Query 009620
Match_columns 530
No_of_seqs 319 out of 1231
Neff 4.6
Searched_HMMs 46136
Date Thu Mar 28 15:19:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009620.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009620hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06160 S2P-M50_like_2 Unchara 100.0 2.8E-31 6.2E-36 253.7 19.0 177 253-478 3-181 (183)
2 cd06164 S2P-M50_SpoIVFB_CBS Sp 99.9 3.2E-25 7E-30 218.1 20.3 134 278-449 37-170 (227)
3 cd06161 S2P-M50_SpoIVFB SpoIVF 99.9 1.7E-23 3.6E-28 202.9 18.6 129 281-449 25-153 (208)
4 cd06163 S2P-M50_PDZ_RseP-like 99.9 5.7E-21 1.2E-25 182.8 14.8 113 288-446 3-145 (182)
5 cd05709 S2P-M50 Site-2 proteas 99.9 6.2E-21 1.3E-25 179.1 13.3 139 288-450 2-156 (180)
6 cd06159 S2P-M50_PDZ_Arch Uncha 99.8 4.1E-19 9E-24 178.8 18.5 120 283-449 107-229 (263)
7 PF02163 Peptidase_M50: Peptid 99.8 5.8E-19 1.3E-23 166.7 11.0 127 289-445 2-157 (192)
8 cd06162 S2P-M50_PDZ_SREBP Ster 99.8 6.2E-18 1.3E-22 171.3 15.4 113 289-449 130-249 (277)
9 cd06158 S2P-M50_like_1 Unchara 99.8 2.7E-18 5.9E-23 163.9 12.1 134 289-451 4-158 (181)
10 TIGR00054 RIP metalloprotease 99.5 1.3E-13 2.8E-18 146.8 16.3 80 289-368 9-119 (420)
11 PRK10779 zinc metallopeptidase 99.5 1.6E-13 3.5E-18 146.9 15.1 84 285-368 6-119 (449)
12 COG1994 SpoIVFB Zn-dependent p 99.3 2.2E-11 4.7E-16 120.2 14.5 128 283-450 41-176 (230)
13 COG0750 Predicted membrane-ass 98.9 1.9E-09 4E-14 111.5 5.6 242 166-449 82-338 (375)
14 PF13398 Peptidase_M50B: Pepti 97.3 0.00062 1.3E-08 66.4 7.6 65 295-367 23-88 (200)
15 COG0750 Predicted membrane-ass 96.3 0.012 2.7E-07 61.2 8.0 82 287-368 6-120 (375)
16 KOG2921 Intramembrane metallop 95.5 0.012 2.5E-07 63.3 3.6 82 284-368 120-206 (484)
17 PF11667 DUF3267: Protein of u 77.9 1.6 3.5E-05 38.5 2.3 69 294-369 4-72 (111)
18 PF00413 Peptidase_M10: Matrix 60.4 5.2 0.00011 36.2 1.7 16 295-310 106-121 (154)
19 cd04279 ZnMc_MMP_like_1 Zinc-d 58.1 6.1 0.00013 36.5 1.8 22 294-315 104-125 (156)
20 PF13485 Peptidase_MA_2: Pepti 50.7 13 0.00027 31.7 2.4 18 296-313 27-44 (128)
21 cd04268 ZnMc_MMP_like Zinc-dep 48.4 12 0.00025 34.4 1.9 21 293-313 93-113 (165)
22 PF05572 Peptidase_M43: Pregna 47.9 9.1 0.0002 36.2 1.2 12 295-306 70-81 (154)
23 cd04278 ZnMc_MMP Zinc-dependen 47.8 8.2 0.00018 35.7 0.9 20 294-313 107-126 (157)
24 PF01434 Peptidase_M41: Peptid 47.3 14 0.00031 36.3 2.5 29 295-323 29-59 (213)
25 PF07423 DUF1510: Protein of u 46.7 15 0.00034 37.0 2.6 54 172-229 159-213 (217)
26 PF01435 Peptidase_M48: Peptid 44.5 15 0.00034 35.0 2.2 12 295-306 90-101 (226)
