRRVA 151 (183)
T ss_pred -HHHHHHHHHHHHHHHhCCCCCcChHHHHHHHhCHHHH
Confidence 1246899999999999999999999999999999864
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=6.6e-25 Score=211.54 Aligned_cols=134 Identities=30% Similarity=0.392 Sum_probs=113.4
Q ss_pred cchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEccccccCccceEEEEEchHHHHH
Q 012863 279 DNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGF 358 (455)
Q Consensus 279 ~~~~~l~~glp~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~p~RkalfdIAlAGPlAgf 358 (455)
.+..++..|+.+++++++++++||+||+++||++|+++. .+.+.+||+++++++...++++++.|++|||++|+
T Consensus 37 ~~~~~~~~g~~~~~~l~~~v~iHElgH~~~A~~~G~~v~------~i~l~p~Gg~~~~~~~~~~~~~~~~IalAGPl~Nl 110 (227)
T cd06164 37 LGAVAWLLGLAAALLLFASVLLHELGHSLVARRYGIPVR------SITLFLFGGVARLEREPETPGQEFVIAIAGPLVSL 110 (227)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCeEC------eEEEEeeeEEEEecCCCCCHHHHhhhhhhHHHHHH
Confidence 456778899999999999999999999999999999997 67888999999999888889999999999999999
Q ss_pred HHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCCh
Q 012863 359 SLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDG 438 (455)
Q Consensus 359 llAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigpLDG 438 (455)
+++++++++....+... .+ .....+.+++|+|+++++|||+|++||||
T Consensus 111 lla~i~~~l~~~~~~~~------------~~--------------------~~~~~~~~~~~~Nl~l~~fNLlP~~PLDG 158 (227)
T cd06164 111 VLALLFLLLSLALPGSG------------AG--------------------PLGVLLGYLALINLLLAVFNLLPAFPLDG 158 (227)
T ss_pred HHHHHHHHHHHHhcccc------------ch--------------------HHHHHHHHHHHHHHHHHHHhCcCCCCCCh
Confidence 99998887765432210 00 01123567899999999999999999999
Q ss_pred HHHHHHhhhhhh
Q 012863 439 GRIAFALWGRKV 450 (455)
Q Consensus 439 GrIl~Allgrr~ 450 (455)
|||+++++.++.
T Consensus 159 gril~~ll~~~~ 170 (227)
T cd06164 159 GRVLRALLWRRT 170 (227)
T ss_pred HHHHHHHHHHhc
Confidence 999999988766
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=99.89 E-value=7e-23 Score=194.46 Aligned_cols=129 Identities=29% Similarity=0.426 Sum_probs=109.2
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEccccccCccceEEEEEchHHHHHHHH
Q 012863 282 NLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLG 361 (455)
Q Consensus 282 ~~l~~glp~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~p~RkalfdIAlAGPlAgfllA 361 (455)
..|..++.+++.++.++++||+||+++||++|++++ .+.+.+||+.+++++...++++++.|++|||++|++++
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 457788999999999999999999999999999986 78889999999988776788999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHH
Q 012863 362 FVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRI 441 (455)
Q Consensus 362 li~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigpLDGGrI 441 (455)
+++.++....+.. ......+.+.+++|+.+++|||+|++|||||||
T Consensus 99 ~~~~~l~~~~~~~----------------------------------~~~~~~~~~~~~~N~~l~lfNLlPi~pLDGg~i 144 (208)
T cd06161 99 GLFYLLYLLLPGG----------------------------------GPLSSLLEFLAQVNLILGLFNLLPALPLDGGRV 144 (208)
T ss_pred HHHHHHHHHcccc----------------------------------hHHHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 9887765433210 001124567899999999999999999999999
Q ss_pred HHHhhhhhh
Q 012863 442 AFALWGRKV 450 (455)
Q Consensus 442 l~Allgrr~ 450 (455)
+++++.++.
T Consensus 145 l~~ll~~~~ 153 (208)
T cd06161 145 LRALLWRRT 153 (208)
T ss_pred HHHHHHHhc
Confidence 999988775
No 4
>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=99.84 E-value=8.6e-21 Score=178.00 Aligned_cols=113 Identities=35% Similarity=0.438 Sum_probs=89.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCccc--ccc------------cceeeeeeEEEEcccccc-------------
Q 012863 289 PGALVTALVIGVHELGHILAAKSTGVELGVPY--FVP------------SWQIGSFGAITRIRNIVS------------- 341 (455)
Q Consensus 289 p~aL~ll~iL~iHElGH~laAr~~Gvkvs~Py--FIP------------~i~LgtFGavi~~~s~~p------------- 341 (455)
.+.+++.+++++||+||+++||++|+++..-. |-| .+.+.++|+++++++..+
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 35566778899999999999999999986400 111 134678999998764321
Q ss_pred ---CccceEEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHH
Q 012863 342 ---KREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIW 418 (455)
Q Consensus 342 ---~RkalfdIAlAGPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~a 418 (455)
++++++.|++|||++|+++|++++++. +.++
T Consensus 83 ~~~~~~~ri~V~lAGP~~NlilA~i~~~~~----------------------------------------------~~~~ 116 (182)
T cd06163 83 NSKPVWQRILIVFAGPLANFLLAIVLFAVL----------------------------------------------LSFL 116 (182)
T ss_pred ccCCcchhhhhhhhHHHHHHHHHHHHHHHH----------------------------------------------HHHH
Confidence 477899999999999999998765431 2346
Q ss_pred HHHHHHHHHHhhcCCCCCChHHHHHHhhh
Q 012863 419 AWAGLLINAINSIPAGELDGGRIAFALWG 447 (455)
Q Consensus 419 gwlgLvltafNLLPigpLDGGrIl~Allg 447 (455)
+++|+.+++|||+|++||||||++++++.
T Consensus 117 ~~~n~~l~~fNLlPippLDGg~il~~~~~ 145 (182)
T cd06163 117 ALLSINLGILNLLPIPALDGGHLLFLLIE 145 (182)
T ss_pred HHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 78999999999999999999999999875
No 5
>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=99.84 E-value=5.4e-21 Score=175.64 Aligned_cols=138 Identities=28% Similarity=0.323 Sum_probs=100.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCcc----cccc-------cceeeeeeEEEEcccccc-----CccceEEEEEc
Q 012863 289 PGALVTALVIGVHELGHILAAKSTGVELGVP----YFVP-------SWQIGSFGAITRIRNIVS-----KREDLLKVAAA 352 (455)
Q Consensus 289 p~aL~ll~iL~iHElGH~laAr~~Gvkvs~P----yFIP-------~i~LgtFGavi~~~s~~p-----~RkalfdIAlA 352 (455)
.+.+++++++.+||+||+++||++|+++..- .+.| .+.+.++|++++..+... ++++++.|++|
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 3566778899999999999999999987521 1111 123445688888776554 48899999999
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcC
Q 012863 353 GPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIP 432 (455)
Q Consensus 353 GPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLP 432 (455)
||++|+++|++++++.......... . . ..+ ......+.+.+++++|+.+++|||+|
T Consensus 82 GPl~nllla~i~~~~~~~~~~~~~~----~-~--~~~-----------------~~~~~~~~l~~~~~~n~~l~~fNLlP 137 (180)
T cd05709 82 GPLANLLLALLLLLLLLLLGGLPPA----P-V--GQA-----------------ASSGLANLLAFLALINLNLAVFNLLP 137 (180)
T ss_pred hHHHHHHHHHHHHHHHHHHccCCcc----c-h--hhh-----------------HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 9999999999988776654322100 0 0 000 00112345778899999999999999
Q ss_pred CCCCChHHHHHHhhhhhh
Q 012863 433 AGELDGGRIAFALWGRKV 450 (455)
Q Consensus 433 igpLDGGrIl~Allgrr~ 450 (455)
++||||||++++++.++.
