Query 009606
Match_columns 531
No_of_seqs 320 out of 1301
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 15:09:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009606.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009606hhsearch_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 4.5E-31 9.7E-36 252.4 18.9 177 254-479 3-181 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.9 3.8E-25 8.3E-30 217.7 20.7 134 279-450 37-170 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.9 1.8E-23 3.8E-28 202.9 19.1 128 282-449 25-152 (208)
4 cd06163 S2P-M50_PDZ_RseP-like 99.9 7.5E-21 1.6E-25 182.0 15.0 112 289-447 3-145 (182)
5 cd05709 S2P-M50 Site-2 proteas 99.8 1.2E-20 2.6E-25 177.3 13.6 139 289-451 2-156 (180)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.8 4.4E-19 9.5E-24 178.6 18.4 119 284-449 107-228 (263)
7 PF02163 Peptidase_M50: Peptid 99.8 7.3E-19 1.6E-23 166.1 10.9 127 290-446 2-157 (192)
8 cd06162 S2P-M50_PDZ_SREBP Ster 99.8 9E-18 1.9E-22 170.1 15.6 113 290-450 130-249 (277)
9 cd06158 S2P-M50_like_1 Unchara 99.7 4.4E-18 9.5E-23 162.5 10.8 135 290-453 4-159 (181)
10 TIGR00054 RIP metalloprotease 99.5 1.2E-13 2.7E-18 146.9 16.3 80 290-369 9-119 (420)
11 PRK10779 zinc metallopeptidase 99.5 1.6E-13 3.5E-18 147.0 15.2 82 287-369 7-119 (449)
12 COG1994 SpoIVFB Zn-dependent p 99.3 2.1E-11 4.5E-16 120.4 14.5 128 284-451 41-176 (230)
13 COG0750 Predicted membrane-ass 98.9 2.1E-09 4.6E-14 111.2 5.5 244 167-450 82-338 (375)
14 PF13398 Peptidase_M50B: Pepti 97.4 0.00059 1.3E-08 66.6 8.1 65 296-368 23-88 (200)
15 KOG2921 Intramembrane metallop 96.3 0.0041 8.9E-08 66.6 4.5 83 285-369 120-206 (484)
16 COG0750 Predicted membrane-ass 96.2 0.015 3.2E-07 60.6 8.0 81 289-369 7-120 (375)
17 PF11667 DUF3267: Protein of u 69.3 2.6 5.6E-05 37.3 1.4 69 295-370 4-72 (111)
18 PF00413 Peptidase_M10: Matrix 61.2 4.9 0.00011 36.4 1.7 20 296-315 106-125 (154)
19 cd04279 ZnMc_MMP_like_1 Zinc-d 58.3 6 0.00013 36.5 1.8 22 295-316 104-125 (156)
20 PF07423 DUF1510: Protein of u 53.2 11 0.00023 38.2 2.6 54 173-230 159-213 (217)
21 PF13485 Peptidase_MA_2: Pepti 49.6 13 0.00029 31.5 2.4 18 297-314 27-44 (128)
22 cd04268 ZnMc_MMP_like Zinc-dep 48.8 11 0.00024 34.5 1.9 21 294-314 93-113 (165)
23 cd04278 ZnMc_MMP Zinc-dependen 48.2 8.1 0.00017 35.8 0.9 22 295-316 107-128 (157)
24 PTZ00429 beta-adaptin; Provisi 48.2 17 0.00036 42.8 3.6 36 73-108 606-641 (746)
25 PF05572 Peptidase_M43: Pregna 48.1 9 0.00019 36.3 1.2 13 296-308 70-82 (154)
26 PF01435 Peptidase_M48: Peptid 43.6 15 0.00033 35.0 2.0 12 296-307 90-101 (226)
27 PF06114 DUF955: Domain of unk 41.9 16 0.00035 30.8 1.7 16 298-313 45-60 (122)
28 KOG1832 HIV-1 Vpr-binding prot 40.2 28 0.00061 41.9 3.7 18 5-22 1354-1371(1516)
29 cd04277 ZnMc_serralysin_like Z 39.9 16 0.00034 34.8 1.5 22 296-317 114-135 (186)
30 smart00235 ZnMc Zinc-dependent 39.2 16 0.00034 33.0 1.3 20 298-317 89-108 (140)
31 PF01434 Peptidase_M41: Peptid 39.2 24 0.00052 34.8 2.7 18 297-314 30-47 (213)
32 cd00203 ZnMc Zinc-dependent me 38.8 16 0.00034 33.5 1.2 21 294-314 95-115 (167)
33 PF13582 Reprolysin_3: Metallo 38.1 16 0.00035 32.0 1.2 14 297-310 109-122 (124)
34 PF14247 DUF4344: Domain of un 37.5 33 0.00073 34.7 3.4 25 291-316 88-112 (220)
35 PF12315 DUF3633: Protein of u 36.8 24 0.00053 35.6 2.3 28 285-315 85-112 (212)
36 PF14891 Peptidase_M91: Effect 35.9 24 0.00051 33.8 2.0 17 295-311 103-119 (174)
37 PF13574 Reprolysin_2: Metallo 35.7 19 0.00042 34.3 1.3 21 295-315 111-131 (173)
38 PF13688 Reprolysin_5: Metallo 34.8 19 0.00042 34.2 1.2 21 295-315 142-162 (196)
39 PF11085 YqhR: Conserved membr 34.0 3.9E+02 0.0083 26.5 9.8 97 417-519 33-150 (173)
40 PF02031 Peptidase_M7: Strepto 32.8 27 0.00058 32.9 1.7 10 298-307 80-89 (132)
41 cd04327 ZnMc_MMP_like_3 Zinc-d 31.8 26 0.00056 34.0 1.5 19 297-315 94-112 (198)
42 cd04269 ZnMc_adamalysin_II_lik 31.7 31 0.00068 32.9 2.1 20 295-314 131-150 (194)
43 cd04270 ZnMc_TACE_like Zinc-de 31.3 30 0.00064 34.9 1.9 19 294-312 166-184 (244)
44 PRK11037 hypothetical protein; 29.8 1.3E+02 0.0027 26.3 5.1 65 152-217 4-81 (83)
45 PRK03001 M48 family peptidase; 29.7 33 0.00071 35.3 2.0 12 296-307 125-136 (283)
46 COG2856 Predicted Zn peptidase 29.5 29 0.00063 34.9 1.5 16 298-313 75-90 (213)
47 PRK03982 heat shock protein Ht 28.9 35 0.00075 35.2 2.0 12 296-307 126-137 (288)
48 PHA02456 zinc metallopeptidase 28.8 33 0.00072 31.8 1.6 18 299-316 83-100 (141)
49 PRK12462 phosphoserine aminotr 28.8 91 0.002 33.7 5.1 67 149-223 8-76 (364)
50 cd04267 ZnMc_ADAM_like Zinc-de 28.6 26 0.00056 33.3 0.9 20 295-314 133-152 (192)
51 PF13583 Reprolysin_4: Metallo 28.0 31 0.00067 34.0 1.3 17 298-314 140-156 (206)
52 PF09471 Peptidase_M64: IgA Pe 27.9 26 0.00056 36.2 0.8 14 296-309 217-230 (264)
53 PF10263 SprT-like: SprT-like 27.7 43 0.00094 30.7 2.2 19 294-312 59-77 (157)
54 smart00731 SprT SprT homologue 27.2 38 0.00082 31.4 1.7 16 296-311 60-75 (146)
55 COG0830 UreF Urease accessory 26.9 67 0.0015 32.8 3.5 31 417-447 158-188 (229)
56 PF12388 Peptidase_M57: Dual-a 26.2 34 0.00074 34.5 1.3 28 290-317 128-155 (211)
57 COG0501 HtpX Zn-dependent prot 25.9 43 0.00093 33.7 2.0 11 297-307 159-169 (302)
58 COG5309 Exo-beta-1,3-glucanase 25.5 1.1E+02 0.0023 32.5 4.7 61 158-222 218-281 (305)
59 COG3824 Predicted Zn-dependent 25.5 31 0.00068 32.3 0.8 14 294-307 108-121 (136)
60 PLN02452 phosphoserine transam 25.4 1.2E+02 0.0026 32.5 5.3 67 149-223 11-79 (365)
61 PRK04897 heat shock protein Ht 25.2 44 0.00096 34.8 2.0 12 296-307 138-149 (298)
62 KOG0391 SNF2 family DNA-depend 25.1 70 0.0015 40.0 3.7 21 175-195 599-619 (1958)
63 TIGR01241 FtsH_fam ATP-depende 24.9 38 0.00082 37.4 1.5 17 297-313 313-329 (495)
64 PF13699 DUF4157: Domain of un 24.2 45 0.00096 28.3 1.5 12 297-308 63-74 (79)
65 PF01447 Peptidase_M4: Thermol 24.0 49 0.0011 31.4 1.9 11 298-308 138-148 (150)
66 PRK01345 heat shock protein Ht 23.6 49 0.0011 34.9 2.0 12 296-307 125-136 (317)
67 PRK03072 heat shock protein Ht 23.2 51 0.0011 34.2 2.0 11 296-306 128-138 (288)
68 KOG3320 40S ribosomal protein 23.2 1.1E+02 0.0024 30.3 4.1 27 197-223 74-100 (192)
69 TIGR03490 Mycoplas_LppA mycoid 23.1 2E+02 0.0043 32.9 6.5 29 151-179 121-150 (541)
70 PRK02391 heat shock protein Ht 22.7 53 0.0011 34.3 2.0 10 297-306 135-144 (296)
71 PF01421 Reprolysin: Reprolysi 22.5 60 0.0013 31.1 2.2 21 294-314 130-150 (199)
72 PRK05457 heat shock protein Ht 22.4 54 0.0012 34.0 2.0 11 296-306 135-145 (284)
73 PF10692 DUF2498: Protein of u 21.9 1.5E+02 0.0032 25.9 4.1 64 153-217 4-80 (82)
74 COG3091 SprT Zn-dependent meta 21.7 1.3E+02 0.0029 29.1 4.2 34 280-317 49-82 (156)
75 cd04927 ACT_ACR-like_2 Second 21.5 1.1E+02 0.0024 25.2 3.3 35 169-214 40-74 (76)
76 PLN02718 Probable galacturonos 21.5 89 0.0019 36.2 3.5 31 145-175 151-181 (603)
77 PRK01265 heat shock protein Ht 20.7 61 0.0013 34.6 2.0 10 297-306 142-151 (324)
78 PRK02870 heat shock protein Ht 20.4 63 0.0014 34.6 2.0 11 296-306 174-184 (336)
No 1
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=99.97 E-value=4.5e-31 Score=252.41 Aligned_cols=177 Identities=40% Similarity=0.706 Sum_probs=147.4
Q ss_pred HHHHHHHHHHHhccccccccccccccChHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceE
Q 009606 254 FGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAI 333 (531)
Q Consensus 254 l~l~T~~T~~~a~~~~L~~~~~~~~~~~~~l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAv 333 (531)
++++|+.+....+.-... + +..++++.+..++++++++++++++||+||+++||++|+|++.++++|...+|++|++
T Consensus 3 ~~~~s~~~~~~~~~~~~~-~--~~~~~~~~~~~~~~~~l~l~~~l~iHElgH~~~A~~~G~~~~~~~l~P~~~~G~~G~~ 79 (183)
T cd06160 3 LLVLTLLTTLLVGAWLSG-N--DVPGNPLLLLQGLPFALALLAILGIHEMGHYLAARRHGVKASLPYFIPFPFIGTFGAF 79 (183)
T ss_pred HHHHHHHHHHHHHHHHhc-c--cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCccceeeeehHhcCcEEEE
Confidence 456677766655421111 1 2236678888999999999999999999999999999999999999998779999999
Q ss_pred EecccccCCcccceeeEecchhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccch
Q 009606 334 TRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVN 413 (531)
Q Consensus 334 i~~~s~~~~RkalfdIAiAGPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lh 413 (531)
++.++..++|+++++|++|||++|+++++++++++