27 PF06114 DUF955: Domain of unk 42.9 15 0.00033 30.9 1.7 17 296-312 44-60 (122)
28 PTZ00429 beta-adaptin; Provisi 40.1 27 0.00058 41.2 3.6 36 73-108 606-641 (746)
29 cd04277 ZnMc_serralysin_like Z 39.0 17 0.00036 34.6 1.5 21 295-315 114-134 (186)
30 smart00235 ZnMc Zinc-dependent 38.4 16 0.00036 32.8 1.3 18 297-314 89-106 (140)
31 PF14247 DUF4344: Domain of un 38.1 32 0.0007 34.8 3.4 25 290-315 88-112 (220)
32 KOG1832 HIV-1 Vpr-binding prot 37.9 30 0.00065 41.7 3.5 18 5-22 1354-1371(1516)
33 cd00203 ZnMc Zinc-dependent me 37.9 17 0.00036 33.3 1.2 21 293-313 95-115 (167)
34 PF13688 Reprolysin_5: Metallo 37.5 18 0.0004 34.3 1.5 21 294-314 142-162 (196)
35 PF13582 Reprolysin_3: Metallo 36.8 18 0.00038 31.7 1.2 13 296-308 109-121 (124)
36 PF14891 Peptidase_M91: Effect 36.5 23 0.0005 33.9 2.0 16 295-310 104-119 (174)
37 PF12315 DUF3633: Protein of u 36.0 26 0.00056 35.4 2.3 28 284-314 85-112 (212)
38 PF13574 Reprolysin_2: Metallo 33.5 25 0.00054 33.6 1.7 21 294-314 111-131 (173)
39 PF02031 Peptidase_M7: Strepto 32.8 27 0.00058 32.9 1.7 10 297-306 80-89 (132)
40 PRK03001 M48 family peptidase; 31.3 30 0.00064 35.6 2.0 12 295-306 125-136 (283)
41 cd04327 ZnMc_MMP_like_3 Zinc-d 31.0 27 0.00059 33.9 1.5 16 295-310 93-108 (198)
42 PHA02456 zinc metallopeptidase 30.9 29 0.00064 32.1 1.6 19 298-316 83-101 (141)
43 PRK03982 heat shock protein Ht 30.8 31 0.00067 35.5 2.0 12 295-306 126-137 (288)
44 cd04269 ZnMc_adamalysin_II_lik 30.4 34 0.00073 32.6 2.1 20 294-313 131-150 (194)
45 cd04270 ZnMc_TACE_like Zinc-de 30.2 32 0.00069 34.7 1.9 17 293-309 166-182 (244)
46 PF11085 YqhR: Conserved membr 30.1 4.7E+02 0.01 25.9 9.7 82 416-502 33-135 (173)
47 PF10263 SprT-like: SprT-like 29.8 38 0.00082 31.1 2.2 19 293-311 59-77 (157)
48 COG2856 Predicted Zn peptidase 29.1 30 0.00065 34.8 1.5 15 297-311 75-89 (213)
49 smart00731 SprT SprT homologue 29.0 34 0.00073 31.7 1.7 17 294-310 59-75 (146)
50 PF09471 Peptidase_M64: IgA Pe 28.8 24 0.00053 36.4 0.8 14 295-308 217-230 (264)
51 cd04267 ZnMc_ADAM_like Zinc-de 27.6 27 0.00059 33.1 0.9 20 294-313 133-152 (192)
52 COG0501 HtpX Zn-dependent prot 27.6 38 0.00083 34.0 2.0 12 295-306 158-169 (302)
53 PRK04897 heat shock protein Ht 26.7 40 0.00086 35.1 2.0 12 295-306 138-149 (298)
54 PF01447 Peptidase_M4: Thermol 26.6 41 0.00089 31.9 1.9 12 297-308 138-149 (150)
55 PF13583 Reprolysin_4: Metallo 26.3 34 0.00074 33.6 1.3 17 297-313 140-156 (206)
56 PF12388 Peptidase_M57: Dual-a 26.1 34 0.00074 34.5 1.3 26 289-314 128-153 (211)
57 PRK12462 phosphoserine aminotr 25.9 1E+02 0.0022 33.3 4.9 63 152-222 12-76 (364)