T Consensus 138 i~plDGg~il~~~l~~~~ 155 (180)
T cd05709 138 IPPLDGGRILRALLEAIR 155 (180)
T ss_pred CCCCChHHHHHHHHhHHH
Confidence 999999999999987764
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=99.83 E-value=1.1e-19 Score=179.33 Aligned_cols=121 Identities=26% Similarity=0.332 Sum_probs=94.3
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEccccc---cCccceEEEEEchHHHHHH
Q 012863 283 LLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIV---SKREDLLKVAAAGPLAGFS 359 (455)
Q Consensus 283 ~l~~glp~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~---p~RkalfdIAlAGPlAgfl 359 (455)
++...+.+.+++++++.+||+||+++||++|+++..--+ .+.+.++|++++..+.. .++++++.|++|||++|++
T Consensus 106 ~~i~~~~~~iaL~isv~iHElgHa~~Ar~~G~~V~~iGl--~l~~ip~Gg~v~~~~~~~~~~~~~~~~~Ia~AGP~~Nlv 183 (263)
T cd06159 106 IFIPLPYGIIALVVGVVVHELSHGILARVEGIKVKSGGL--LLLIIPPGAFVEPDEEELNKADRRIRLRIFAAGVTANFV 183 (263)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCEECchhH--HHHhhhcEEEEEecchhhccCChhheeeeeeehHHHHHH
Confidence 344556667778889999999999999999999973111 01123578888876543 4678999999999999999
Q ss_pred HHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChH
Q 012863 360 LGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGG 439 (455)
Q Consensus 360 lAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigpLDGG 439 (455)
+|++++++.. +.+.+|+|+.+++|||+|++|||||
T Consensus 184 la~i~~~l~~---------------------------------------------l~~~~~~N~~l~lFNLlP~~PLDGg 218 (263)
T cd06159 184 VALIAFALFF---------------------------------------------LYWIFWINFLLGLFNCLPAIPLDGG 218 (263)
T ss_pred HHHHHHHHHH---------------------------------------------HHHHHHHHHHHHHHhCCCCCCCChH
Confidence 9987765421 2346889999999999999999999
Q ss_pred HHHHHhhhhhh
Q 012863 440 RIAFALWGRKV 450 (455)
Q Consensus 440 rIl~Allgrr~ 450 (455)
|++++++....
T Consensus 219 ~il~~ll~~~~ 229 (263)
T cd06159 219 HVFRDLLEALL 229 (263)
T ss_pred HHHHHHHHHHh
Confidence 99999866543
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=99.78 E-value=2.2e-19 Score=167.90 Aligned_cols=133 Identities=28% Similarity=0.365 Sum_probs=92.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCc--------cc--ccc-------cceeeeeeEEE----EccccccCccceEE
Q 012863 290 GALVTALVIGVHELGHILAAKSTGVELGV--------PY--FVP-------SWQIGSFGAIT----RIRNIVSKREDLLK 348 (455)
Q Consensus 290 ~aL~ll~iL~iHElGH~laAr~~Gvkvs~--------Py--FIP-------~i~LgtFGavi----~~~s~~p~Rkalfd 348 (455)
..+++++++.+||+||+++|+++|+++.. |. ..| .+.+..+|+.. +.+...++|++++.
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 34567779999999999999999999753 21 112 11112466652 23334456788999
Q ss_pred EEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHH
Q 012863 349 VAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAI 428 (455)
Q Consensus 349 IAlAGPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltaf 428 (455)
|++|||++|++++++++++........+ ...+. ....+.+..++|+.+++|
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 9999999999999887765543321100 00010 112345568899999999
Q ss_pred hhcCCCCCChHHHHHHhhhhhhh
Q 012863 429 NSIPAGELDGGRIAFALWGRKVS 451 (455)
Q Consensus 429 NLLPigpLDGGrIl~Allgrr~a 451 (455)
||+|++|||||||+++++.++..
T Consensus 135 NLlPipPLDG~~il~~~l~~~~~ 157 (181)
T cd06158 135 NLLPIPPLDGSKILAALLPRRLA 157 (181)
T ss_pred HhCCCCCCChHHHHHHHcchhHH
Confidence 99999999999999999887764
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=99.76 E-value=4.2e-18 Score=169.23 Aligned_cols=114 Identities=25% Similarity=0.234 Sum_probs=90.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeee----eEEEEcccc---ccCccceEEEEEchHHHHHHHHH
Q 012863 290 GALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSF----GAITRIRNI---VSKREDLLKVAAAGPLAGFSLGF 362 (455)
Q Consensus 290 ~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtF----Gavi~~~s~---~p~RkalfdIAlAGPlAgfllAl 362 (455)
+.+++++++.+||+||+++|+++|+++. .+.+..| |++++..+. ..++++++.|++|||++|+++|+
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 3456788999999999999999999997 5544444 888887432 24566789999999999999999
Q ss_pred HHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHH
Q 012863 363 VLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIA 442 (455)
Q Consensus 363 i~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigpLDGGrIl 442 (455)
+++++.+. ..+.+++++|+.+++|||+|++|||||||+
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 87654310 013456889999999999999999999999
Q ss_pred HHhhhhhhh
Q 012863 443 FALWGRKVS 451 (455)
Q Consensus 443 ~Allgrr~a 451 (455)
++++.++..
T Consensus 242 ~~ll~~~~~ 250 (277)
T cd06162 242 STFLEATLV 250 (277)
T ss_pred HHHHHHHhC
Confidence 998765543
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=99.76 E-value=5.2e-19 Score=163.26 Aligned_cols=127 Identities=31% Similarity=0.403 Sum_probs=80.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCccc--c--cc------c----cee-------eeeeE--------EEEccccc
Q 012863 290 GALVTALVIGVHELGHILAAKSTGVELGVPY--F--VP------S----WQI-------GSFGA--------ITRIRNIV 340 (455)
Q Consensus 290 ~aL~ll~iL~iHElGH~laAr~~Gvkvs~Py--F--IP------~----i~L-------gtFGa--------vi~~~s~~ 340 (455)
+.+++++++.+||+||+++|+++|+|+.... + .+ . +.+ ..+|+ ..+.+...
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 3567788999999999999999999997541 1 00 0 011 12233 22333344
Q ss_pred cCccceEEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHH
Q 012863 341 SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAW 420 (455)
Q Consensus 341 p~RkalfdIAlAGPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agw 420 (455)
.++++.+.|++|||++|++++++++.+......... ......+.+.++++
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 567889999999999999999988766543321100 01123356788999
Q ss_pred HHHHHHHHhhcCCCCCChHHHHHHhh
Q 012863 421 AGLLINAINSIPAGELDGGRIAFALW 446 (455)
Q Consensus 421 lgLvltafNLLPigpLDGGrIl~All 446 (455)
+|+.++++||+|++||||||++++++
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
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.51 E-value=5.5e-14 Score=147.26 Aligned_cols=82 Identities=22% Similarity=0.340 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCccCccc--ccc-------------cceeeeeeEEEEccccc------------
Q 012863 288 LPGALVTALVIGVHELGHILAAKSTGVELGVPY--FVP-------------SWQIGSFGAITRIRNIV------------ 340 (455)
Q Consensus 288 lp~aL~ll~iL~iHElGH~laAr~~Gvkvs~Py--FIP-------------~i~LgtFGavi~~~s~~------------ 340 (455)
+.+.+++.+++++||+||+++||++|+++..-. |=| .+.+.++|+++++....