T Consensus 80 ~~~~~~~~~~~~~~~IalAGPl~nl~lali~~~~~--------------------------------------------- 114 (183)
T cd06160 80 IRMRSPIPNRKALFDIALAGPLAGLLLALPVLIIG--------------------------------------------- 114 (183)
T ss_pred EEecCCCCChhHhehhhhhHHHHHHHHHHHHHHHH---------------------------------------------
Confidence 99988888999999999999999999988775543
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCChHHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhh--hHHHHHHHH
Q 009606 414 PLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKASTRLTGVSIVLLGLSSLFSD--VTFYWVVLV 479 (531)
Q Consensus 414 PL~~agwinLvltafNLLPigpLDGGrIl~Allgrr~a~~i~~~~~~lLGl~~l~~~--~~l~W~lli 479 (531)
+..++|+|+++++|||+|++|||||||+++++++|++.++++++.+++|+.++.++ .+++|+.++
T Consensus 115 -~~~~~~~nl~l~~fNLLPi~PLDGGril~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 181 (183)
T cd06160 115 -LAVAGWVGLLVTALNLLPVGQLDGGHIVRALFGRRVAALIGIGLLVALGLLALYLSFSIWLLWALLL 181 (183)
T ss_pred -HHHHHHHHHHHHHHHhCCCCCcChHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 12468999999999999999999999999999999999999999899998888765 455555443
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=3.8e-25 Score=217.67 Aligned_cols=134 Identities=30% Similarity=0.390 Sum_probs=111.7
Q ss_pred cChHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEecccccCCcccceeeEecchhhHH
Q 009606 279 DNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGF 358 (531)
Q Consensus 279 ~~~~~l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~~~RkalfdIAiAGPLAg~ 358 (531)
.+...+..|+.++++++.++++||+||+++||++|+++. .+.+.+||+++++++...++++++.|++|||++|+
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 445668889999999999999999999999999999998 77888899999999888889999999999999999
Q ss_pred HHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCCh
Q 009606 359 SLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDG 438 (531)
Q Consensus 359 vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigpLDG 438 (531)
+++++++++....+... .+. ....+.+.+|+|+++++|||+|++||||
T Consensus 111 lla~i~~~l~~~~~~~~------------~~~--------------------~~~~~~~~~~~Nl~l~~fNLlP~~PLDG 158 (227)
T cd06164 111 VLALLFLLLSLALPGSG------------AGP--------------------LGVLLGYLALINLLLAVFNLLPAFPLDG 158 (227)
T ss_pred HHHHHHHHHHHHhcccc------------chH--------------------HHHHHHHHHHHHHHHHHHhCcCCCCCCh
Confidence 99998877665432110 000 0112456789999999999999999999
Q ss_pred HHHHHHhhhhhH
Q 009606 439 GRIAFALWGRKA 450 (531)
Q Consensus 439 GrIl~Allgrr~ 450 (531)
|||+++++.++.
T Consensus 159 gril~~ll~~~~ 170 (227)
T cd06164 159 GRVLRALLWRRT 170 (227)
T ss_pred HHHHHHHHHHhc
Confidence 999999976654
No 3
>cd06161 S2P-M50_SpoIVFB SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) is one of 4 proteins involved in endospore formation; the others are SpoIVFA (sporulation protein, stage IV cell wall formation, F locus, promoter-proximal A), BofA (bypass-of-forespore A), and SpoIVB (sporulation protein, stage IV cell wall formation, B locus). SpoIVFB is negatively regulated by SpoIVFA and BofA and activated by SpoIVB. It is thought that SpoIVFB, SpoIVFA, and BofA are located in the mother-cell membrane that surrounds the forespore and that SpoIVB is secreted from the forespore into the space between the two where it activates SpoIVFB.
Probab=99.91 E-value=1.8e-23 Score=202.86 Aligned_cols=128 Identities=30% Similarity=0.435 Sum_probs=107.8
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEecccccCCcccceeeEecchhhHHHHH
Q 009606 282 NLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLG 361 (531)
Q Consensus 282 ~~l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~~~RkalfdIAiAGPLAg~vlA 361 (531)
..+..++.+++.++.++++||+||+++||++|+++. .+.+.+||+++++++...+|++++.|++|||++|++++
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 457788999999999999999999999999999997 78888899999998777789999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHH
Q 009606 362 FVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRI 441 (531)
Q Consensus 362 lill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigpLDGGrI 441 (531)
+++.++....+.. + .....+.+.+++|+++++|||+|+.|||||||
T Consensus 99 ~~~~~l~~~~~~~--------------~--------------------~~~~~~~~~~~~N~~l~lfNLlPi~pLDGg~i 144 (208)
T cd06161 99 GLFYLLYLLLPGG--------------G--------------------PLSSLLEFLAQVNLILGLFNLLPALPLDGGRV 144 (208)
T ss_pred HHHHHHHHHcccc--------------h--------------------HHHHHHHHHHHHHHHHHHHHccCCCCCChHHH
Confidence 8887655432110 0 00123456789999999999999999999999
Q ss_pred HHHhhhhh
Q 009606 442 AFALWGRK 449 (531)
Q Consensus 442 l~Allgrr 449 (531)
+++++.++
T Consensus 145 l~~ll~~~ 152 (208)
T cd06161 145 LRALLWRR 152 (208)
T ss_pred HHHHHHHh
Confidence 99997765
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=99.85 E-value=7.5e-21 Score=182.01 Aligned_cols=112 Identities=33% Similarity=0.458 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcccccccc---cc------------ceeeecceEEecccccC------------
Q 009606 289 PGALVTALVIGVHELGHILAAKSTGVELGVPYFV---PS------------WQIGSFGAITRIRNIVS------------ 341 (531)
Q Consensus 289 p~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fI---P~------------i~LgtfGAvi~~~s~~~------------ 341 (531)
.+.+++.+++++||+||+++||++|+++.. +.+ |. +.+.++||++++++...
T Consensus 3 ~~~i~l~~~v~iHElGH~~~Ar~~Gv~v~~-f~iGfGp~l~~~~~~~t~~~i~~iPlGGyv~~~~~~~~~~~~~~~~~~~ 81 (182)
T cd06163 3 AFILVLGILIFVHELGHFLVAKLFGVKVEE-FSIGFGPKLFSFKKGETEYSISAIPLGGYVKMLGEDPEEEADPEDDPRS 81 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeeeE-eeeecCceeeeeecCCeEEEEEEEEeccEEEecCCCcccccccccchHH
Confidence 355667778999999999999999999872 111 21 33567999998864321
Q ss_pred ----CcccceeeEecchhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHH
Q 009606 342 ----KREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVI 417 (531)
Q Consensus 342 ----~RkalfdIAiAGPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~ 417 (531)
++++++.|++|||++|+++|++++++. +.+
T Consensus 82 f~~~~~~~ri~V~lAGP~~NlilA~i~~~~~----------------------------------------------~~~ 115 (182)
T cd06163 82 FNSKPVWQRILIVFAGPLANFLLAIVLFAVL----------------------------------------------LSF 115 (182)
T ss_pred HccCCcchhhhhhhhHHHHHHHHHHHHHHHH----------------------------------------------HHH
Confidence 467899999999999999998764321 224
Q ss_pred HHHHHHHHHHHhhcCCCCCChHHHHHHhhh
Q 009606 418 WAWAGLLINAINSIPAGELDGGRIAFALWG 447 (531)
Q Consensus 418 agwinLvltafNLLPigpLDGGrIl~Allg 447 (531)
++++|+.+++|||+|++||||||++++++.
T Consensus 116 ~~~~n~~l~~fNLlPippLDGg~il~~~~~ 145 (182)
T cd06163 116 LALLSINLGILNLLPIPALDGGHLLFLLIE 145 (182)
T ss_pred HHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 678999999999999999999999999985
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=1.2e-20 Score=177.34 Aligned_cols=139 Identities=28% Similarity=0.328 Sum_probs=99.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcccc----ccccc-------cceeeecceEEecccccC-----CcccceeeEec
Q 009606 289 PGALVTALVIGVHELGHILAAKSTGVELGV----PYFVP-------SWQIGSFGAITRIRNIVS-----KREDLLKVAAA 352 (531)
Q Consensus 289 p~aL~L~~iL~iHElGH~laAr~~Gvk~s~----P~fIP-------~i~LgtfGAvi~~~s~~~-----~RkalfdIAiA 352 (531)
.+.+++++++.+||+||+++||++|+++.. ..+.| .+.+.++||++++.+... +|++++.|++|
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 356678889999999999999999998741 11111 122344699998877554 48899999999
Q ss_pred chhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcC
Q 009606 353 GPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIP 432 (531)
Q Consensus 353 GPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLP 432 (531)
||++|++++++++++.......... .. ..+ ......+.+.+++|+|+.+++|||+|
T Consensus 82 GPl~nllla~i~~~~~~~~~~~~~~----~~---~~~-----------------~~~~~~~~l~~~~~~n~~l~~fNLlP 137 (180)
T cd05709 82 GPLANLLLALLLLLLLLLLGGLPPA----PV---GQA-----------------ASSGLANLLAFLALINLNLAVFNLLP 137 (180)
T ss_pred hHHHHHHHHHHHHHHHHHHccCCcc----ch---hhh-----------------HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 9999999999988766543221000 00 000 00111245667899999999999999
Q ss_pred CCCCChHHHHHHhhhhhHH
Q 009606 433 AGELDGGRIAFALWGRKAS 451 (531)
Q Consensus 433 igpLDGGrIl~Allgrr~a 451 (531)
++|||||||+++++.++..