58 COG3824 Predicted Zn-dependent 25.6 31 0.00067 32.3 0.8 14 293-306 108-121 (136)
59 PRK01345 heat shock protein Ht 25.1 44 0.00096 35.2 2.0 12 295-306 125-136 (317)
60 PRK03072 heat shock protein Ht 24.9 45 0.00098 34.6 2.0 11 295-305 128-138 (288)
61 COG5309 Exo-beta-1,3-glucanase 24.8 1.1E+02 0.0024 32.4 4.7 61 157-221 218-281 (305)
62 PF13699 DUF4157: Domain of un 24.8 43 0.00093 28.4 1.5 12 296-307 63-74 (79)
63 COG0830 UreF Urease accessory 24.6 80 0.0017 32.3 3.6 32 415-446 157-188 (229)
64 TIGR01241 FtsH_fam ATP-depende 24.5 34 0.00074 37.7 1.1 17 296-312 313-329 (495)
65 KOG3320 40S ribosomal protein 24.3 1E+02 0.0022 30.6 4.1 27 196-222 74-100 (192)
66 PRK02391 heat shock protein Ht 24.1 48 0.001 34.6 2.0 11 295-305 134-144 (296)
67 PLN02452 phosphoserine transam 23.9 1.3E+02 0.0027 32.4 5.1 63 152-222 15-79 (365)
68 PRK05457 heat shock protein Ht 23.8 49 0.0011 34.3 2.0 11 295-305 135-145 (284)
69 KOG0943 Predicted ubiquitin-pr 23.8 74 0.0016 39.9 3.5 18 141-158 1814-1831(3015)
70 PF04298 Zn_peptidase_2: Putat 22.5 51 0.0011 33.6 1.7 12 296-307 91-102 (222)
71 PF01421 Reprolysin: Reprolysi 22.1 62 0.0013 31.0 2.2 21 293-313 130-150 (199)
72 PRK01265 heat shock protein Ht 22.1 55 0.0012 34.9 2.0 11 295-305 141-151 (324)
73 cd04927 ACT_ACR-like_2 Second 22.0 1.1E+02 0.0024 25.3 3.4 35 168-213 40-74 (76)
74 PRK02870 heat shock protein Ht 21.8 56 0.0012 35.0 2.0 11 295-305 174-184 (336)
75 PRK04860 hypothetical protein; 21.7 85 0.0018 30.2 3.0 21 292-312 61-81 (160)
76 KOG2719 Metalloprotease [Gener 21.5 52 0.0011 36.5 1.7 14 295-308 281-294 (428)
77 TIGR01651 CobT cobaltochelatas 21.3 1.5E+02 0.0033 34.3 5.3 11 155-165 313-323 (600)
78 COG3091 SprT Zn-dependent meta 20.9 1.4E+02 0.0031 29.0 4.2 34 279-316 49-82 (156)
79 COG5495 Uncharacterized conser 20.7 64 0.0014 33.6 2.0 37 156-214 129-165 (289)
No 1
>cd06160 S2P-M50_like_2 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the S2P/M50 family of RIP proteases use proteolytic activity within the membrane to transfer information across membranes to integrate gene expression with physiologic stresses occurring in another cellular compartment. In eukaryotic cells they regulate such processes as sterol and lipid metabolism, and endoplasmic reticulum stress responses. In prokaryotes they regulate such processes as sporulation, cell division, stress response, and cell differentiation. This group includes bacterial, eukaryotic, and Archaeal S2P/M50s homologs with additional putative N- and C-terminal transmembrane spanning regions, relative to the core protein, and no PDZ domains.