T Consensus 8 ~~fil~l~~li~vHElGHfl~Ar~~gv~V~~FsiGfGp~l~~~~~~~~Tey~i~~iPlGGyVk~~~e~~~~~~~~~~~~~ 87 (449)
T PRK10779 8 AAFIVALGVLITVHEFGHFWVARRCGVRVERFSIGFGKALWRRTDRQGTEYVIALIPLGGYVKMLDERVEPVAPELRHHA 87 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCeeeEEEeecChhHeeEecCCCcEEEEEEEcCCCeeecCCCCCCcCChhhhhhh
Confidence 445566777888999999999999999997511 112 13467899998875321
Q ss_pred ---cCccceEEEEEchHHHHHHHHHHHHHHHH
Q 012863 341 ---SKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (455)
Q Consensus 341 ---p~RkalfdIAlAGPlAgfllAli~lligl 369 (455)
.+.++++.|.+|||++||++|++++.+.+
T Consensus 88 f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~ 119 (449)
T PRK10779 88 FNNKTVGQRAAIIAAGPIANFIFAIFAYWLVF 119 (449)
T ss_pred hccCCHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 23588899999999999999998876655
No 11
>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=99.51 E-value=6.6e-14 Score=145.77 Aligned_cols=80 Identities=28% Similarity=0.419 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccCcc--cccc------------cceeeeeeEEEEcccc----c-----------
Q 012863 290 GALVTALVIGVHELGHILAAKSTGVELGVP--YFVP------------SWQIGSFGAITRIRNI----V----------- 340 (455)
Q Consensus 290 ~aL~ll~iL~iHElGH~laAr~~Gvkvs~P--yFIP------------~i~LgtFGavi~~~s~----~----------- 340 (455)
+.+++.+++++||+||+++||++|+++..- -|=| .+.+.++|+++++... .
T Consensus 9 ~~~~~~~~v~~HE~gH~~~a~~~g~~v~~FsiGfGp~l~~~~~~~tey~i~~~plGg~v~~~g~~~~~~~~~~~~~~~~f 88 (420)
T TIGR00054 9 SILALAVLIFVHELGHFLAARLCGIKVERFSIGFGPKILKFKKNGTEYAISLIPLGGYVKMKGLDKEMEVKPPETDGDLF 88 (420)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHcCCEEEEEEEccCchheEEecCCeEEEEEEecCcceEeeccCCcccccCCcchhhhhh
Confidence 355667789999999999999999998631 0112 1346789999998411 0
Q ss_pred --cCccceEEEEEchHHHHHHHHHHHHHHHH
Q 012863 341 --SKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (455)
Q Consensus 341 --p~RkalfdIAlAGPlAgfllAli~lligl 369 (455)
.+.++++.|++|||++|+++|++++++.+
T Consensus 89 ~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 89 NNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred ccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 25577899999999999999999877654
No 12
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=99.32 E-value=2.8e-12 Score=123.86 Aligned_cols=128 Identities=25% Similarity=0.278 Sum_probs=83.3
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEccccccCc-------cceEEEEEc-hHH
Q 012863 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKR-------EDLLKVAAA-GPL 355 (455)
Q Consensus 284 l~~glp~aL~ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~p~R-------kalfdIAlA-GPl 355 (455)
+..+....+.++..+..||+||...++++|+++. .+.++.+|++...+....+. .+...+++| ||+
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 4445555555667899999999999999999985 33333355555554443333 444555666 777
Q ss_pred HHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCC
Q 012863 356 AGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGE 435 (455)
Q Consensus 356 AgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigp 435 (455)
.|+++++++ +. ..+... . ..+....+...+.+|+++++|||+|++|
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 777666554 11 111000 0 0011122446788999999999999999
Q ss_pred CChHHHHHHhhhhhhh
Q 012863 436 LDGGRIAFALWGRKVS 451 (455)
Q Consensus 436 LDGGrIl~Allgrr~a 451 (455)
|||||++++++.+++.
T Consensus 161 LDGg~vlr~~~~~~~~ 176 (230)
T COG1994 161 LDGGRVLRALLPRRYG 176 (230)
T ss_pred CChHHHHHHHccHHHH
Confidence 9999999999877654
No 13
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=98.90 E-value=5.8e-10 Score=112.58 Aligned_cols=242 Identities=14% Similarity=0.049 Sum_probs=140.0
Q ss_pred ccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecCCCCCcEEEEecCCCCCCCCCChh
Q 012863 167 QVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNPEDDKPVAVVVPRKTLQPETTAVP 246 (455)
Q Consensus 167 ~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~~~~kPv~~vvP~~~~~p~~~~~~ 246 (455)
.+++.++|+.....+ ...+++.|.+.......+..+...+ ..|..+ ...|+.. + .. .
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 9999999999987666655544333 223111 1122221 0 00 0
Q ss_pred HHHHHHHHHHHHHHHHHhhccccccccccccccchHHH---H---hhHHHHHHHHHHHHHH--HHHHHHHHHHcCCccCc
Q 012863 247 EWFAAGAFGLVTVFTLLLRNVPALQSNLLSTFDNLNLL---T---NGLPGALVTALVIGVH--ELGHILAAKSTGVELGV 318 (455)
Q Consensus 247 ~~~~~~ll~L~Tl~T~~~~~~~~L~~~~~~~~~~~~~l---~---~glp~aL~ll~iL~iH--ElGH~laAr~~Gvkvs~ 318 (455)
.+++. .+.+..|.-.+..+- +....+... . .+.++. .+.+.+.| +..|+.+++.++.....
T Consensus 139 -~s~a~-------~a~l~~Gd~iv~~~~-~~i~~~~~~~~~~~~~~~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~ 207 (375)
T COG0750 139 -KSAAA-------LAGLRPGDRIVAVDG-EKVASWDDVRRLLVAAAGDVFN--LLTILVIRLDGEAHAVAAEIIKSLGLT 207 (375)
T ss_pred -CCHHH-------HcCCCCCCEEEeECC-EEccCHHHHHHHHHhccCCccc--ceEEEEEeccceeeeccccceeeEeee
Confidence 01111 112222222222221 111122211 1 222222 34567788 99999999988888888
Q ss_pred ccccccceeeeeeEEEE--ccccccC-----ccceEEEEEchHHHHHHHHHHHHHHHHhcCCCCCCcccccccchhhhhh
Q 012863 319 PYFVPSWQIGSFGAITR--IRNIVSK-----REDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFL 391 (455)
Q Consensus 319 PyFIP~i~LgtFGavi~--~~s~~p~-----RkalfdIAlAGPlAgfllAli~lligl~ls~~~g~~~~v~~~~f~~S~L 391 (455)
|+++| ...+..+..++ .....++ ++...++..+++++ ..+.-...++++.+... .......+..+.+
T Consensus 208 P~~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~-~~v~~~~~~~~~~~~~l----~~~~~~~~~~~~l 281 (375)
T COG0750 208 PVVIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVG-LAVEKTGRLVKLTLKML----KKLITGDLSLKNL 281 (375)
T ss_pred cceec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHH-HHHHHHHHHHHHHHHHH----HHheecccccccc
Confidence 98876 44555555443 3333444 78899999999999 44444444444433200 0011112333344
Q ss_pred hhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHhhhhhh
Q 012863 392 AGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKV 450 (455)
Q Consensus 392 lg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPigpLDGGrIl~Allgrr~ 450 (455)
.|.+.....+....+ ....|++.+++|+|+.++++||+|+++|||||++++++.+..
T Consensus 282 ~Gpi~i~~~~~~~~~--~~~~~~l~~~~~lsi~lg~lNllP~p~LDGG~i~~~~~e~~~ 338 (375)
T COG0750 282 SGPIGIAKIAGAAAS--LGLINLLFFLALLSINLGILNLLPIPPLDGGHLLFYLLEALR 338 (375)
T ss_pred cCceehhhhhhHHHh--hHHHHHHHHHHHHHHHHHHHhccCCCccCccHHHHHHHHHHh
Confidence 444333333222111 335789999999999999999999999999999999877654
No 14
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=97.36 E-value=0.00054 Score=65.40 Aligned_cols=67 Identities=31% Similarity=0.295 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCccCcccccccceeee-eeEEEEccccccCccceEEEEEchHHHHHHHHHHHHHHHH
Q 012863 295 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGS-FGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~Lgt-FGavi~~~s~~p~RkalfdIAlAGPlAgfllAli~lligl 369 (455)
++...+||+||+++|...|-++. .+.+.+ -++.+..+. +++...+.++.|||++..+++..++..+.