T Consensus 138 i~plDGg~il~~~l~~~~~ 156 (180)
T cd05709 138 IPPLDGGRILRALLEAIRG 156 (180)
T ss_pred CCCCChHHHHHHHHhHHHH
Confidence 9999999999999887654
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=99.82 E-value=4.4e-19 Score=178.64 Aligned_cols=119 Identities=26% Similarity=0.325 Sum_probs=93.2
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEeccccc---CCcccceeeEecchhhHHHH
Q 009606 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIV---SKREDLLKVAAAGPLAGFSL 360 (531)
Q Consensus 284 l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~---~~RkalfdIAiAGPLAg~vl 360 (531)
+...+.+.++++.++.+||+||+++||++|+++..--+ .+.+.++||+++.++.. .++++++.|++|||++|+++
T Consensus 107 ~i~~~~~~iaL~isv~iHElgHa~~Ar~~G~~V~~iGl--~l~~ip~Gg~v~~~~~~~~~~~~~~~~~Ia~AGP~~Nlvl 184 (263)
T cd06159 107 FIPLPYGIIALVVGVVVHELSHGILARVEGIKVKSGGL--LLLIIPPGAFVEPDEEELNKADRRIRLRIFAAGVTANFVV 184 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCEECchhH--HHHhhhcEEEEEecchhhccCChhheeeeeeehHHHHHHH
Confidence 34556667788889999999999999999999983111 01123478999886544 46789999999999999999
Q ss_pred HHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHH
Q 009606 361 GFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGR 440 (531)
Q Consensus 361 Alill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigpLDGGr 440 (531)
|++++++.. +.+..|+|+.+++|||+|+.||||||
T Consensus 185 a~i~~~l~~---------------------------------------------l~~~~~~N~~l~lFNLlP~~PLDGg~ 219 (263)
T cd06159 185 ALIAFALFF---------------------------------------------LYWIFWINFLLGLFNCLPAIPLDGGH 219 (263)
T ss_pred HHHHHHHHH---------------------------------------------HHHHHHHHHHHHHHhCCCCCCCChHH
Confidence 987754321 22457899999999999999999999
Q ss_pred HHHHhhhhh
Q 009606 441 IAFALWGRK 449 (531)
Q Consensus 441 Il~Allgrr 449 (531)
++++++..+
T Consensus 220 il~~ll~~~ 228 (263)
T cd06159 220 VFRDLLEAL 228 (263)
T ss_pred HHHHHHHHH
Confidence 999996543
No 7
>PF02163 Peptidase_M50: Peptidase family M50; InterPro: IPR008915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This entry contains metallopeptidases belonging to MEROPS peptidase family M50 (S2P protease family, clan MM). Members of the M50 metallopeptidase family include: mammalian sterol-regulatory element binding protein (SREBP) site 2 protease, Escherichia coli protease EcfE, stage IV sporulation protein FB and various hypothetical bacterial and eukaryotic homologues. A number of proteins are classified as non-peptidase homologues as they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity.; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 3B4R_A 3ID4_A 3ID2_A 2ZPL_B 3ID1_A 2ZPM_A 3ID3_B 2HGA_A.
Probab=99.78 E-value=7.3e-19 Score=166.12 Aligned_cols=127 Identities=28% Similarity=0.345 Sum_probs=79.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccccccc----cc------c----ceeeecceE---------------Eeccccc
Q 009606 290 GALVTALVIGVHELGHILAAKSTGVELGVPYF----VP------S----WQIGSFGAI---------------TRIRNIV 340 (531)
Q Consensus 290 ~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~f----IP------~----i~LgtfGAv---------------i~~~s~~ 340 (531)
+.+++++++.+||+||+++|+++|+|+..... .+ . +.+.++|++ ...+...
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 35667789999999999999999999975421 11 0 011123332 2222234
Q ss_pred CCcccceeeEecchhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHH
Q 009606 341 SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAW 420 (531)
Q Consensus 341 ~~RkalfdIAiAGPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agw 420 (531)
.+|++.+.|++|||++|++++++++.+......... ......+.+.+++|
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 567889999999999999999888766543211000 01122356778999
Q ss_pred HHHHHHHHhhcCCCCCChHHHHHHhh
Q 009606 421 AGLLINAINSIPAGELDGGRIAFALW 446 (531)
Q Consensus 421 inLvltafNLLPigpLDGGrIl~All 446 (531)
+|+.++++||+|++||||||++++++
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 99999999999999999999999998
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=9e-18 Score=170.15 Aligned_cols=113 Identities=25% Similarity=0.231 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeec----ceEEecccc---cCCcccceeeEecchhhHHHHHH
Q 009606 290 GALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSF----GAITRIRNI---VSKREDLLKVAAAGPLAGFSLGF 362 (531)
Q Consensus 290 ~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~Lgtf----GAvi~~~s~---~~~RkalfdIAiAGPLAg~vlAl 362 (531)
+.++++.++.+||+||+++|+++|+++. .+.+..| ||+++..+. ..++++++.|+.|||++|+++|+
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 3456788999999999999999999998 5544444 899988443 23567799999999999999998
Q ss_pred HHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHH
Q 009606 363 VLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIA 442 (531)
Q Consensus 363 ill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigpLDGGrIl 442 (531)
+++++.+. .-+.+.+++|+.+++|||+|+.|||||||+
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 77643210 012356789999999999999999999999
Q ss_pred HHhhhhhH
Q 009606 443 FALWGRKA 450 (531)
Q Consensus 443 ~Allgrr~ 450 (531)
++++.++.
T Consensus 242 ~~ll~~~~ 249 (277)
T cd06162 242 STFLEATL 249 (277)
T ss_pred HHHHHHHh
Confidence 99976543
No 9
>cd06158 S2P-M50_like_1 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with a minimal core protein and no PDZ domains.
Probab=99.75 E-value=4.4e-18 Score=162.49 Aligned_cols=135 Identities=25% Similarity=0.308 Sum_probs=90.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccc----cccccc--------ce--ee--ecceEEecc-----cccCCccccee
Q 009606 290 GALVTALVIGVHELGHILAAKSTGVELGV----PYFVPS--------WQ--IG--SFGAITRIR-----NIVSKREDLLK 348 (531)
Q Consensus 290 ~aL~L~~iL~iHElGH~laAr~~Gvk~s~----P~fIP~--------i~--Lg--tfGAvi~~~-----s~~~~Rkalfd 348 (531)
..++++.++..||+||+++|+++|+++.. -.+-|. +. +. ..+++.+.. ...++|++++.
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 44567778999999999999999999863 111121 00 11 023343321 22345788999
Q ss_pred eEecchhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHH
Q 009606 349 VAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAI 428 (531)
Q Consensus 349 IAiAGPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltaf 428 (531)
|++|||++|+++++++.++........+ ...+.+ ...+....++|+.+++|
T Consensus 84 valAGP~~n~~la~i~~~~~~~~~~~~~---------~~~~~l--------------------~~~~~~~~~~Ni~l~lf 134 (181)
T cd06158 84 VSLAGPLSNLLLALLFALLLRLLPAFGG---------VVASFL--------------------FLMLAYGVLINLVLAVF 134 (181)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHhccccc---------hhhHHH--------------------HHHHHHHHHHHHHHHHH
Confidence 9999999999999887655433211100 000111 11234567899999999
Q ss_pred hhcCCCCCChHHHHHHhhhhhHHHH
Q 009606 429 NSIPAGELDGGRIAFALWGRKASTR 453 (531)
Q Consensus 429 NLLPigpLDGGrIl~Allgrr~a~~ 453 (531)
||+|++|||||||+++++.++...+
T Consensus 135 NLlPipPLDG~~il~~~l~~~~~~~ 159 (181)
T cd06158 135 NLLPIPPLDGSKILAALLPRRLAEA 159 (181)
T ss_pred HhCCCCCCChHHHHHHHcchhHHHH
Confidence 9999999999999999998876543
No 10
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=99.54 E-value=1.2e-13 Score=146.94 Aligned_cols=80 Identities=26% Similarity=0.399 Sum_probs=60.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccc-ccc-cc------------cceeeecceEEecccc----------------
Q 009606 290 GALVTALVIGVHELGHILAAKSTGVELGV-PYF-VP------------SWQIGSFGAITRIRNI---------------- 339 (531)
Q Consensus 290 ~aL~L~~iL~iHElGH~laAr~~Gvk~s~-P~f-IP------------~i~LgtfGAvi~~~s~---------------- 339 (531)
+.+.+.+++++||+||+++||++|+++.. ... =| .+.+.++|+++++...
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 35566778899999999999999999861 111 12 1336789999998411
Q ss_pred -cCCcccceeeEecchhhHHHHHHHHHHHHh
Q 009606 340 -VSKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (531)
Q Consensus 340 -~~~RkalfdIAiAGPLAg~vlAlill~lGl 369 (531)
..+.++++.|++|||++|+++|++++++.+
T Consensus 89 ~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 89 NNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred ccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 035578899999999999999998877543
No 11
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.51 E-value=1.6e-13 Score=146.99 Aligned_cols=82 Identities=21% Similarity=0.360 Sum_probs=61.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHcCCcccccccc---cc-------------ceeeecceEEecccc-----------
Q 009606 287 GLPGALVTALVIGVHELGHILAAKSTGVELGVPYFV---PS-------------WQIGSFGAITRIRNI----------- 339 (531)
Q Consensus 287 glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fI---P~-------------i~LgtfGAvi~~~s~----------- 339 (531)
.+.+.+++.+++++||+||+++||++|+++.. |.| |. +-+.++||+.+|...