Probab=99.97 E-value=2.8e-31 Score=253.67 Aligned_cols=177 Identities=40% Similarity=0.722 Sum_probs=147.8
Q ss_pred HHHHHHHHHHHhcccccccchhccccchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceE
Q 009620 253 FGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAI 332 (530)
Q Consensus 253 ~~l~Tl~Tt~~ag~~~L~~~~~~~~~~~~~l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAv 332 (530)
++++|+.+....+.- ...+ +..++++.+..+++++++++.++++||+||+++||++|+|++.++++|...+|++|++
T Consensus 3 ~~~~s~~~~~~~~~~-~~~~--~~~~~~~~~~~~~~~~l~l~~~l~iHElgH~~~A~~~G~~~~~~~l~P~~~~G~~G~~ 79 (183)
T cd06160 3 LLVLTLLTTLLVGAW-LSGN--DVPGNPLLLLQGLPFALALLAILGIHEMGHYLAARRHGVKASLPYFIPFPFIGTFGAF 79 (183)
T ss_pred HHHHHHHHHHHHHHH-Hhcc--cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCccceeeeehHhcCcEEEE
Confidence 456677776655431 1111 2236778889999999999999999999999999999999999999998779999999
Q ss_pred EecccccCCccceeeeeecchhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccch
Q 009620 333 TRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVN 412 (530)
Q Consensus 333 i~~~s~~~~RkalfdIAlAGPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lh 412 (530)
+++++..++|+++++|++|||++|+++++++++++
T Consensus 80 ~~~~~~~~~~~~~~~IalAGPl~nl~lali~~~~~--------------------------------------------- 114 (183)
T cd06160 80 IRMRSPIPNRKALFDIALAGPLAGLLLALPVLIIG--------------------------------------------- 114 (183)
T ss_pred EEecCCCCChhHhehhhhhHHHHHHHHHHHHHHHH---------------------------------------------
Confidence 99998888999999999999999999987775543
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhh--hhHHHHHHH
Q 009620 413 PLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKASTRLTGVSIVLLGLSSLFSD--VTFYWVVLV 478 (530)
Q Consensus 413 PL~~agwinLvLtafNLLPigpLDGGRIl~Allgrr~a~~i~~~~~~lLGl~~l~~~--~~l~W~ili 478 (530)
+..++|+|+++++|||+|++|||||||+++++++|.+.++++++.+++|+.++.++ .+++|+.++
T Consensus 115 -~~~~~~~nl~l~~fNLLPi~PLDGGril~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 181 (183)
T cd06160 115 -LAVAGWVGLLVTALNLLPVGQLDGGHIVRALFGRRVAALIGIGLLVALGLLALYLSFSIWLLWALLL 181 (183)
T ss_pred -HHHHHHHHHHHHHHHhCCCCCcChHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 12458999999999999999999999999999999999999999899998888765 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=3.2e-25 Score=218.09 Aligned_cols=134 Identities=30% Similarity=0.390 Sum_probs=111.4
Q ss_pred cchHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEecccccCCccceeeeeecchhhHH
Q 009620 278 DNLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGF 357 (530)
Q Consensus 278 ~~~~~l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~~~~RkalfdIAlAGPLAg~ 357 (530)
.+...+..++.++++++.++++||+||+++||++|+++. .+.+.+||+++++++...++++++.|++|||++|+
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 455668889999999999999999999999999999998 67777899999999888889999999999999999
Q ss_pred HHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCCh
Q 009620 358 SLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDG 437 (530)
Q Consensus 358 llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigpLDG 437 (530)
+++++++++....+... .+. ....+.+.+|+|+++++|||+|++||||
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 0123456789999999999999999999
Q ss_pred HHHHHHHhhhHH
Q 009620 438 GRIAFALWGRKA 449 (530)
Q Consensus 438 GRIl~Allgrr~ 449 (530)
|||+++++.++.
T Consensus 159 gril~~ll~~~~ 170 (227)
T cd06164 159 GRVLRALLWRRT 170 (227)
T ss_pred HHHHHHHHHHhc
Confidence 999999987654
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=1.7e-23 Score=202.94 Aligned_cols=129 Identities=29% Similarity=0.433 Sum_probs=107.8
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEecccccCCccceeeeeecchhhHHHHH
Q 009620 281 NLLTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLG 360 (530)
Q Consensus 281 ~~l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~~~~RkalfdIAlAGPLAg~llA 360 (530)
..+..++.+++.++.++++||+||+++||++|+++. .+.+.+||+++++++...+|++++.|++|||++|++++
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 457788899999999999999999999999999998 67788899999998777789999999999999999999
Q ss_pred HHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHH
Q 009620 361 FVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRI 440 (530)
Q Consensus 361 l~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigpLDGGRI 440 (530)
+++.++....+.. + .....+.+.+++|+++++|||+|+.|||||||
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 HHHHhhhHH
Q 009620 441 AFALWGRKA 449 (530)
Q Consensus 441 l~Allgrr~ 449 (530)
+++++.++.