T Consensus 22 ~l~t~~HE~gHal~a~l~G~~v~------~i~l~~~~~G~~~~~~--~~~~~~~~i~~aGyl~~~l~g~~~~~~~~ 89 (200)
T PF13398_consen 22 LLVTFVHELGHALAALLTGGRVK------GIVLFPDGSGVTVSSG--PSGIGRFLIALAGYLGPALFGLLLLWLLF 89 (200)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcc------eEEEEeCCCceEEEec--CCCcchhHHhcccchHHHHHHHHHHHHHH
Confidence 34588999999999999999998 555544 366666665 56667889999999999999987766653
No 15
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.001 Score=69.92 Aligned_cols=154 Identities=26% Similarity=0.300 Sum_probs=94.4
Q ss_pred HhhHHHHHH-HHHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEcccccc---CccceEEEEEchHHHHHHH
Q 012863 285 TNGLPGALV-TALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVS---KREDLLKVAAAGPLAGFSL 360 (455)
Q Consensus 285 ~~glp~aL~-ll~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~p---~RkalfdIAlAGPlAgfll 360 (455)
+.+++|.+. +++.+.+||+||+|||.+.||++. +|--++..--=||++.+....- +.-..+.|.-||-.=||++
T Consensus 120 l~~I~yf~t~lvi~~vvHElGHalAA~segV~vn--gfgIfi~aiyPgafvdl~~dhLqsl~~fr~LrIfcAGIWHNfvf 197 (484)
T KOG2921|consen 120 LSGIAYFLTSLVITVVVHELGHALAAASEGVQVN--GFGIFIAAIYPGAFVDLDNDHLQSLPSFRALRIFCAGIWHNFVF 197 (484)
T ss_pred cccchhhhhhHHHHHHHHHhhHHHHHHhcCceee--eeEEEEEEEcCchhhhhhhhHHhhcchHHHHHHHhhhHHHHHHH
Confidence 345555543 566788999999999999999997 1111111222367766543211 2234568999999999999
Q ss_pred HHHHHHHHHhcC----CC--CCCcccccccchhhhhhhhhhhhhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCC
Q 012863 361 GFVLFLVGFIFP----PS--DGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAG 434 (455)
Q Consensus 361 Ali~lligl~ls----~~--~g~~~~v~~~~f~~S~Llg~la~l~LG~~l~~~~~i~lhPLa~agwlgLvltafNLLPig 434 (455)
|+++.+....++ +. .|.++.+ ...-..|.|.|.. -+..||...+-++..+|- ..-|.-.+-+++|+=|-.
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 999877665432 21 1112211 1122335555544 345677665544445543 457888888899999988
Q ss_pred CCChHHHHHH
Q 012863 435 ELDGGRIAFA 444 (455)
Q Consensus 435 pLDGGrIl~A 444 (455)
.-|+--+..+
T Consensus 274 cvsas~vq~~ 283 (484)
T KOG2921|consen 274 CVSASLVQGG 283 (484)
T ss_pred eecHHHHhcc
Confidence 8887655443
No 16
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=96.42 E-value=0.0095 Score=60.55 Aligned_cols=81 Identities=28% Similarity=0.402 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCccc--ccc-------c------ceeeeeeEEEEcccccc------------
Q 012863 289 PGALVTALVIGVHELGHILAAKSTGVELGVPY--FVP-------S------WQIGSFGAITRIRNIVS------------ 341 (455)
Q Consensus 289 p~aL~ll~iL~iHElGH~laAr~~Gvkvs~Py--FIP-------~------i~LgtFGavi~~~s~~p------------ 341 (455)
.+.+.+...+.+||+||+|.||++|+++.... |-| . +...++|+++.+.....
T Consensus 7 ~~i~~~~~lv~~he~gh~~~a~~~~~~v~~f~ig~g~~l~~~~~~~~~~~~i~~~plggyv~~~~~~~~~~~~~~~~~~~ 86 (375)
T COG0750 7 AFIIALGVLVFVHELGHFWVARRCGVKVERFSIGFGPKLFSRKDKGGTEYVLSAIPLGGYVKMLGEDAEEVVLKGPEPRP 86 (375)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHhcCceeEEEEeccCcceEEEEcCCceEEEEeecCccceEEEecCccccccccccCcch
Confidence 34555667888999999999999999997521 111 0 12345555544322111
Q ss_pred ------CccceEEEEEchHHHHHHHHHHHHHHHH
Q 012863 342 ------KREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (455)
Q Consensus 342 ------~RkalfdIAlAGPlAgfllAli~lligl 369 (455)
+-+..+.+.++||++|++.++...+...
T Consensus 87 ~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 87 RAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred hhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 1133678999999999998887766665
No 17
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=78.02 E-value=0.77 Score=39.67 Aligned_cols=69 Identities=22% Similarity=0.190 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCccCcccccccceeeeeeEEEEccccccCccceEEEEEchHHHHHHHHHHHHHHHHh
Q 012863 295 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFI 370 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gvkvs~PyFIP~i~LgtFGavi~~~s~~p~RkalfdIAlAGPlAgfllAli~lligl~ 370 (455)
++.+.+||+-|++..+.+|.+.... ...-+..+..-...+ .+-.|.++.+...-|+ ++++++.++++..
T Consensus 4 ~~~~~~HEliH~l~~~~~~~~~~~~----~g~~~~~~~~~~~~~-~~~sk~~~~i~~l~P~--ivl~~~~~~~~~~ 72 (111)
T PF11667_consen 4 IVLIPLHELIHGLFFKLFGKKPKVK----FGFKWKLGPFYATCN-EPISKWRFIIILLAPF--IVLTILPLILGFF 72 (111)
T ss_pred EeeHHHHHHHHHHHHHHhCCCCceE----EEEEeeeEEEEEecC-cEEeHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 3456899999999999999965211 111111222222222 2334456666666675 5666666666554
No 18
>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=66.28 E-value=3.4 Score=36.50 Aligned_cols=21 Identities=24% Similarity=0.436 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHcCCcc
Q 012863 296 LVIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvkv 316 (455)
..+++||+||++=-.+...+-
T Consensus 106 ~~v~~HEiGHaLGL~H~~~~~ 126 (154)
T PF00413_consen 106 QSVAIHEIGHALGLDHSNDPN 126 (154)
T ss_dssp HHHHHHHHHHHTTBESSSSTT
T ss_pred hhhhhhccccccCcCcCCCcc
Confidence 468899999998665544443
No 19
>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=63.61 E-value=4.2 Score=36.70 Aligned_cols=22 Identities=32% Similarity=0.364 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCcc
Q 012863 295 ALVIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gvkv 316 (455)
+..+++||+||++=.++...+-
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~ 125 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRP 125 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCc
Confidence 4578999999999888887765
No 20
>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=54.22 E-value=8.1 Score=34.59 Aligned_cols=22 Identities=27% Similarity=0.286 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHcCCc
Q 012863 294 TALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~~Gvk 315 (455)
-....++||+||++=-.+-.-+
T Consensus 93 ~~~~~~~HEiGHaLGL~H~~~~ 114 (165)
T cd04268 93 RLRNTAEHELGHALGLRHNFAA 114 (165)
T ss_pred HHHHHHHHHHHHHhcccccCcC
Confidence 4457889999999877666654
No 21
>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=53.45 E-value=7.3 Score=38.53 Aligned_cols=55 Identities=27% Similarity=0.340 Sum_probs=39.0
Q ss_pred eeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecC-CCCCcEEE
Q 012863 173 TFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNP-EDDKPVAV 231 (455)
Q Consensus 173 tF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~-~~~kPv~~ 231 (455)
..|+|++..-.=-+.|.||= |.|.++|.+|+.+= -+++|+|++-=-. ++=||+-+
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 3568999742211 22277743
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=52.86 E-value=6.1 Score=35.79 Aligned_cols=23 Identities=22% Similarity=0.358 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCccC
Q 012863 295 ALVIGVHELGHILAAKSTGVELG 317 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gvkvs 317 (455)
+..+++||+||++=-.+-..+.+
T Consensus 107 ~~~~~~HEiGHaLGL~H~~~~~~ 129 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSSDPDS 129 (157)
T ss_pred HHHHHHHHhccccccCCCCCCcC
Confidence 45788999999987765554443
No 23
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=51.74 E-value=14 Score=30.58 Aligned_cols=18 Identities=28% Similarity=0.233 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 012863 297 VIGVHELGHILAAKSTGV 314 (455)
Q Consensus 297 iL~iHElGH~laAr~~Gv 314 (455)
.+++||++|.|.....+-
T Consensus 27 ~~l~HE~~H~~~~~~~~~ 44 (128)
T PF13485_consen 27 RVLAHELAHQWFGNYFGG 44 (128)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 688999999999999773
No 24
>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=50.06 E-value=7.8 Score=35.89 Aligned_cols=15 Identities=33% Similarity=0.275 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHH
Q 012863 296 LVIGVHELGHILAAK 310 (455)
Q Consensus 296 ~iL~iHElGH~laAr 310 (455)
.-.++||+||++=-+
T Consensus 70 g~TltHEvGH~LGL~ 84 (154)
T PF05572_consen 70 GKTLTHEVGHWLGLY 84 (154)
T ss_dssp SHHHHHHHHHHTT--
T ss_pred ccchhhhhhhhhccc
Confidence 468899999997433
No 25
>PTZ00429 beta-adaptin; Provisional
Probab=45.13 E-value=20 Score=41.30 Aligned_cols=32 Identities=28% Similarity=0.251 Sum_probs=15.9
Q ss_pred ChhhhhhccCCCCCCCCCCcccCCCCCCCccC
Q 012863 75 NDKEKEVHDGQENQPATASDQEDDKSQPDSQL 106 (455)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (455)
.|||++|+++.++.|++.++..++++..++++
T Consensus 608 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 639 (746)
T PTZ00429 608 LDEEDTEDDDAVELPSTPSMGTQDGSPAPSAA 639 (746)
T ss_pred cccccccchhhccCCCCCCCCCCCCCCCcccc
Confidence 34444444455555666555555554444443
No 26
>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=44.87 E-value=15 Score=34.23 Aligned_cols=12 Identities=50% Similarity=0.717 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||..