T Consensus 7 i~~fil~l~~li~vHElGHfl~Ar~~gv~V~~-FsiGfGp~l~~~~~~~~Tey~i~~iPlGGyVk~~~e~~~~~~~~~~~ 85 (449)
T PRK10779 7 LAAFIVALGVLITVHEFGHFWVARRCGVRVER-FSIGFGKALWRRTDRQGTEYVIALIPLGGYVKMLDERVEPVAPELRH 85 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCeeeE-EEeecChhHeeEecCCCcEEEEEEEcCCCeeecCCCCCCcCChhhhh
Confidence 34456667778899999999999999999983 111 21 235678999987532
Q ss_pred ----cCCcccceeeEecchhhHHHHHHHHHHHHh
Q 009606 340 ----VSKREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (531)
Q Consensus 340 ----~~~RkalfdIAiAGPLAg~vlAlill~lGl 369 (531)
.++.++++.|.+|||++|+++|++++.+-+
T Consensus 86 ~~f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~ 119 (449)
T PRK10779 86 HAFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVF 119 (449)
T ss_pred hhhccCCHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 123578899999999999999998865544
No 12
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=99.33 E-value=2.1e-11 Score=120.45 Aligned_cols=128 Identities=24% Similarity=0.310 Sum_probs=84.5
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEecccccCCcccceeeEec--------chh
Q 009606 284 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAA--------GPL 355 (531)
Q Consensus 284 l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~~~RkalfdIAiA--------GPL 355 (531)
+..+....++++..+..||+||...++++|++.. .+.++.+|++...+..+.+.+..+.+..+ ||+
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 4555555555777899999999999999999987 44443477777777666565555555544 555
Q ss_pred hHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCC
Q 009606 356 AGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGE 435 (531)
Q Consensus 356 Ag~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigp 435 (531)
.|+++++++ .. ..+.. .. ..+...-+...+.+|+++++|||+|++|
T Consensus 115 ~ni~la~~~-~~--~~~~~-----------~~--------------------~~~~~~~~~~la~~Nl~L~lFNLiPi~P 160 (230)
T COG1994 115 TNIALAVLG-LL--ALSLF-----------LY--------------------HSVLFAFLAALALVNLVLALFNLLPIPP 160 (230)
T ss_pred HHHHHHHHH-HH--hhccc-----------cc--------------------chhHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 555444333 00 00000 00 0000112235677999999999999999
Q ss_pred CChHHHHHHhhhhhHH
Q 009606 436 LDGGRIAFALWGRKAS 451 (531)
Q Consensus 436 LDGGrIl~Allgrr~a 451 (531)
|||||++|+++.++..
T Consensus 161 LDGg~vlr~~~~~~~~ 176 (230)
T COG1994 161 LDGGRVLRALLPRRYG 176 (230)
T ss_pred CChHHHHHHHccHHHH
Confidence 9999999999887765
No 13
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=98.86 E-value=2.1e-09 Score=111.15 Aligned_cols=244 Identities=14% Similarity=0.049 Sum_probs=137.0
Q ss_pred cccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecCCCCCcEEEEEcCCCCCCCCCChh
Q 009606 167 QVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNPEDDKPVAVVVPRKTLQPETTAVP 246 (531)
Q Consensus 167 ~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~~~~kPv~~v~P~~~~~p~~~~~~ 246 (531)
.+++.++|+.....+ ...+++.|.+.......+..+...+ ..|..+ ...|+.. + .. ..
T Consensus 82 ~~~~~~~f~~~~~~~-~~~~~~~Gp~~n~i~~~~~~~~~~~--~~G~~~---------~~~~~~~---~--v~---~~-- 139 (375)
T COG0750 82 PEPRPRAFNAKSVWQ-RIAIVFAGPLFNFILAIVLFVVLFF--VIGLVP---------VASPVVG---E--VA---PK-- 139 (375)
T ss_pred cCcchhhhhcccccc-hhheeechHHHHHHHHHHHHHhhhe--Eeeeee---------eccCeee---e--cC---CC--
Confidence 588899999999999 9999999999988766655544333 223111 1122211 0 00 00
Q ss_pred HHHHHHHHHHHHHHHHHHhccccccccccccccChHHHHhhHHHHHH----HHHHHHHH--HHHHHHHHHHcCCcccccc
Q 009606 247 EWFAAGAFGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTNGLPGALV----TALVIGVH--ELGHILAAKSTGVELGVPY 320 (531)
Q Consensus 247 ~~~~~~ll~l~T~~T~~~a~~~~L~~~~~~~~~~~~~l~~glp~aL~----L~~iL~iH--ElGH~laAr~~Gvk~s~P~ 320 (531)
..+..+.+..|...+..+- +...+++........... .+.+.+.| +..|+.+++.++.....|+
T Consensus 140 ---------s~a~~a~l~~Gd~iv~~~~-~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~P~ 209 (375)
T COG0750 140 ---------SAAALAGLRPGDRIVAVDG-EKVASWDDVRRLLVAAAGDVFNLLTILVIRLDGEAHAVAAEIIKSLGLTPV 209 (375)
T ss_pred ---------CHHHHcCCCCCCEEEeECC-EEccCHHHHHHHHHhccCCcccceEEEEEeccceeeeccccceeeEeeecc
Confidence 0111223333333322221 112223222211111111 34567788 9999999998888888898
Q ss_pred ccccceeeecceEEe--cccccCC-----cccceeeEecchhhHHHHHHHHHHHHhhcCCCCCCcccccccchhhhhhhh
Q 009606 321 FVPSWQIGSFGAITR--IRNIVSK-----REDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAG 393 (531)
Q Consensus 321 fIP~i~LgtfGAvi~--~~s~~~~-----RkalfdIAiAGPLAg~vlAlill~lGl~ls~s~~~~~~v~~~~f~~s~L~g 393 (531)
++| ...+..++.++ ..+..++ ++...++..+++++. .+.-...++++.+.... ......++.+.+.|
T Consensus 210 ~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~~-~v~~~~~~~~~~~~~l~----~~~~~~~~~~~l~G 283 (375)
T COG0750 210 VIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVGL-AVEKTGRLVKLTLKMLK----KLITGDLSLKNLSG 283 (375)
T ss_pred eec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHHH-HHHHHHHHHHHHHHHHH----HheecccccccccC
Confidence 876 44555554443 3333444 788999999999994 33334434433321000 00011112222222
Q ss_pred hhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHhhhhhH
Q 009606 394 GFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKA 450 (531)
Q Consensus 394 ~la~l~LG~~l~~~~~v~lhPL~~agwinLvltafNLLPigpLDGGrIl~Allgrr~ 450 (531)
.+.....+.... .....|++.+++|+|+.++++||+|+++|||||+++.++.+..
T Consensus 284 pi~i~~~~~~~~--~~~~~~~l~~~~~lsi~lg~lNllP~p~LDGG~i~~~~~e~~~ 338 (375)
T COG0750 284 PIGIAKIAGAAA--SLGLINLLFFLALLSINLGILNLLPIPPLDGGHLLFYLLEALR 338 (375)
T ss_pred ceehhhhhhHHH--hhHHHHHHHHHHHHHHHHHHHhccCCCccCccHHHHHHHHHHh
Confidence 221111111000 1234689999999999999999999999999999999986654
No 14
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=97.38 E-value=0.00059 Score=66.60 Aligned_cols=65 Identities=31% Similarity=0.274 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHHcCCccccccccccceeee-cceEEecccccCCcccceeeEecchhhHHHHHHHHHHHH
Q 009606 296 LVIGVHELGHILAAKSTGVELGVPYFVPSWQIGS-FGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVG 368 (531)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~Lgt-fGAvi~~~s~~~~RkalfdIAiAGPLAg~vlAlill~lG 368 (531)
....+||+||+++|...|-++. .+.+.+ -++.+..+. +++-..+.++.|||++..+++..++..+
T Consensus 23 l~t~~HE~gHal~a~l~G~~v~------~i~l~~~~~G~~~~~~--~~~~~~~~i~~aGyl~~~l~g~~~~~~~ 88 (200)
T PF13398_consen 23 LVTFVHELGHALAALLTGGRVK------GIVLFPDGSGVTVSSG--PSGIGRFLIALAGYLGPALFGLLLLWLL 88 (200)
T ss_pred HHHHHHHHHHHHHHHHhCCCcc------eEEEEeCCCceEEEec--CCCcchhHHhcccchHHHHHHHHHHHHH
Confidence 3578999999999999999998 655544 466777666 5666789999999999999887776655
No 15
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0041 Score=66.65 Aligned_cols=83 Identities=28% Similarity=0.280 Sum_probs=54.0
Q ss_pred HhhHHHH-HHHHHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEeccccc---CCcccceeeEecchhhHHHH
Q 009606 285 TNGLPGA-LVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIV---SKREDLLKVAAAGPLAGFSL 360 (531)
Q Consensus 285 ~~glp~a-L~L~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~---~~RkalfdIAiAGPLAg~vl 360 (531)
+.+++|. ..++..+.+||+||+|||.+.|+++. +|--.+..--=||++.+...- -..-....|.-||-.-||++
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 3445544 45667889999999999999999997 110011111126777654321 11223468999999999999
Q ss_pred HHHHHHHHh
Q 009606 361 GFVLFLVGF 369 (531)
Q Consensus 361 Alill~lGl 369 (531)
|+++.+.-.
T Consensus 198 allc~lal~ 206 (484)
T KOG2921|consen 198 ALLCVLALF 206 (484)
T ss_pred HHHHHHHHH
Confidence 988865543
No 16
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=96.21 E-value=0.015 Score=60.58 Aligned_cols=81 Identities=27% Similarity=0.378 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccccccc--cc-------c------ceeeecceEEecccccC------------
Q 009606 289 PGALVTALVIGVHELGHILAAKSTGVELGVPYF--VP-------S------WQIGSFGAITRIRNIVS------------ 341 (531)
Q Consensus 289 p~aL~L~~iL~iHElGH~laAr~~Gvk~s~P~f--IP-------~------i~LgtfGAvi~~~s~~~------------ 341 (531)
...+.+...+..||+||+|.||++|+++..... -| . +...++|++.++.....
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 345556668899999999999999999983111 12 0 12345666665532211
Q ss_pred ------CcccceeeEecchhhHHHHHHHHHHHHh
Q 009606 342 ------KREDLLKVAAAGPLAGFSLGFVLFLVGF 369 (531)
Q Consensus 342 ------~RkalfdIAiAGPLAg~vlAlill~lGl 369 (531)
+-...+.+.+|||+.|++.++...+...
T Consensus 87 ~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 87 RAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred hhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 1123678999999999998877766554
No 17
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=69.29 E-value=2.6 Score=37.26 Aligned_cols=69 Identities=20% Similarity=0.182 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHcCCccccccccccceeeecceEEecccccCCcccceeeEecchhhHHHHHHHHHHHHhh
Q 009606 295 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFI 370 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtfGAvi~~~s~~~~RkalfdIAiAGPLAg~vlAlill~lGl~ 370 (531)
+..+.+||+-|.+..+.+|.+....+- +....+-.+.. .+. +-.|..+.+...-|. ++++++.++++..