T Consensus 145 l~~ll~~~~ 153 (208)
T cd06161 145 LRALLWRRT 153 (208)
T ss_pred HHHHHHHhc
Confidence 999987764
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=99.86 E-value=5.7e-21 Score=182.78 Aligned_cols=113 Identities=34% Similarity=0.428 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcccC--cccccc------------ceecccceEEeccccc--------------
Q 009620 288 PGALVTALVIGVHELGHILAAKSTGVELGV--PYFVPS------------WQIGSFGAITRIRNIV-------------- 339 (530)
Q Consensus 288 p~aL~Ll~iL~iHElGH~laAr~~Gvk~s~--P~fIP~------------i~LgtFGAvi~~~s~~-------------- 339 (530)
.+.+++..++++||+||+++||++|+|+.. .-|=|. +.+.++|+++++++..
T Consensus 3 ~~~i~l~~~v~iHElGH~~~Ar~~Gv~v~~f~iGfGp~l~~~~~~~t~~~i~~iPlGGyv~~~~~~~~~~~~~~~~~~~f 82 (182)
T cd06163 3 AFILVLGILIFVHELGHFLVAKLFGVKVEEFSIGFGPKLFSFKKGETEYSISAIPLGGYVKMLGEDPEEEADPEDDPRSF 82 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCeeeEeeeecCceeeeeecCCeEEEEEEEEeccEEEecCCCcccccccccchHHH
Confidence 355677788999999999999999999873 001121 2356799999886431
Q ss_pred --CCccceeeeeecchhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHH
Q 009620 340 --SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIW 417 (530)
Q Consensus 340 --~~RkalfdIAlAGPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~a 417 (530)
.++++++.|++|||++|+++|++++++. +.++
T Consensus 83 ~~~~~~~ri~V~lAGP~~NlilA~i~~~~~----------------------------------------------~~~~ 116 (182)
T cd06163 83 NSKPVWQRILIVFAGPLANFLLAIVLFAVL----------------------------------------------LSFL 116 (182)
T ss_pred ccCCcchhhhhhhhHHHHHHHHHHHHHHHH----------------------------------------------HHHH
Confidence 1467899999999999999988664321 1245
Q ss_pred HHHHHHHHHHhhcCCCCCChHHHHHHHhh
Q 009620 418 AWAGLLINAINSIPAGELDGGRIAFALWG 446 (530)
Q Consensus 418 gwinLvLtafNLLPigpLDGGRIl~Allg 446 (530)
.++|+.+++|||+|++||||||++++++.
T Consensus 117 ~~~n~~l~~fNLlPippLDGg~il~~~~~ 145 (182)
T cd06163 117 ALLSINLGILNLLPIPALDGGHLLFLLIE 145 (182)
T ss_pred HHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence 78999999999999999999999999985
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=99.85 E-value=6.2e-21 Score=179.15 Aligned_cols=139 Identities=28% Similarity=0.322 Sum_probs=100.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCcccC----cccccc-------ceecccceEEecccccC-----Cccceeeeeec
Q 009620 288 PGALVTALVIGVHELGHILAAKSTGVELGV----PYFVPS-------WQIGSFGAITRIRNIVS-----KREDLLKVAAA 351 (530)
Q Consensus 288 p~aL~Ll~iL~iHElGH~laAr~~Gvk~s~----P~fIP~-------i~LgtFGAvi~~~s~~~-----~RkalfdIAlA 351 (530)
.+.+++++++.+||+||+++||++|+++.. ..+.|. +.+.++|+++++.+... +|++++.|++|
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 356678889999999999999999998752 122221 22445799998877554 48899999999
Q ss_pred chhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcC
Q 009620 352 GPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIP 431 (530)
Q Consensus 352 GPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLP 431 (530)
||++|++++++++++.......... .. ..+ ......+.+.+++|+|+.+++|||+|
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 9999999999987766543221000 00 000 00011245678899999999999999
Q ss_pred CCCCChHHHHHHHhhhHHH
Q 009620 432 AGELDGGRIAFALWGRKAS 450 (530)
Q Consensus 432 igpLDGGRIl~Allgrr~a 450 (530)
++||||||++++++.++..