T Consensus 90 ~aVlaHElgH~~ 101 (226)
T PF01435_consen 90 AAVLAHELGHIK 101 (226)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 368899999986
No 27
>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=44.13 E-value=14 Score=30.35 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHcC
Q 012863 297 VIGVHELGHILAAKSTG 313 (455)
Q Consensus 297 iL~iHElGH~laAr~~G 313 (455)
..++||+||++.-....
T Consensus 44 f~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 44 FTLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHhhhccc
Confidence 36789999999876554
No 28
>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=43.59 E-value=13 Score=34.61 Aligned_cols=22 Identities=32% Similarity=0.451 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHcCCccC
Q 012863 296 LVIGVHELGHILAAKSTGVELG 317 (455)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvkvs 317 (455)
...++||+||++=-++-+....
T Consensus 114 ~~t~~HEiGHaLGL~H~~~~~~ 135 (186)
T cd04277 114 YQTIIHEIGHALGLEHPGDYNG 135 (186)
T ss_pred HHHHHHHHHHHhcCCCCCcCCC
Confidence 4678999999997766665543
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=42.50 E-value=13 Score=32.79 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHcCCccC
Q 012863 298 IGVHELGHILAAKSTGVELG 317 (455)
Q Consensus 298 L~iHElGH~laAr~~Gvkvs 317 (455)
.++||+||++-..+-..+-.
T Consensus 89 ~~~HEigHaLGl~H~~~~~d 108 (140)
T smart00235 89 VAAHELGHALGLYHEQSRSD 108 (140)
T ss_pred cHHHHHHHHhcCCcCCCCCc
Confidence 78999999996665555543
No 30
>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=42.30 E-value=13 Score=33.25 Aligned_cols=22 Identities=27% Similarity=0.215 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHcCCc
Q 012863 294 TALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~~Gvk 315 (455)
....+++||+||.+=.++-.-+
T Consensus 95 ~~~~~~~HElGH~LGl~H~~~~ 116 (167)
T cd00203 95 EGAQTIAHELGHALGFYHDHDR 116 (167)
T ss_pred cchhhHHHHHHHHhCCCccCcC
Confidence 3456889999999977766543
No 31
>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=41.38 E-value=21 Score=34.35 Aligned_cols=19 Identities=32% Similarity=0.261 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHcCC
Q 012863 296 LVIGVHELGHILAAKSTGV 314 (455)
Q Consensus 296 ~iL~iHElGH~laAr~~Gv 314 (455)
-.+.+||.||+++|...+-
T Consensus 29 ~~~A~HEAGhAvva~~l~~ 47 (213)
T PF01434_consen 29 RRIAYHEAGHAVVAYLLPP 47 (213)
T ss_dssp HHHHHHHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 3678999999999999873
No 32
>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=40.86 E-value=19 Score=35.65 Aligned_cols=29 Identities=31% Similarity=0.374 Sum_probs=20.5
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Q 012863 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 284 l~~glp~aL~ll~iL~iHElGH~laAr~~Gvk 315 (455)
++.|+|- .+..++++||++|+|. |..|.+
T Consensus 84 vl~GLPr--ll~gsiLAHE~mHa~L-rl~g~~ 112 (212)
T PF12315_consen 84 VLYGLPR--LLTGSILAHELMHAWL-RLNGFP 112 (212)
T ss_pred EECCCCH--HHHhhHHHHHHHHHHh-cccCCC
Confidence 3456663 2446899999999998 556644
No 33
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=40.56 E-value=28 Score=34.50 Aligned_cols=25 Identities=32% Similarity=0.417 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcc
Q 012863 291 ALVTALVIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 291 aL~ll~iL~iHElGH~laAr~~Gvkv 316 (455)
++..+..++.||+||++... +++++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~-~~lPv 112 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDD-LDLPV 112 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHH-hcCCc
Confidence 45566678899999999875 34554
No 34
>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=39.92 E-value=14 Score=34.27 Aligned_cols=22 Identities=32% Similarity=0.403 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHcCCc
Q 012863 294 TALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~~Gvk 315 (455)
.-.+.++||+||-+=|.+=+..
T Consensus 141 ~~~~~~AHEiGH~lGa~HD~~~ 162 (196)
T PF13688_consen 141 NGAITFAHEIGHNLGAPHDGDY 162 (196)
T ss_dssp HHHHHHHHHHHHHTT-----SS
T ss_pred ceehhhHHhHHHhcCCCCCCCC
Confidence 3347889999999999986665
No 35
>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=38.10 E-value=19 Score=33.66 Aligned_cols=21 Identities=33% Similarity=0.286 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 012863 295 ALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gvk 315 (455)
....++||+||.+=|.+-+-.
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 445689999999999988774
No 36
>PF14891 Peptidase_M91: Effector protein
Probab=37.85 E-value=21 Score=33.41 Aligned_cols=16 Identities=31% Similarity=0.299 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 012863 296 LVIGVHELGHILAAKS 311 (455)
Q Consensus 296 ~iL~iHElGH~laAr~ 311 (455)
++++.|||+|++=...
T Consensus 104 ~v~L~HEL~HA~~~~~ 119 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMN 119 (174)
T ss_pred HHHHHHHHHHHHHHHC
Confidence 5788999999997654
No 37
>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=34.71 E-value=25 Score=33.37 Aligned_cols=20 Identities=25% Similarity=0.298 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012863 297 VIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 297 iL~iHElGH~laAr~~Gvkv 316 (455)
..++||+||++=..+-.-+.