T Consensus 4 ~~~~~~HEliH~l~~~~~~~~~~~~~g---~~~~~~~~~~~-~~~-~~sk~~~~i~~l~P~--ivl~~~~~~~~~~ 72 (111)
T PF11667_consen 4 IVLIPLHELIHGLFFKLFGKKPKVKFG---FKWKLGPFYAT-CNE-PISKWRFIIILLAPF--IVLTILPLILGFF 72 (111)
T ss_pred EeeHHHHHHHHHHHHHHhCCCCceEEE---EEeeeEEEEEe-cCc-EEeHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 345689999999999999996531110 00011112222 222 323445666666675 4555555555444
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=61.19 E-value=4.9 Score=36.36 Aligned_cols=20 Identities=25% Similarity=0.508 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHcCCc
Q 009606 296 LVIGVHELGHILAAKSTGVE 315 (531)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvk 315 (531)
..+++||+||++=-.+-..+
T Consensus 106 ~~v~~HEiGHaLGL~H~~~~ 125 (154)
T PF00413_consen 106 QSVAIHEIGHALGLDHSNDP 125 (154)
T ss_dssp HHHHHHHHHHHTTBESSSST
T ss_pred hhhhhhccccccCcCcCCCc
Confidence 35789999999755444433
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=58.32 E-value=6 Score=36.55 Aligned_cols=22 Identities=32% Similarity=0.364 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCcc
Q 009606 295 ALVIGVHELGHILAAKSTGVEL 316 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gvk~ 316 (531)
+..+++||+||.+=.+....+.
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~ 125 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRP 125 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCc
Confidence 4578999999999888887776
No 20
>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=53.19 E-value=11 Score=38.16 Aligned_cols=54 Identities=24% Similarity=0.372 Sum_probs=38.6
Q ss_pred eeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecCCCC-CcEE
Q 009606 173 TFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNPEDD-KPVA 230 (531)
Q Consensus 173 tF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~~~~-kPv~ 230 (531)
..|+|++..-.=-+.|.||= |.|.++|.+|+.+=. +++|+|++==-...| ||+-
T Consensus 159 is~atgi~~~~mi~w~ign~-G~~~~a~gtVs~k~~---~~~YrV~i~WVd~eGWkP~k 213 (217)
T PF07423_consen 159 ISYATGISEDNMIVWFIGNN-GSPQKAIGTVSDKDT---GKKYRVYIEWVDNEGWKPVK 213 (217)
T ss_pred HHHhhCCChhheEEEhhhcC-CcccceeEEeccCCC---CceEEEEEEEecCCCcccee
Confidence 36889988877889999996 777999999886533 578999743222122 7764
No 21
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=49.61 E-value=13 Score=31.52 Aligned_cols=18 Identities=28% Similarity=0.233 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 009606 297 VIGVHELGHILAAKSTGV 314 (531)
Q Consensus 297 iL~iHElGH~laAr~~Gv 314 (531)
-+++||++|.|.....+-
T Consensus 27 ~~l~HE~~H~~~~~~~~~ 44 (128)
T PF13485_consen 27 RVLAHELAHQWFGNYFGG 44 (128)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 578999999999999763
No 22
>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=48.83 E-value=11 Score=34.50 Aligned_cols=21 Identities=29% Similarity=0.300 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009606 294 TALVIGVHELGHILAAKSTGV 314 (531)
Q Consensus 294 L~~iL~iHElGH~laAr~~Gv 314 (531)
-....++||+||++=-.+-.-
T Consensus 93 ~~~~~~~HEiGHaLGL~H~~~ 113 (165)
T cd04268 93 RLRNTAEHELGHALGLRHNFA 113 (165)
T ss_pred HHHHHHHHHHHHHhcccccCc
Confidence 345778999999976655554
No 23
>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=48.22 E-value=8.1 Score=35.82 Aligned_cols=22 Identities=23% Similarity=0.368 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCcc
Q 009606 295 ALVIGVHELGHILAAKSTGVEL 316 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gvk~ 316 (531)
+..+++||+||++=-..-..+.
T Consensus 107 ~~~~~~HEiGHaLGL~H~~~~~ 128 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSSDPD 128 (157)
T ss_pred HHHHHHHHhccccccCCCCCCc
Confidence 4467899999997665544443
No 24
>PTZ00429 beta-adaptin; Provisional
Probab=48.17 E-value=17 Score=42.84 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=21.2
Q ss_pred CCChhhhcccCCCCCCCCCcCcccCCCCCCCccCCC
Q 009606 73 SNNDKEKEVHDGQENQPATASDQEDDKSQPDSQLDS 108 (531)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (531)
++.||||+|+++.++.+++.++..++++..++++..
T Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 641 (746)
T PTZ00429 606 VELDEEDTEDDDAVELPSTPSMGTQDGSPAPSAAPA 641 (746)
T ss_pred cccccccccchhhccCCCCCCCCCCCCCCCcccccc
Confidence 344555566666667777777766666555444443
No 25
>PF05572 Peptidase_M43: Pregnancy-associated plasma protein-A; InterPro: IPR008754 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase M43 (cytophagalysin family, clan MA(M)), subfamily M43. The predicted active site residues for members of this family and thermolysin, the type example for clan MA, occur in the motif HEXXH. The type example of this family is the pregnancy-associated plasma protein A (PAPP-A), which cleaves insulin-like growth factor (IGF) binding protein-4 (IGFBP-4), causing a dramatic reduction in its affinity for IGF-I and -II. Through this mechanism, PAPP-A is a regulator of IGF bioactivity in several systems, including the Homo sapiens ovary and the cardiovascular system [, , , ].; PDB: 3LUN_A 3LUM_B 2J83_A 2CKI_A.
Probab=48.11 E-value=9 Score=36.28 Aligned_cols=13 Identities=38% Similarity=0.401 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHH
Q 009606 296 LVIGVHELGHILA 308 (531)
Q Consensus 296 ~iL~iHElGH~la 308 (531)
.-.++||+||++=
T Consensus 70 g~TltHEvGH~LG 82 (154)
T PF05572_consen 70 GKTLTHEVGHWLG 82 (154)
T ss_dssp SHHHHHHHHHHTT
T ss_pred ccchhhhhhhhhc
Confidence 3678999999863
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=43.64 E-value=15 Score=35.03 Aligned_cols=12 Identities=50% Similarity=0.717 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHH
Q 009606 296 LVIGVHELGHIL 307 (531)
Q Consensus 296 ~iL~iHElGH~l 307 (531)
..++.||+||+.
T Consensus 90 ~aVlaHElgH~~ 101 (226)
T PF01435_consen 90 AAVLAHELGHIK 101 (226)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 467899999986
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=41.95 E-value=16 Score=30.75 Aligned_cols=16 Identities=44% Similarity=0.574 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHcC
Q 009606 298 IGVHELGHILAAKSTG 313 (531)
Q Consensus 298 L~iHElGH~laAr~~G 313 (531)
.++||+||++.-....
T Consensus 45 ~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 45 TLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHhhhccc
Confidence 5799999999766554
No 28
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=40.17 E-value=28 Score=41.93 Aligned_cols=18 Identities=28% Similarity=0.366 Sum_probs=8.8
Q ss_pred cccccccccCCCCccccc
Q 009606 5 TTFRGNLSLLPHCSSCCD 22 (531)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~ 22 (531)
+||-|.-..+--|++-.+
T Consensus 1354 aTi~v~R~~~Dlct~~~D 1371 (1516)
T KOG1832|consen 1354 ATIPVDRCLLDLCTEPTD 1371 (1516)
T ss_pred eeeecccchhhhhcCCcc
Confidence 444444444555555443
No 29
>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=39.88 E-value=16 Score=34.76 Aligned_cols=22 Identities=32% Similarity=0.451 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHcCCccc
Q 009606 296 LVIGVHELGHILAAKSTGVELG 317 (531)
Q Consensus 296 ~iL~iHElGH~laAr~~Gvk~s 317 (531)
...++||+||.+=-++-+....
T Consensus 114 ~~t~~HEiGHaLGL~H~~~~~~ 135 (186)
T cd04277 114 YQTIIHEIGHALGLEHPGDYNG 135 (186)
T ss_pred HHHHHHHHHHHhcCCCCCcCCC
Confidence 4678999999987666555443
No 30
>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=39.16 E-value=16 Score=32.98 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHcCCccc
Q 009606 298 IGVHELGHILAAKSTGVELG 317 (531)
Q Consensus 298 L~iHElGH~laAr~~Gvk~s 317 (531)
.++||+||++=..+-..+..
T Consensus 89 ~~~HEigHaLGl~H~~~~~d 108 (140)
T smart00235 89 VAAHELGHALGLYHEQSRSD 108 (140)
T ss_pred cHHHHHHHHhcCCcCCCCCc
Confidence 78999999986555444443
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=39.15 E-value=24 Score=34.78 Aligned_cols=18 Identities=33% Similarity=0.316 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 009606 297 VIGVHELGHILAAKSTGV 314 (531)
Q Consensus 297 iL~iHElGH~laAr~~Gv 314 (531)
.+.+||.||+++|...+-
T Consensus 30 ~~A~HEAGhAvva~~l~~ 47 (213)
T PF01434_consen 30 RIAYHEAGHAVVAYLLPP 47 (213)
T ss_dssp HHHHHHHHHHHHHHHSSS
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 578999999999999873
No 32
>cd00203 ZnMc Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which are involved in vertebrate development and disease.
Probab=38.77 E-value=16 Score=33.45 Aligned_cols=21 Identities=29% Similarity=0.219 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009606 294 TALVIGVHELGHILAAKSTGV 314 (531)
Q Consensus 294 L~~iL~iHElGH~laAr~~Gv 314 (531)
....+++||+||.+=.++-.-
T Consensus 95 ~~~~~~~HElGH~LGl~H~~~ 115 (167)
T cd00203 95 EGAQTIAHELGHALGFYHDHD 115 (167)
T ss_pred cchhhHHHHHHHHhCCCccCc
Confidence 345678999999987665544
No 33
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=38.08 E-value=16 Score=31.95 Aligned_cols=14 Identities=36% Similarity=0.423 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHH
Q 009606 297 VIGVHELGHILAAK 310 (531)
Q Consensus 297 iL~iHElGH~laAr 310 (531)
..++||+||.+=+.