T Consensus 138 i~plDGg~il~~~l~~~~~ 156 (180)
T cd05709 138 IPPLDGGRILRALLEAIRG 156 (180)
T ss_pred CCCCChHHHHHHHHhHHHH
Confidence 9999999999999988764
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=4.1e-19 Score=178.75 Aligned_cols=120 Identities=26% Similarity=0.319 Sum_probs=94.4
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEeccccc---CCccceeeeeecchhhHHHH
Q 009620 283 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIV---SKREDLLKVAAAGPLAGFSL 359 (530)
Q Consensus 283 l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~~---~~RkalfdIAlAGPLAg~ll 359 (530)
+...+.+.++++.++.+||+||+++||++|+++....+ .+.+.++||++++++.. .++++++.|++|||++|+++
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 34566677788889999999999999999999983211 01123588999886543 46789999999999999999
Q ss_pred HHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHH
Q 009620 360 GFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGR 439 (530)
Q Consensus 360 Al~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigpLDGGR 439 (530)
+++++++.. +.+..|+|+.+++|||+|+.||||||
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 987654321 12457899999999999999999999
Q ss_pred HHHHHhhhHH
Q 009620 440 IAFALWGRKA 449 (530)
Q Consensus 440 Il~Allgrr~ 449 (530)
++++++..+.
T Consensus 220 il~~ll~~~~ 229 (263)
T cd06159 220 VFRDLLEALL 229 (263)
T ss_pred HHHHHHHHHh
Confidence 9999976543
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=5.8e-19 Score=166.68 Aligned_cols=127 Identities=28% Similarity=0.345 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccCccc----ccc----------ceecccceE---------------Eeccccc
Q 009620 289 GALVTALVIGVHELGHILAAKSTGVELGVPYF----VPS----------WQIGSFGAI---------------TRIRNIV 339 (530)
Q Consensus 289 ~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~f----IP~----------i~LgtFGAv---------------i~~~s~~ 339 (530)
+.++++.++.+||+||+++|+++|+|+..... .+. +.+.++|++ ...+...
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 35677789999999999999999999985421 111 001122332 2222234
Q ss_pred CCccceeeeeecchhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHH
Q 009620 340 SKREDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAW 419 (530)
Q Consensus 340 ~~RkalfdIAlAGPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agw 419 (530)
.+|++.+.|++|||++|++++++++.+......... ......+.+.+++|
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 009620 420 AGLLINAINSIPAGELDGGRIAFALW 445 (530)
Q Consensus 420 inLvLtafNLLPigpLDGGRIl~All 445 (530)
+|+.++++||+|++||||||++++++
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=99.77 E-value=6.2e-18 Score=171.27 Aligned_cols=113 Identities=25% Similarity=0.231 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceeccc----ceEEecccc---cCCccceeeeeecchhhHHHHHH
Q 009620 289 GALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSF----GAITRIRNI---VSKREDLLKVAAAGPLAGFSLGF 361 (530)
Q Consensus 289 ~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtF----GAvi~~~s~---~~~RkalfdIAlAGPLAg~llAl 361 (530)
+.++++.++.+||+||+++|+++|+++. .+.+..| ||+++..+. ..++++++.|+.|||++|+++|+
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 4466788999999999999999999998 4333333 899987433 23567789999999999999998
Q ss_pred HHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHH
Q 009620 362 VLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIA 441 (530)
Q Consensus 362 ~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigpLDGGRIl 441 (530)
+++++.+. ..+.+.+++|+.+++|||+|+.|||||||+
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 009620 442 FALWGRKA 449 (530)
Q Consensus 442 ~Allgrr~ 449 (530)
++++.++.
T Consensus 242 ~~ll~~~~ 249 (277)
T cd06162 242 STFLEATL 249 (277)
T ss_pred HHHHHHHh
Confidence 99987654
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=99.77 E-value=2.7e-18 Score=163.88 Aligned_cols=134 Identities=26% Similarity=0.324 Sum_probs=92.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccC----ccccccc--------e--ec--ccceEEec-----ccccCCccceee
Q 009620 289 GALVTALVIGVHELGHILAAKSTGVELGV----PYFVPSW--------Q--IG--SFGAITRI-----RNIVSKREDLLK 347 (530)
Q Consensus 289 ~aL~Ll~iL~iHElGH~laAr~~Gvk~s~----P~fIP~i--------~--Lg--tFGAvi~~-----~s~~~~Rkalfd 347 (530)
..++++.++.+||+||+++|+++|+++.. .++.|.- . +. ..+++++. +...++|++++.