T Consensus 94 ~~i~HElgHaLG~~HEh~rp 113 (198)
T cd04327 94 RVVLHEFGHALGFIHEHQSP 113 (198)
T ss_pred HHHHHHHHHHhcCcccccCC
Confidence 57789999998766554443
No 38
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=33.12 E-value=19 Score=30.81 Aligned_cols=14 Identities=36% Similarity=0.423 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHH
Q 012863 297 VIGVHELGHILAAK 310 (455)
Q Consensus 297 iL~iHElGH~laAr 310 (455)
..++||+||.+=+.
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 39
>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=32.30 E-value=30 Score=32.23 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 012863 295 ALVIGVHELGHILAAKSTGV 314 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gv 314 (455)
.+.+++||+||-+=+.+-+.
T Consensus 131 ~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 131 FAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHhhcCCCcCCC
Confidence 35788999999987776554
No 40
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=32.23 E-value=46 Score=39.62 Aligned_cols=19 Identities=26% Similarity=0.336 Sum_probs=9.3
Q ss_pred ccccccccccCCCCccccc
Q 012863 4 TTTFRGNLSLLPHCSSCCD 22 (455)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~ 22 (455)
.+||-|.-..+--|++=.+
T Consensus 1353 iaTi~v~R~~~Dlct~~~D 1371 (1516)
T KOG1832|consen 1353 IATIPVDRCLLDLCTEPTD 1371 (1516)
T ss_pred ceeeecccchhhhhcCCcc
Confidence 3444444444555655443
No 41
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=32.19 E-value=25 Score=34.60 Aligned_cols=15 Identities=40% Similarity=0.485 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHc
Q 012863 298 IGVHELGHILAAKST 312 (455)
Q Consensus 298 L~iHElGH~laAr~~ 312 (455)
.++||+||++.=+.-
T Consensus 75 tlAHELGH~llH~~~ 89 (213)
T COG2856 75 TLAHELGHALLHTDL 89 (213)
T ss_pred HHHHHHhHHHhcccc
Confidence 568999999975544
No 42
>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=32.09 E-value=27 Score=32.26 Aligned_cols=10 Identities=80% Similarity=1.291 Sum_probs=8.9
Q ss_pred HHHHHHHHHH
Q 012863 298 IGVHELGHIL 307 (455)
Q Consensus 298 L~iHElGH~l 307 (455)
+.+||+||.+
T Consensus 80 IaaHE~GHiL 89 (132)
T PF02031_consen 80 IAAHELGHIL 89 (132)
T ss_dssp HHHHHHHHHH
T ss_pred eeeehhcccc
Confidence 7799999986
No 43
>COG0830 UreF Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
Probab=31.64 E-value=52 Score=32.89 Aligned_cols=31 Identities=32% Similarity=0.444 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCChHHHHHHh
Q 012863 415 LVIWAWAGLLINAINSIPAGELDGGRIAFAL 445 (455)
Q Consensus 415 La~agwlgLvltafNLLPigpLDGGrIl~Al 445 (455)
+.+....|++.++.=|+|.||+||=+|+..+
T Consensus 156 ~lya~~~~lv~aavRlipLgQ~~gq~il~~l 186 (229)
T COG0830 156 FLYAWASNLVSAAVRLIPLGQLDGQKILAQL 186 (229)
T ss_pred HHHHHHHHHHHHHHHhcccCcHHHHHHHHHh
Confidence 3444556999999999999999999999876
No 44
>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=31.15 E-value=34 Score=30.64 Aligned_cols=19 Identities=21% Similarity=0.123 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHc
Q 012863 294 TALVIGVHELGHILAAKST 312 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~~ 312 (455)
.+.-.++|||.|+++-..+
T Consensus 59 ~~~~tL~HEm~H~~~~~~~ 77 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVFG 77 (157)
T ss_pred HHHHHHHHHHHHHHhhhcc
Confidence 4457889999999996653
No 45
>PRK12462 phosphoserine aminotransferase; Provisional
Probab=30.90 E-value=83 Score=33.30 Aligned_cols=67 Identities=12% Similarity=0.162 Sum_probs=46.0
Q ss_pred cccccCCCChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 012863 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (455)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (455)
....+..+|+|.++++++++.-|.. -+-+++=.+---.+=.++|+.++++|+++|+ +.|.+++++-.
T Consensus 8 F~aGPa~lp~~Vl~~~~~~~~~~~~--------~g~si~eisHRs~~F~~i~~~~~~~Lr~Ll~~P~~y~Vlfl~Gg 76 (364)
T PRK12462 8 FSGGPGALPDTVLEQVRQAVVELPE--------TGLSVLGMSHRSSWFSSLLAQAEADLRDLLGIPDEYGVVFLQGG 76 (364)
T ss_pred ecCCCcCCCHHHHHHHHHHHhcccc--------cCccccccccccHHHHHHHHHHHHHHHHHhCCCCCCeEEEEecc
Confidence 4567889999999999975433321 1123333333234568899999999999998 68988777654
No 46
>PRK11037 hypothetical protein; Provisional
Probab=29.92 E-value=1.3e+02 Score=25.84 Aligned_cols=65 Identities=20% Similarity=0.386 Sum_probs=42.8
Q ss_pred ccCCCChhHH-----HHhhcccccceeeeeccccccCceEEEEeccC----C----chHHHHHHHHHHHHhhhCCceEE
Q 012863 152 EYIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR----G----QAAKTYEKISTRMKNKFGDQYKL 217 (455)
Q Consensus 152 ~~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR----~----~~e~~y~~l~~~l~~~fGd~y~l 217 (455)
+..+|++++| +.||+.===+..-.+|++|-..+..+|||..= | +...||.. =+-|.-.+..+|.|
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 33455556677876
No 47
>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=29.83 E-value=32 Score=33.94 Aligned_cols=20 Identities=25% Similarity=0.426 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHcC
Q 012863 294 TALVIGVHELGHILAAKSTG 313 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~~G 313 (455)
.+.+.++||+||-+=+.+=+
T Consensus 166 ~~a~t~AHElGHnlGm~HD~ 185 (244)
T cd04270 166 ESDLVTAHELGHNFGSPHDP 185 (244)
T ss_pred HHHHHHHHHHHHhcCCCCCC
Confidence 35578999999998776433
No 48
>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=29.41 E-value=24 Score=32.71 Aligned_cols=20 Identities=40% Similarity=0.531 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 012863 295 ALVIGVHELGHILAAKSTGV 314 (455)
Q Consensus 295 l~iL~iHElGH~laAr~~Gv 314 (455)
.+.+++||+||.+=+.+-+.
T Consensus 133 ~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 133 TALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred ehhhhhhhHHhhcCCcCCCC
Confidence 35688999999998887664
No 49
>PRK03001 M48 family peptidase; Provisional
Probab=28.91 E-value=34 Score=34.35 Aligned_cols=12 Identities=33% Similarity=0.426 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (283)
T PRK03001 125 RGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHh
Confidence 468899999975
No 50
>PRK03982 heat shock protein HtpX; Provisional
Probab=28.19 E-value=36 Score=34.28 Aligned_cols=12 Identities=42% Similarity=0.362 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||.-
T Consensus 126 ~AVlAHElgHi~ 137 (288)
T PRK03982 126 EGVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHHH
Confidence 468899999974
No 51
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=27.88 E-value=20 Score=34.45 Aligned_cols=20 Identities=25% Similarity=0.134 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012863 297 VIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 297 iL~iHElGH~laAr~~Gvkv 316 (455)
-.++||+||.+=|++-+-.-
T Consensus 139 ~~~aHEiGH~lGl~H~~~~~ 158 (206)
T PF13583_consen 139 QTFAHEIGHNLGLRHDFDYS 158 (206)
T ss_pred hHHHHHHHHHhcCCCCcccC
Confidence 34889999999998877643
No 52
>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=27.38 E-value=38 Score=31.44 Aligned_cols=13 Identities=31% Similarity=0.345 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHH
Q 012863 297 VIGVHELGHILAA 309 (455)
Q Consensus 297 iL~iHElGH~laA 309 (455)
=+++||++|.++-
T Consensus 137 DVvaHEltHGVte 149 (150)
T PF01447_consen 137 DVVAHELTHGVTE 149 (150)
T ss_dssp HHHHHHHHHHHHH
T ss_pred ceeeecccccccc
Confidence 3789999999863
No 53
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=27.14 E-value=37 Score=30.97 Aligned_cols=20 Identities=25% Similarity=0.280 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHcCCccC
Q 012863 298 IGVHELGHILAAKSTGVELG 317 (455)
Q Consensus 298 L~iHElGH~laAr~~Gvkvs 317 (455)
-+.||++|+|.-|.||.-..