T Consensus 109 ~~~~HEiGH~lGl~ 122 (124)
T PF13582_consen 109 DTFAHEIGHNLGLN 122 (124)
T ss_dssp THHHHHHHHHTT--
T ss_pred eEeeehhhHhcCCC
Confidence 67899999986443
No 34
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=37.47 E-value=33 Score=34.65 Aligned_cols=25 Identities=32% Similarity=0.406 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcc
Q 009606 291 ALVTALVIGVHELGHILAAKSTGVEL 316 (531)
Q Consensus 291 aL~L~~iL~iHElGH~laAr~~Gvk~ 316 (531)
++..+...+.||+||++...+ ++++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~~-~lPv 112 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDDL-DLPV 112 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHh-cCCc
Confidence 455666788999999998753 3443
No 35
>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=36.76 E-value=24 Score=35.57 Aligned_cols=28 Identities=32% Similarity=0.330 Sum_probs=19.1
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Q 009606 285 TNGLPGALVTALVIGVHELGHILAAKSTGVE 315 (531)
Q Consensus 285 ~~glp~aL~L~~iL~iHElGH~laAr~~Gvk 315 (531)
+.|+|-. ++.++++||++|+|. +..|.+
T Consensus 85 l~GLPrl--l~gsiLAHE~mHa~L-rl~g~~ 112 (212)
T PF12315_consen 85 LYGLPRL--LTGSILAHELMHAWL-RLNGFP 112 (212)
T ss_pred ECCCCHH--HHhhHHHHHHHHHHh-cccCCC
Confidence 4455543 446889999999998 445543
No 36
>PF14891 Peptidase_M91: Effector protein
Probab=35.93 E-value=24 Score=33.80 Aligned_cols=17 Identities=29% Similarity=0.288 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 009606 295 ALVIGVHELGHILAAKS 311 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~ 311 (531)
-++++.|||+|++-...
T Consensus 103 p~v~L~HEL~HA~~~~~ 119 (174)
T PF14891_consen 103 PFVVLYHELIHAYDYMN 119 (174)
T ss_pred HHHHHHHHHHHHHHHHC
Confidence 35789999999997654
No 37
>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=35.74 E-value=19 Score=34.31 Aligned_cols=21 Identities=33% Similarity=0.286 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 009606 295 ALVIGVHELGHILAAKSTGVE 315 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gvk 315 (531)
-.-.++||+||.+=|.+-+-.
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 345689999999999887764
No 38
>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=34.75 E-value=19 Score=34.15 Aligned_cols=21 Identities=33% Similarity=0.414 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 009606 295 ALVIGVHELGHILAAKSTGVE 315 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gvk 315 (531)
-.+.++||+||-+=|.+=+..
T Consensus 142 ~~~~~AHEiGH~lGa~HD~~~ 162 (196)
T PF13688_consen 142 GAITFAHEIGHNLGAPHDGDY 162 (196)
T ss_dssp HHHHHHHHHHHHTT-----SS
T ss_pred eehhhHHhHHHhcCCCCCCCC
Confidence 346789999999999876654
No 39
>PF11085 YqhR: Conserved membrane protein YqhR; InterPro: IPR024563 This family of proteins is conserved in the Bacillaceae family of the Firmicutes. Their function is not known.
Probab=33.98 E-value=3.9e+02 Score=26.48 Aligned_cols=97 Identities=22% Similarity=0.392 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHhhcCCCCCChHHHHHHhh-hhhHHHHHH-HHHHHHHHHHHHhh------------hh-------HHHH
Q 009606 417 IWAWAGLLINAINSIPAGELDGGRIAFALW-GRKASTRLT-GVSIVLLGLSSLFS------------DV-------TFYW 475 (531)
Q Consensus 417 ~agwinLvltafNLLPigpLDGGrIl~All-grr~a~~i~-~~~~~lLGl~~l~~------------~~-------~l~W 475 (531)
+++-+..+.-.||.-+++| +-+++-.+ |.....+++ .+.++++|+.++.. +. ..+|
T Consensus 33 iWs~v~yl~y~f~FT~v~P---~~ll~Pf~~g~wk~t~~G~~igi~~~gv~Si~aAllY~~~l~k~~g~W~Gi~YG~~~W 109 (173)
T PF11085_consen 33 IWSLVRYLAYFFHFTEVGP---NFLLEPFALGDWKNTWLGNLIGIVFIGVFSIVAALLYYALLKKFKGPWPGILYGLAWW 109 (173)
T ss_pred HHHHHHHHHHHhccccccc---ChhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHH
Confidence 4556777788899999999 88888764 333233333 22233333322211 11 1234
Q ss_pred HHHHHHHHhCCCCCCCCCCCCCChhHHHHHHHHHHHHHHhhccc
Q 009606 476 VVLVFFLQRGPIAPLSEEITDPDDKYIALGVLVLFLGLLVCLPY 519 (531)
Q Consensus 476 ~lli~fl~rgp~~P~~nevt~~~~~r~~lg~l~l~l~ll~llP~ 519 (531)
+++ |..-+|..|....+.+++..-. +.-+.+.+.-=+|+=+
T Consensus 110 ~iv--F~~lnP~fp~~~~~~~l~~nTi-iT~~CiyiLyGlFIGY 150 (173)
T PF11085_consen 110 AIV--FFVLNPIFPMIKPVTELDWNTI-ITTLCIYILYGLFIGY 150 (173)
T ss_pred HHH--HHHhcccccCChhhhhCchhHH-HHHHHHHHHHHHHhce
Confidence 433 3335788888888888875544 3333334443344333
No 40
>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=32.78 E-value=27 Score=32.91 Aligned_cols=10 Identities=80% Similarity=1.291 Sum_probs=8.8
Q ss_pred HHHHHHHHHH
Q 009606 298 IGVHELGHIL 307 (531)
Q Consensus 298 L~iHElGH~l 307 (531)
+.+||+||.+
T Consensus 80 IaaHE~GHiL 89 (132)
T PF02031_consen 80 IAAHELGHIL 89 (132)
T ss_dssp HHHHHHHHHH
T ss_pred eeeehhcccc
Confidence 6899999986
No 41
>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=31.79 E-value=26 Score=34.02 Aligned_cols=19 Identities=26% Similarity=0.354 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHcCCc
Q 009606 297 VIGVHELGHILAAKSTGVE 315 (531)
Q Consensus 297 iL~iHElGH~laAr~~Gvk 315 (531)
..++||+||++=..+-.-+
T Consensus 94 ~~i~HElgHaLG~~HEh~r 112 (198)
T cd04327 94 RVVLHEFGHALGFIHEHQS 112 (198)
T ss_pred HHHHHHHHHHhcCcccccC
Confidence 4688999999755444333
No 42
>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=31.68 E-value=31 Score=32.86 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 009606 295 ALVIGVHELGHILAAKSTGV 314 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gv 314 (531)
.+.+++||+||-+=+.+-+.
T Consensus 131 ~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 131 FAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHhhcCCCcCCC
Confidence 35788999999987775554
No 43
>cd04270 ZnMc_TACE_like Zinc-dependent metalloprotease; TACE_like subfamily. TACE, the tumor-necrosis factor-alpha converting enzyme, releases soluble TNF-alpha from transmembrane pro-TNF-alpha.
Probab=31.28 E-value=30 Score=34.95 Aligned_cols=19 Identities=26% Similarity=0.476 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHc
Q 009606 294 TALVIGVHELGHILAAKST 312 (531)
Q Consensus 294 L~~iL~iHElGH~laAr~~ 312 (531)
.++..++||+||-|=+.+=
T Consensus 166 ~~a~t~AHElGHnlGm~HD 184 (244)
T cd04270 166 ESDLVTAHELGHNFGSPHD 184 (244)
T ss_pred HHHHHHHHHHHHhcCCCCC
Confidence 4567899999999877643
No 44
>PRK11037 hypothetical protein; Provisional
Probab=29.79 E-value=1.3e+02 Score=26.33 Aligned_cols=65 Identities=18% Similarity=0.366 Sum_probs=42.8
Q ss_pred ccCCCChhHH-----HHhhccccccceeeeccccccCceEEEEeccC-------C-chHHHHHHHHHHHHhhhCCceEE
Q 009606 152 EYIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR-------G-QAAKTYEKISTRMKNKFGDQYKL 217 (531)
Q Consensus 152 ~~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR-------~-~~e~~y~~l~~~l~~~fGd~y~l 217 (531)
+..+|++++| +.||+.===+..-.+|++|-.++..+|||..= + +...||. +=+-|.-.+..+|+|
T Consensus 4 ~~~~I~~~~LL~~AN~iI~~Hedyi~GM~a~~Veqk~~VLVFkGeyFLD~~GlPT~KtTAvFN-MFK~LAh~LS~~y~L 81 (83)
T PRK11037 4 ETQPIDRETLLLEANKIIREHEDYLAGMRATDVEQKNGVLVFRGEYFLDEQGLPTAKTTAVFN-MFKHLAHVLSEKYHL 81 (83)
T ss_pred CCcccCHHHHHHHHHHHHHhhHHHhcccccceeeeeCCEEEEecceeecCCCCCCccchHHHH-HHHHHHHHhCcceec
Confidence 4567888888 46665333344568999999999999999832 2 2234443 334455666777876
No 45
>PRK03001 M48 family peptidase; Provisional
Probab=29.70 E-value=33 Score=35.26 Aligned_cols=12 Identities=33% Similarity=0.426 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHH
Q 009606 296 LVIGVHELGHIL 307 (531)
Q Consensus 296 ~iL~iHElGH~l 307 (531)
..+++||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (283)
T PRK03001 125 RGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHh
Confidence 367899999974
No 46
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=29.52 E-value=29 Score=34.90 Aligned_cols=16 Identities=38% Similarity=0.463 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHcC
Q 009606 298 IGVHELGHILAAKSTG 313 (531)
Q Consensus 298 L~iHElGH~laAr~~G 313 (531)
.++||+||++.=+.-.
T Consensus 75 tlAHELGH~llH~~~~ 90 (213)
T COG2856 75 TLAHELGHALLHTDLN 90 (213)
T ss_pred HHHHHHhHHHhccccc
Confidence 4789999998654433
No 47
>PRK03982 heat shock protein HtpX; Provisional
Probab=28.89 E-value=35 Score=35.17 Aligned_cols=12 Identities=42% Similarity=0.362 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 009606 296 LVIGVHELGHIL 307 (531)
Q Consensus 296 ~iL~iHElGH~l 307 (531)
..+++||+||.-
T Consensus 126 ~AVlAHElgHi~ 137 (288)
T PRK03982 126 EGVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHHH
Confidence 367899999974
No 48
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=28.85 E-value=33 Score=31.75 Aligned_cols=18 Identities=28% Similarity=0.351 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHcCCcc
Q 009606 299 GVHELGHILAAKSTGVEL 316 (531)
Q Consensus 299 ~iHElGH~laAr~~Gvk~ 316 (531)
+.||+.|.|.-|.||.-.