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 44567789999999999999999999863 4455521 0 11 02334432 222346788999
Q ss_pred eeecchhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHH
Q 009620 348 VAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAI 427 (530)
Q Consensus 348 IAlAGPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtaf 427 (530)
|++|||++|+++++++.++........+ ...+.+ ...+....++|+.+++|
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 12234567899999999
Q ss_pred hhcCCCCCChHHHHHHHhhhHHHH
Q 009620 428 NSIPAGELDGGRIAFALWGRKAST 451 (530)
Q Consensus 428 NLLPigpLDGGRIl~Allgrr~a~ 451 (530)
||+|++|||||||+++++.++...
T Consensus 135 NLlPipPLDG~~il~~~l~~~~~~ 158 (181)
T cd06158 135 NLLPIPPLDGSKILAALLPRRLAE 158 (181)
T ss_pred HhCCCCCCChHHHHHHHcchhHHH
Confidence 999999999999999999887654
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=99.53 E-value=1.3e-13 Score=146.77 Aligned_cols=80 Identities=28% Similarity=0.419 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccC--cccccc------------ceecccceEEecccc----------------
Q 009620 289 GALVTALVIGVHELGHILAAKSTGVELGV--PYFVPS------------WQIGSFGAITRIRNI---------------- 338 (530)
Q Consensus 289 ~aL~Ll~iL~iHElGH~laAr~~Gvk~s~--P~fIP~------------i~LgtFGAvi~~~s~---------------- 338 (530)
+.+.+.+++++||+||+++||++|+++.. --|=|. +.+.++|+++++...
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 35566778899999999999999999862 111121 336789999998411
Q ss_pred -cCCccceeeeeecchhhHHHHHHHHHHHHh
Q 009620 339 -VSKREDLLKVAAAGPLAGFSLGFVLFLVGF 368 (530)
Q Consensus 339 -~~~RkalfdIAlAGPLAg~llAl~ll~iGl 368 (530)
..+.++++.|.+|||++|+++|++++++.+
T Consensus 89 ~~~~~~~r~~i~~aGp~~N~~~a~~~~~~~~ 119 (420)
T TIGR00054 89 NNKSVFQKAIIIFAGPLANFIFAIFVYIFIS 119 (420)
T ss_pred ccCCHHHHHHhhhcccHHHHHHHHHHHHHHH
Confidence 035578899999999999999998876543
No 11
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.51 E-value=1.6e-13 Score=146.94 Aligned_cols=84 Identities=23% Similarity=0.334 Sum_probs=62.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccC--cccccc-------------ceecccceEEecccc-----------
Q 009620 285 NGLPGALVTALVIGVHELGHILAAKSTGVELGV--PYFVPS-------------WQIGSFGAITRIRNI----------- 338 (530)
Q Consensus 285 ~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~--P~fIP~-------------i~LgtFGAvi~~~s~----------- 338 (530)
..+.+.+++.+++++||+||+++||++|+|+.. --|=|. +-+.++|++.+|...