T Consensus 82 TL~HEL~H~WQ~RsYG~i~P 101 (141)
T PHA02456 82 TLAHELNHAWQFRTYGLVQP 101 (141)
T ss_pred HHHHHHHHHHhhhccceeee
Confidence 35899999999999998653
No 54
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=26.59 E-value=1e+02 Score=31.99 Aligned_cols=61 Identities=16% Similarity=0.312 Sum_probs=43.3
Q ss_pred hhHHHHhhcccccc-eeeeeccccccCceEEEEeccCC--chHHHHHHHHHHHHhhhCCceEEEEEec
Q 012863 158 KETIDILKDQVFGF-DTFFVTNQEPYEGGVLFKGNLRG--QAAKTYEKISTRMKNKFGDQYKLFLLVN 222 (455)
Q Consensus 158 ~edl~~ik~~~Fg~-dtF~~t~~~~~~~gvi~rGnLR~--~~e~~y~~l~~~l~~~fGd~y~lfl~~~ 222 (455)
.|.+++||. .||= .+||+||+-.--.|--+-++.-. +..+.++.+...|++. | |.+|+++-
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 7777 99999998655555555444443 3467888888888884 7 66665554
No 55
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=26.53 E-value=37 Score=28.20 Aligned_cols=12 Identities=33% Similarity=0.650 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 012863 297 VIGVHELGHILA 308 (455)
Q Consensus 297 iL~iHElGH~la 308 (455)
.++.||++|.+-
T Consensus 63 ~llaHEl~Hv~Q 74 (79)
T PF13699_consen 63 ALLAHELAHVVQ 74 (79)
T ss_pred hhHhHHHHHHHh
Confidence 578999999874
No 56
>PF09471 Peptidase_M64: IgA Peptidase M64; InterPro: IPR019026 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This is a family of highly selective metallo-endopeptidases belonging to the MEROPS peptidase family M64 (IgA peptidase, clan MA). The primary structure of the Clostridium ramosum IgA peptidase shows no significant overall similarity to any other known metallo-endopeptidase []. ; PDB: 3P1V_A 4DF9_D.
Probab=26.44 E-value=28 Score=35.27 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHH
Q 012863 296 LVIGVHELGHILAA 309 (455)
Q Consensus 296 ~iL~iHElGH~laA 309 (455)
.-+++||+||.++-
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 57
>KOG3320 consensus 40S ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=26.37 E-value=92 Score=30.39 Aligned_cols=27 Identities=15% Similarity=0.321 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhhCCceEEEEEecC
Q 012863 197 AKTYEKISTRMKNKFGDQYKLFLLVNP 223 (455)
Q Consensus 197 e~~y~~l~~~l~~~fGd~y~lfl~~~~ 223 (455)
.+.|.+|...||.+|+|+|.+|+.+..
T Consensus 74 qki~~~LvreleKKF~gk~Vifia~Rr 100 (192)
T KOG3320|consen 74 QKIQVRLVRELEKKFSGKHVIFIAQRR 100 (192)
T ss_pred HHHHHHHHHHHHHhcCCceEEEEEeee
Confidence 455556666999999999999876654
No 58
>PLN02452 phosphoserine transaminase
Probab=26.33 E-value=1.2e+02 Score=31.91 Aligned_cols=67 Identities=9% Similarity=0.186 Sum_probs=47.6
Q ss_pred cccccCCCChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 012863 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (455)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (455)
....+..+|++.+++++.+.+-|. .-+-+++-.+---.+=.++++.++++|++.++ +.|.+++++-.
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 12334444444444567999999999999997 68988777554
No 59
>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=25.66 E-value=90 Score=25.22 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=25.1
Q ss_pred ccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCc
Q 012863 169 FGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQ 214 (455)
Q Consensus 169 Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~ 214 (455)
.-+||||+++.. |. ..+++..++|++.|++.+|+-
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 60
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=25.40 E-value=50 Score=29.94 Aligned_cols=18 Identities=22% Similarity=-0.023 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012863 294 TALVIGVHELGHILAAKS 311 (455)
Q Consensus 294 ll~iL~iHElGH~laAr~ 311 (455)
.+.-++.||++|+++-..
T Consensus 58 ~l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 58 RLRETLLHELCHAALYLF 75 (146)
T ss_pred HHHhhHHHHHHHHHHHHh
Confidence 334588999999999864
No 61
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=24.82 E-value=46 Score=32.69 Aligned_cols=12 Identities=50% Similarity=0.672 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..++.||+||..
T Consensus 158 ~aVlaHElgHi~ 169 (302)
T COG0501 158 EAVLAHELGHIK 169 (302)
T ss_pred HHHHHHHHHHHh
Confidence 367899999963
No 62
>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=24.47 E-value=52 Score=30.82 Aligned_cols=22 Identities=41% Similarity=0.499 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHcCC
Q 012863 293 VTALVIGVHELGHILAAKSTGV 314 (455)
Q Consensus 293 ~ll~iL~iHElGH~laAr~~Gv 314 (455)
..++.+++||+||.+=+.+-+.
T Consensus 129 ~~~a~~~AHelGH~lGm~HD~~ 150 (199)
T PF01421_consen 129 LSFAVIIAHELGHNLGMPHDGD 150 (199)
T ss_dssp HHHHHHHHHHHHHHTT---TTT
T ss_pred HHHHHHHHHHHHHhcCCCCCCC
Confidence 3445778999999987777666
No 63
>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=24.39 E-value=38 Score=33.51 Aligned_cols=25 Identities=20% Similarity=0.251 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCc
Q 012863 291 ALVTALVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 291 aL~ll~iL~iHElGH~laAr~~Gvk 315 (455)
..-...-+++||+||.+=-|+-...
T Consensus 129 ~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 129 SVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred chhHHHHHHHHHhhhhccccccCcC
Confidence 3445567899999999988876644
No 64
>PRK04897 heat shock protein HtpX; Provisional
Probab=24.21 E-value=47 Score=33.84 Aligned_cols=12 Identities=33% Similarity=0.274 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||..
T Consensus 138 ~aVlAHElgHi~ 149 (298)
T PRK04897 138 EGVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHHh
Confidence 368899999974
No 65
>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=23.35 E-value=46 Score=34.41 Aligned_cols=14 Identities=36% Similarity=0.496 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHH
Q 012863 297 VIGVHELGHILAAK 310 (455)
Q Consensus 297 iL~iHElGH~laAr 310 (455)
..++||+||++=..
T Consensus 224 ~tl~HE~GHa~h~~ 237 (427)
T cd06459 224 FTLAHELGHAFHSY 237 (427)
T ss_pred HHHHHHhhHHHHHH
Confidence 46799999976443
No 66
>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=23.20 E-value=50 Score=34.97 Aligned_cols=20 Identities=20% Similarity=0.288 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012863 297 VIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 297 iL~iHElGH~laAr~~Gvkv 316 (455)
..++||+||++-...-..+.