T Consensus 83 L~HEL~H~WQ~RsYG~i~ 100 (141)
T PHA02456 83 LAHELNHAWQFRTYGLVQ 100 (141)
T ss_pred HHHHHHHHHhhhccceee
Confidence 579999999999999754
No 49
>PRK12462 phosphoserine aminotransferase; Provisional
Probab=28.75 E-value=91 Score=33.72 Aligned_cols=67 Identities=12% Similarity=0.160 Sum_probs=46.0
Q ss_pred CccccCCCChhHHHHhhccccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 009606 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (531)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (531)
....+..+|+|.++++++++.-|. .-+-+++=.+---.+=.+.|++.+++|+++|+ |.|.+++++-.
T Consensus 8 F~aGPa~lp~~Vl~~~~~~~~~~~--------~~g~si~eisHRs~~F~~i~~~~~~~Lr~Ll~~P~~y~Vlfl~Gg 76 (364)
T PRK12462 8 FSGGPGALPDTVLEQVRQAVVELP--------ETGLSVLGMSHRSSWFSSLLAQAEADLRDLLGIPDEYGVVFLQGG 76 (364)
T ss_pred ecCCCcCCCHHHHHHHHHHHhccc--------ccCccccccccccHHHHHHHHHHHHHHHHHhCCCCCCeEEEEecc
Confidence 456788999999999997543322 11123333333234568899999999999998 68988766654
No 50
>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=28.55 E-value=26 Score=33.31 Aligned_cols=20 Identities=40% Similarity=0.531 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 009606 295 ALVIGVHELGHILAAKSTGV 314 (531)
Q Consensus 295 ~~iL~iHElGH~laAr~~Gv 314 (531)
.+.+++||+||.+=+.+-+.
T Consensus 133 ~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 133 TALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred ehhhhhhhHHhhcCCcCCCC
Confidence 34679999999998877654
No 51
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=27.95 E-value=31 Score=33.96 Aligned_cols=17 Identities=29% Similarity=0.280 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHcCC
Q 009606 298 IGVHELGHILAAKSTGV 314 (531)
Q Consensus 298 L~iHElGH~laAr~~Gv 314 (531)
.++||+||.+=|++-+-
T Consensus 140 ~~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 140 TFAHEIGHNLGLRHDFD 156 (206)
T ss_pred HHHHHHHHHhcCCCCcc
Confidence 48899999998887766
No 52
>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=27.87 E-value=26 Score=36.25 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHH
Q 009606 296 LVIGVHELGHILAA 309 (531)
Q Consensus 296 ~iL~iHElGH~laA 309 (531)
.-+++||+||.+.-
T Consensus 217 ~~v~vHE~GHsf~~ 230 (264)
T PF09471_consen 217 KQVVVHEFGHSFGG 230 (264)
T ss_dssp HHHHHHHHHHHTT-
T ss_pred cceeeeeccccccc
Confidence 35789999998754
No 53
>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=27.70 E-value=43 Score=30.72 Aligned_cols=19 Identities=21% Similarity=0.123 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHc
Q 009606 294 TALVIGVHELGHILAAKST 312 (531)
Q Consensus 294 L~~iL~iHElGH~laAr~~ 312 (531)
.+.-.++|||.|+++-...
T Consensus 59 ~~~~tL~HEm~H~~~~~~~ 77 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVFG 77 (157)
T ss_pred HHHHHHHHHHHHHHhhhcc
Confidence 4446789999999996663
No 54
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=27.16 E-value=38 Score=31.42 Aligned_cols=16 Identities=25% Similarity=0.003 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 009606 296 LVIGVHELGHILAAKS 311 (531)
Q Consensus 296 ~iL~iHElGH~laAr~ 311 (531)
.-++.|||.|+++-..
T Consensus 60 ~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 60 RETLLHELCHAALYLF 75 (146)
T ss_pred HhhHHHHHHHHHHHHh
Confidence 4578999999999864
No 55
>COG0830 UreF Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
Probab=26.94 E-value=67 Score=32.81 Aligned_cols=31 Identities=32% Similarity=0.340 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhcCCCCCChHHHHHHhhh
Q 009606 417 IWAWAGLLINAINSIPAGELDGGRIAFALWG 447 (531)
Q Consensus 417 ~agwinLvltafNLLPigpLDGGrIl~Allg 447 (531)
++.-.|++.++.=|+|.||+||=||+..+-.
T Consensus 158 ya~~~~lv~aavRlipLgQ~~gq~il~~l~~ 188 (229)
T COG0830 158 YAWASNLVSAAVRLIPLGQLDGQKILAQLEP 188 (229)
T ss_pred HHHHHHHHHHHHHhcccCcHHHHHHHHHhhH
Confidence 4455699999999999999999999998843
No 56
>PF12388 Peptidase_M57: Dual-action HEIGH metallo-peptidase; InterPro: IPR024653 This entry represents the metallopeptidases M10, M27 and M57. The catalytic triad for proteases in this entry is HE-H-H, which in many members is in the sequence motif HEIGH [].
Probab=26.23 E-value=34 Score=34.52 Aligned_cols=28 Identities=18% Similarity=0.129 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCccc
Q 009606 290 GALVTALVIGVHELGHILAAKSTGVELG 317 (531)
Q Consensus 290 ~aL~L~~iL~iHElGH~laAr~~Gvk~s 317 (531)
+..-+..-++.||+||.+=-|+-.+...
T Consensus 128 ~~~~~~~hvi~HEiGH~IGfRHTD~~~R 155 (211)
T PF12388_consen 128 YSVNVIEHVITHEIGHCIGFRHTDYFNR 155 (211)
T ss_pred CchhHHHHHHHHHhhhhccccccCcCCc
Confidence 3444566789999999998887665443
No 57
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=25.86 E-value=43 Score=33.69 Aligned_cols=11 Identities=55% Similarity=0.818 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 009606 297 VIGVHELGHIL 307 (531)
Q Consensus 297 iL~iHElGH~l 307 (531)
.++.||+||..
T Consensus 159 aVlaHElgHi~ 169 (302)
T COG0501 159 AVLAHELGHIK 169 (302)
T ss_pred HHHHHHHHHHh
Confidence 57899999963
No 58
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=25.51 E-value=1.1e+02 Score=32.49 Aligned_cols=61 Identities=16% Similarity=0.312 Sum_probs=42.8
Q ss_pred hhHHHHhhcccccc-ceeeeccccccCceEEEEeccCC--chHHHHHHHHHHHHhhhCCceEEEEEec
Q 009606 158 KETIDILKDQVFGF-DTFFVTNQEPYEGGVLFKGNLRG--QAAKTYEKISTRMKNKFGDQYKLFLLVN 222 (531)
Q Consensus 158 ~edl~~ik~~~Fg~-dtF~~t~~~~~~~gvi~rGnLR~--~~e~~y~~l~~~l~~~fGd~y~lfl~~~ 222 (531)
.|.+++||. .||= .+||+||+-.--.|--+-++.-. +..+.++++..+|++. | |.+|+++-
T Consensus 218 ~~q~e~vqs-a~g~~k~~~v~EtGWPS~G~~~G~a~pS~anq~~~~~~i~~~~~~~-G--~d~fvfeA 281 (305)
T COG5309 218 LEQLERVQS-ACGTKKTVWVTETGWPSDGRTYGSAVPSVANQKIAVQEILNALRSC-G--YDVFVFEA 281 (305)
T ss_pred HHHHHHHHH-hcCCCccEEEeeccCCCCCCccCCcCCChhHHHHHHHHHHhhhhcc-C--ccEEEeee
Confidence 677999998 7776 99999998755555555444443 3466778888888774 6 66665553
No 59
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=25.49 E-value=31 Score=32.28 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHH
Q 009606 294 TALVIGVHELGHIL 307 (531)
Q Consensus 294 L~~iL~iHElGH~l 307 (531)
.+..+++||+||.+
T Consensus 108 ~vthvliHEIgHhF 121 (136)
T COG3824 108 QVTHVLIHEIGHHF 121 (136)
T ss_pred Hhhhhhhhhhhhhc
Confidence 56688999999975
No 60
>PLN02452 phosphoserine transaminase
Probab=25.41 E-value=1.2e+02 Score=32.53 Aligned_cols=67 Identities=9% Similarity=0.186 Sum_probs=47.4
Q ss_pred CccccCCCChhHHHHhhccccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 009606 149 QLDEYIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 223 (531)
Q Consensus 149 ~~~~~~~i~~edl~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 223 (531)
....|..+|++.+++++.+.+-|. .-+-+++-.+---.+=.++++.++++|++.++ |.|.+++++-.
T Consensus 11 f~pGP~~lp~~Vl~~~~~~~~~~~--------~~g~s~~~~sHRs~~f~~i~~~~~~~L~~l~~~p~~y~v~~l~Gs 79 (365)
T PLN02452 11 FSAGPATLPANVLAKAQAELYNWE--------GSGMSVMEMSHRGKEFLSIIQKAEADLRELLDIPDNYEVLFLQGG 79 (365)
T ss_pred eeCCCCCCCHHHHHHHHHHHhccc--------ccCccccccCCCchHHHHHHHHHHHHHHHHhCCCCCceEEEEeCc
Confidence 456788999999999987554432 22334444444444567999999999999997 67988766544
No 61
>PRK04897 heat shock protein HtpX; Provisional
Probab=25.19 E-value=44 Score=34.78 Aligned_cols=12 Identities=33% Similarity=0.274 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHH
Q 009606 296 LVIGVHELGHIL 307 (531)
Q Consensus 296 ~iL~iHElGH~l 307 (531)
..+++||+||.-
T Consensus 138 ~aVlAHElgHi~ 149 (298)
T PRK04897 138 EGVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHHh
Confidence 357899999963
No 62
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=25.08 E-value=70 Score=40.02 Aligned_cols=21 Identities=33% Similarity=0.358 Sum_probs=15.2
Q ss_pred eeccccccCceEEEEeccCCc
Q 009606 175 FVTNQEPYEGGVLFKGNLRGQ 195 (531)
Q Consensus 175 ~~t~~~~~~~gvi~rGnLR~~ 195 (531)
-+|.+-..+---+.|||||.-
T Consensus 599 l~tTqVktpvPsLLrGqLReY 619 (1958)
T KOG0391|consen 599 LVTTQVKTPVPSLLRGQLREY 619 (1958)
T ss_pred eeeeeeccCchHHHHHHHHHH
Confidence 345555667777999999963
No 63
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=24.91 E-value=38 Score=37.44 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHcC
Q 009606 297 VIGVHELGHILAAKSTG 313 (531)
Q Consensus 297 iL~iHElGH~laAr~~G 313 (531)
.+..||.||++++..++
T Consensus 313 ~~A~hEaGhAlv~~~l~ 329 (495)
T TIGR01241 313 LVAYHEAGHALVGLLLK 329 (495)
T ss_pred HHHHHHHhHHHHHHhcC
Confidence 57899999999998874
No 64
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=24.24 E-value=45 Score=28.34 Aligned_cols=12 Identities=33% Similarity=0.650 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 009606 297 VIGVHELGHILA 308 (531)
Q Consensus 297 iL~iHElGH~la 308 (531)
.++.||++|.+.
T Consensus 63 ~llaHEl~Hv~Q 74 (79)
T PF13699_consen 63 ALLAHELAHVVQ 74 (79)
T ss_pred hhHhHHHHHHHh
Confidence 478999999874
No 65
>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=24.03 E-value=49 Score=31.40 Aligned_cols=11 Identities=36% Similarity=0.495 Sum_probs=9.7
Q ss_pred HHHHHHHHHHH
Q 009606 298 IGVHELGHILA 308 (531)
Q Consensus 298 L~iHElGH~la 308 (531)
++.|||+|.++
T Consensus 138 VvaHEltHGVt 148 (150)
T PF01447_consen 138 VVAHELTHGVT 148 (150)
T ss_dssp HHHHHHHHHHH
T ss_pred eeeeccccccc
Confidence 68999999986
No 66
>PRK01345 heat shock protein HtpX; Provisional
Probab=23.57 E-value=49 Score=34.88 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 009606 296 LVIGVHELGHIL 307 (531)
Q Consensus 296 ~iL~iHElGH~l 307 (531)
..+++||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (317)
T PRK01345 125 AGVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHHH
Confidence 367899999975
No 67
>PRK03072 heat shock protein HtpX; Provisional
Probab=23.23 E-value=51 Score=34.20 Aligned_cols=11 Identities=36% Similarity=0.395 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 009606 296 LVIGVHELGHI 306 (531)
Q Consensus 296 ~iL~iHElGH~ 306 (531)
..+++||+||.
T Consensus 128 ~aVlAHElgHi 138 (288)
T PRK03072 128 RGVLGHELSHV 138 (288)
T ss_pred HHHHHHHHHHH
Confidence 35789999995
No 68
>KOG3320 consensus 40S ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=23.22 E-value=1.1e+02 Score=30.35 Aligned_cols=27 Identities=15% Similarity=0.321 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhhCCceEEEEEecC
Q 009606 197 AKTYEKISTRMKNKFGDQYKLFLLVNP 223 (531)
Q Consensus 197 e~~y~~l~~~l~~~fGd~y~lfl~~~~ 223 (531)
.+.|.+|...||.+|+|+|.+|+.+..
T Consensus 74 qki~~~LvreleKKF~gk~Vifia~Rr 100 (192)
T KOG3320|consen 74 QKIQVRLVRELEKKFSGKHVIFIAQRR 100 (192)
T ss_pred HHHHHHHHHHHHHhcCCceEEEEEeee
Confidence 455556666999999999999876654
No 69
>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=23.08 E-value=2e+02 Score=32.88 Aligned_cols=29 Identities=17% Similarity=0.272 Sum_probs=21.1
Q ss_pred cccCCCChhHHHHhhccc-cccceeeeccc
Q 009606 151 DEYIRIPKETIDILKDQV-FGFDTFFVTNQ 179 (531)
Q Consensus 151 ~~~~~i~~edl~~ik~~~-Fg~dtF~~t~~ 179 (531)
.+.-+.+--||++|+.++ |-..|||.+.-
T Consensus 121 p~~nkvdFsdldkL~keisf~~~t~Y~~~D 150 (541)
T TIGR03490 121 PNNNKVDFSDLDKLKKELSFENFTLYSQKD 150 (541)
T ss_pred cccccchHHHHHHhhhhhccccceeeecCC
Confidence 456688889999998754 55667777653
No 70
>PRK02391 heat shock protein HtpX; Provisional
Probab=22.70 E-value=53 Score=34.32 Aligned_cols=10 Identities=40% Similarity=0.733 Sum_probs=8.7
Q ss_pred HHHHHHHHHH
Q 009606 297 VIGVHELGHI 306 (531)
Q Consensus 297 iL~iHElGH~ 306 (531)
.++.||+||.
T Consensus 135 aVlaHElgHi 144 (296)
T PRK02391 135 AVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHH
Confidence 5789999995
No 71
>PF01421 Reprolysin: Reprolysin (M12B) family zinc metalloprotease This Prosite motif covers only the active site.; InterPro: IPR001590 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M12, subfamily M12B (adamalysin family, clan (MA(M)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. The adamalysins are zinc dependent endopeptidases found in snake venom. There are some mammalian proteins such as P78325 from SWISSPROT, and fertilin Q28472 from SWISSPROT. Fertilin and closely related proteins appear to not have some active site residues and may not be active enzymes. CD156 (also called ADAM8 (3.4.24 from EC) or MS2 human) has been implicated in extravasation of leukocytes. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2E3X_A 2W15_A 2W14_A 2W13_A 2W12_A 1ND1_A 3K7L_A 2DW2_A 2DW0_B 2DW1_A ....
Probab=22.52 E-value=60 Score=31.10 Aligned_cols=21 Identities=43% Similarity=0.494 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009606 294 TALVIGVHELGHILAAKSTGV 314 (531)
Q Consensus 294 L~~iL~iHElGH~laAr~~Gv 314 (531)
.++.+++||+||.+=+.+-+.
T Consensus 130 ~~a~~~AHelGH~lGm~HD~~ 150 (199)
T PF01421_consen 130 SFAVIIAHELGHNLGMPHDGD 150 (199)
T ss_dssp HHHHHHHHHHHHHTT---TTT
T ss_pred HHHHHHHHHHHHhcCCCCCCC
Confidence 445678999999887777666
No 72
>PRK05457 heat shock protein HtpX; Provisional
Probab=22.45 E-value=54 Score=34.02 Aligned_cols=11 Identities=36% Similarity=0.573 Sum_probs=9.1
Q ss_pred HHHHHHHHHHH
Q 009606 296 LVIGVHELGHI 306 (531)
Q Consensus 296 ~iL~iHElGH~ 306 (531)
..+++||+||.
T Consensus 135 ~aVlAHElgHi 145 (284)
T PRK05457 135 EAVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHHH
Confidence 35789999996
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=21.89 E-value=1.5e+02 Score=25.88 Aligned_cols=64 Identities=16% Similarity=0.309 Sum_probs=36.4
Q ss_pred cCCCChhHH-----HHhhccccccceeeeccccccCceEEEEeccC----Cch----HHHHHHHHHHHHhhhCCceEE
Q 009606 153 YIRIPKETI-----DILKDQVFGFDTFFVTNQEPYEGGVLFKGNLR----GQA----AKTYEKISTRMKNKFGDQYKL 217 (531)
Q Consensus 153 ~~~i~~edl-----~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR----~~~----e~~y~~l~~~l~~~fGd~y~l 217 (531)
.-+|++++| +.||+.===+..-.+|++|-.++..+|||+.= |-| ..||. +=+-|.-.+.++|.|
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 35554222223367899999999999999932 222 33443 345566677888976
No 74
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=21.74 E-value=1.3e+02 Score=29.13 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=23.6
Q ss_pred ChHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccc
Q 009606 280 NLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELG 317 (531)
Q Consensus 280 ~~~~l~~glp~aL~L~~iL~iHElGH~laAr~~Gvk~s 317 (531)
||-++.. .....+.-++-||++|+.+=..+| +..
T Consensus 49 NP~ll~e---n~~~f~~~vV~HELaHl~ly~~~g-r~~ 82 (156)
T COG3091 49 NPKLLEE---NGEDFIEQVVPHELAHLHLYQEFG-RYK 82 (156)
T ss_pred CHHHHHH---ccHHHHHHHHHHHHHHHHHHHHcC-CCC
Confidence 6655443 334455667899999999988877 443
No 75
>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=21.51 E-value=1.1e+02 Score=25.21 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=25.0
Q ss_pred cccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCc
Q 009606 169 FGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQ 214 (531)
Q Consensus 169 Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~ 214 (531)
.-+||||+++.. |+ ...++..+++++.|++.+|+-
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 244567788999999999863
No 76
>PLN02718 Probable galacturonosyltransferase
Probab=21.50 E-value=89 Score=36.17 Aligned_cols=31 Identities=10% Similarity=0.219 Sum_probs=23.8
Q ss_pred CCCCCccccCCCChhHHHHhhccccccceee
Q 009606 145 VKPQQLDEYIRIPKETIDILKDQVFGFDTFF 175 (531)
Q Consensus 145 ~~~~~~~~~~~i~~edl~~ik~~~Fg~dtF~ 175 (531)
-+.....+..+++.+.++.||+++|---+|+
T Consensus 151 ~~~~~~~~~~~~~d~~v~~~~dql~~ak~y~ 181 (603)
T PLN02718 151 HEKNTRVQPRRATDEKVKEIRDKIIQAKAYL 181 (603)
T ss_pred ccccCcCCcccCcHHHHHHHHHHHHHHHHHH
Confidence 3334445666888999999999999888876
No 77
>PRK01265 heat shock protein HtpX; Provisional
Probab=20.75 E-value=61 Score=34.56 Aligned_cols=10 Identities=50% Similarity=0.979 Sum_probs=8.7
Q ss_pred HHHHHHHHHH
Q 009606 297 VIGVHELGHI 306 (531)
Q Consensus 297 iL~iHElGH~ 306 (531)
.+++||+||.
T Consensus 142 aVlAHElgHi 151 (324)
T PRK01265 142 AVAGHELGHL 151 (324)
T ss_pred HHHHHHHHHH
Confidence 5789999996
No 78
>PRK02870 heat shock protein HtpX; Provisional
Probab=20.38 E-value=63 Score=34.62 Aligned_cols=11 Identities=45% Similarity=0.673 Sum_probs=9.4
Q ss_pred HHHHHHHHHHH
Q 009606 296 LVIGVHELGHI 306 (531)
Q Consensus 296 ~iL~iHElGH~ 306 (531)
..++.||+||.
T Consensus 174 ~aVlAHELgHi 184 (336)
T PRK02870 174 QAVMAHELSHI 184 (336)
T ss_pred HHHHHHHHHHH
Confidence 35789999998
Done!