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 57899999999888776654
No 67
>PRK04860 hypothetical protein; Provisional
Probab=23.10 E-value=76 Score=29.94 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHcC
Q 012863 293 VTALVIGVHELGHILAAKSTG 313 (455)
Q Consensus 293 ~ll~iL~iHElGH~laAr~~G 313 (455)
..+.-++.||++|+++=..+|
T Consensus 61 ~~l~~~v~HEl~H~~~~~~~g 81 (160)
T PRK04860 61 AFIDEVVPHELAHLLVYQLFG 81 (160)
T ss_pred HHHHhHHHHHHHHHHHHHHcC
Confidence 455678899999999999988
No 68
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=23.06 E-value=37 Score=31.28 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHH
Q 012863 294 TALVIGVHELGHIL 307 (455)
Q Consensus 294 ll~iL~iHElGH~l 307 (455)
++...++||+||.+
T Consensus 108 ~vthvliHEIgHhF 121 (136)
T COG3824 108 QVTHVLIHEIGHHF 121 (136)
T ss_pred Hhhhhhhhhhhhhc
Confidence 55688999999975
No 69
>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=23.05 E-value=57 Score=32.57 Aligned_cols=14 Identities=29% Similarity=0.729 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHH
Q 012863 296 LVIGVHELGHILAA 309 (455)
Q Consensus 296 ~iL~iHElGH~laA 309 (455)
..+.+||.||++-=
T Consensus 90 vaVAAHEvGHAiQ~ 103 (222)
T PF04298_consen 90 VAVAAHEVGHAIQH 103 (222)
T ss_pred HHHHHHHHhHHHhc
Confidence 35789999999853
No 70
>PRK01345 heat shock protein HtpX; Provisional
Probab=22.84 E-value=51 Score=34.00 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||..
T Consensus 125 ~aVlAHElgHi~ 136 (317)
T PRK01345 125 AGVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHHH
Confidence 468899999985
No 71
>PRK03072 heat shock protein HtpX; Provisional
Probab=22.41 E-value=53 Score=33.31 Aligned_cols=12 Identities=33% Similarity=0.362 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHH
Q 012863 296 LVIGVHELGHIL 307 (455)
Q Consensus 296 ~iL~iHElGH~l 307 (455)
..+++||+||..
T Consensus 128 ~aVlAHElgHi~ 139 (288)
T PRK03072 128 RGVLGHELSHVY 139 (288)
T ss_pred HHHHHHHHHHHh
Confidence 367899999963
No 72
>PRK02391 heat shock protein HtpX; Provisional
Probab=22.11 E-value=55 Score=33.49 Aligned_cols=11 Identities=36% Similarity=0.582 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 012863 296 LVIGVHELGHI 306 (455)
Q Consensus 296 ~iL~iHElGH~ 306 (455)
..+++||+||.
T Consensus 134 ~aVlaHElgHi 144 (296)
T PRK02391 134 EAVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHHH
Confidence 36789999995
No 73
>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=21.66 E-value=1.5e+02 Score=25.45 Aligned_cols=64 Identities=16% Similarity=0.309 Sum_probs=36.2
Q ss_pred cCCCChhHH-----HHhhcccccceeeeeccccccCceEEEEeccC----Cch----HHHHHHHHHHHHhhhCCceEE
Q 012863 153 YIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR----GQA----AKTYEKISTRMKNKFGDQYKL 217 (455)
Q Consensus 153 ~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR----~~~----e~~y~~l~~~l~~~fGd~y~l 217 (455)
.-+|++++| +.||+.===+..-.+|++|-.++..+|||+.= |-| ..||. +=+-|.-.+.++|.|
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 35554221223357899999999999999942 222 34444 334466667888976
No 74
>PRK05457 heat shock protein HtpX; Provisional
Probab=21.62 E-value=57 Score=33.12 Aligned_cols=11 Identities=36% Similarity=0.573 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 012863 296 LVIGVHELGHI 306 (455)
Q Consensus 296 ~iL~iHElGH~ 306 (455)
..+++||+||.
T Consensus 135 ~aVlAHElgHi 145 (284)
T PRK05457 135 EAVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHHH
Confidence 36789999996
No 75
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=21.06 E-value=57 Score=31.26 Aligned_cols=20 Identities=35% Similarity=0.512 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHcCCc
Q 012863 296 LVIGVHELGHILAAKSTGVE 315 (455)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvk 315 (455)
+.+++||+||-+=+.+-+..
T Consensus 146 ~~~~AHElGH~lG~~HD~~~ 165 (220)
T cd04272 146 VYTMTHELAHLLGAPHDGSP 165 (220)
T ss_pred HHHHHHHHHHHhCCCCCCCC
Confidence 47889999999988876654
No 76
>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=21.03 E-value=49 Score=31.10 Aligned_cols=20 Identities=30% Similarity=0.105 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHcCCcc
Q 012863 297 VIGVHELGHILAAKSTGVEL 316 (455)
Q Consensus 297 iL~iHElGH~laAr~~Gvkv 316 (455)
..++||+||++-..+-.-+.
T Consensus 76 g~v~HE~~HalG~~HEh~R~ 95 (180)
T cd04280 76 GTIVHELMHALGFYHEQSRP 95 (180)
T ss_pred chhHHHHHHHhcCcchhccc
Confidence 57799999997665555554
No 77
>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=20.67 E-value=70 Score=32.96 Aligned_cols=15 Identities=27% Similarity=0.330 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHH
Q 012863 297 VIGVHELGHILAAKS 311 (455)
Q Consensus 297 iL~iHElGH~laAr~ 311 (455)
.+++||+||.+-...
T Consensus 172 yVlAHEyGHHVQ~l~ 186 (292)
T PF04228_consen 172 YVLAHEYGHHVQNLL 186 (292)
T ss_pred HHHHHHHHHHHHHHh
Confidence 468999999986543
No 78
>TIGR03490 Mycoplas_LppA mycoides cluster lipoprotein, LppA/P72 family. Members of this protein family occur in Mycoplasma mycoides, Mycoplasma hyopneumoniae, and related Mycoplasmas in small paralogous families that may also include truncated forms and/or pseudogenes. Members are predicted lipoproteins with a conserved signal peptidase II processing and lipid attachment site. Note that the name for certain characterized members, p72, reflects an anomalous apparent molecular weight, given a theoretical MW of about 61 kDa.
Probab=20.59 E-value=9.7e+02 Score=27.11 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=21.0
Q ss_pred cccCCCChhHHHHhhccc-ccceeeeeccc
Q 012863 151 DEYIRIPKETIDILKDQV-FGFDTFFVTNQ 179 (455)
Q Consensus 151 ~~~~~i~~edl~~ik~~~-Fg~dtF~~t~~ 179 (455)
.+.-+.+--||++|+.++ |-..|||.+.-
T Consensus 121 p~~nkvdFsdldkL~keisf~~~t~Y~~~D 150 (541)
T TIGR03490 121 PNNNKVDFSDLDKLKKELSFENFTLYSQKD 150 (541)
T ss_pred cccccchHHHHHHhhhhhccccceeeecCC
Confidence 456678888999998754 55667777653
No 79
>TIGR01364 serC_1 phosphoserine aminotransferase. This model represents the common form of the phosphoserine aminotransferase SerC. The phosphoserine aminotransferase of the archaeon Methanosarcina barkeri and putative phosphoserine aminotransferase of Mycobacterium tuberculosis are represented by separate models. All are members of the class V aminotransferases (pfam00266).
Probab=20.41 E-value=1.7e+02 Score=30.22 Aligned_cols=60 Identities=10% Similarity=0.208 Sum_probs=42.0
Q ss_pred CCChhHHHHhhcccccceeeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEec
Q 012863 155 RIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVN 222 (455)
Q Consensus 155 ~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~ 222 (455)
..|.+.++++++ ||.+.- .-.-|..-.+.--.+-.+.|+.++++|++.|+ ++|.++++..
T Consensus 2 ~~p~~v~~~~~~-------~~~~~~-~~~~~~~~~~hr~~~f~~~~~~~~~~l~~l~~~~~~~~v~~~~g 63 (349)
T TIGR01364 2 ALPEEVLEQAQK-------ELLNFN-GTGMSVMEISHRSKEFEAVANEAESDLRELLNIPDNYEVLFLQG 63 (349)
T ss_pred CCCHHHHHHHHH-------HHhCcc-CCCccccccCCCchHHHHHHHHHHHHHHHHhCCCCCceEEEEcC
Confidence 368889999998 444333 33345555554444556999999999999998 5788876665
Done!