T Consensus 6 ~i~~fil~l~~li~vHElGHfl~Ar~~gv~V~~FsiGfGp~l~~~~~~~~Tey~i~~iPlGGyVk~~~e~~~~~~~~~~~ 85 (449)
T PRK10779 6 NLAAFIVALGVLITVHEFGHFWVARRCGVRVERFSIGFGKALWRRTDRQGTEYVIALIPLGGYVKMLDERVEPVAPELRH 85 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCeeeEEEeecChhHeeEecCCCcEEEEEEEcCCCeeecCCCCCCcCChhhhh
Confidence 344466667778899999999999999999983 111121 235688999987432
Q ss_pred ----cCCccceeeeeecchhhHHHHHHHHHHHHh
Q 009620 339 ----VSKREDLLKVAAAGPLAGFSLGFVLFLVGF 368 (530)
Q Consensus 339 ----~~~RkalfdIAlAGPLAg~llAl~ll~iGl 368 (530)
.++.++++.|.+|||++|+++|++++.+-+
T Consensus 86 ~~f~~k~~~~R~~i~~AGp~~N~ila~~~~~~~~ 119 (449)
T PRK10779 86 HAFNNKTVGQRAAIIAAGPIANFIFAIFAYWLVF 119 (449)
T ss_pred hhhccCCHHHhhhhhhhhHHHHHHHHHHHHHHHH
Confidence 123578899999999999999998865443
No 12
>COG1994 SpoIVFB Zn-dependent proteases [General function prediction only]
Probab=99.33 E-value=2.2e-11 Score=120.24 Aligned_cols=128 Identities=26% Similarity=0.325 Sum_probs=84.1
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEecccccCCccceee-------eeec-chh
Q 009620 283 LTNGLPGALVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLK-------VAAA-GPL 354 (530)
Q Consensus 283 l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~~~~Rkalfd-------IAlA-GPL 354 (530)
+.++....++++.-+..||+||...++++|++.. .+.++.+|++...+..+.+.+..+. +++| ||+
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 4455555555777899999999999999999987 4444346667766665555444444 4455 666
Q ss_pred hHHHHHHHHHHHHhhcCCCCCccccccccchhhhhhhhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCC
Q 009620 355 AGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFLAGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGE 434 (530)
Q Consensus 355 Ag~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigp 434 (530)
.|+++++++ .... +.. ...+ +....+...+.+|+++++|||+|++|
T Consensus 115 ~ni~la~~~-~~~~--~~~-----------~~~~--------------------~~~~~~~~la~~Nl~L~lFNLiPi~P 160 (230)
T COG1994 115 TNIALAVLG-LLAL--SLF-----------LYHS--------------------VLFAFLAALALVNLVLALFNLLPIPP 160 (230)
T ss_pred HHHHHHHHH-HHhh--ccc-----------ccch--------------------hHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 665555443 1110 000 0000 00112335677999999999999999
Q ss_pred CChHHHHHHHhhhHHH
Q 009620 435 LDGGRIAFALWGRKAS 450 (530)
Q Consensus 435 LDGGRIl~Allgrr~a 450 (530)
|||||++++++.++..
T Consensus 161 LDGg~vlr~~~~~~~~ 176 (230)
T COG1994 161 LDGGRVLRALLPRRYG 176 (230)
T ss_pred CChHHHHHHHccHHHH
Confidence 9999999999888765
No 13
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=98.88 E-value=1.9e-09 Score=111.52 Aligned_cols=242 Identities=13% Similarity=0.040 Sum_probs=138.5
Q ss_pred cccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEecCCCCCcEEEEEeCCCCCCCCCChh
Q 009620 166 QVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVNPEDDKPVAVVVPRKTLQPETTAVP 245 (530)
Q Consensus 166 ~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~~~~~kPv~~v~P~~~~~p~~~~~~ 245 (530)
.+++.++|+.....+ ...+++.|.+.......+..+...+ ..|..+ ...|+.. + .. ..
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 9999999999988766665544433 223111 1112211 0 00 00
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccccchhccccchHHHHh------hHHHHHHHHHHHHHH--HHHHHHHHHHcCCcccC
Q 009620 246 EWFAAGAFGLVTVFTLLLRNVPALQSNLLSTFDNLNLLTN------GLPGALVTALVIGVH--ELGHILAAKSTGVELGV 317 (530)
Q Consensus 246 ~~~~~~l~~l~Tl~Tt~~ag~~~L~~~~~~~~~~~~~l~~------glp~aL~Ll~iL~iH--ElGH~laAr~~Gvk~s~ 317 (530)
..+..+.+..|...+..|- +...+++.... +.++. .+.+.+.| +..|..+++.++.....
T Consensus 140 ---------s~a~~a~l~~Gd~iv~~~~-~~i~~~~~~~~~~~~~~~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~~ 207 (375)
T COG0750 140 ---------SAAALAGLRPGDRIVAVDG-EKVASWDDVRRLLVAAAGDVFN--LLTILVIRLDGEAHAVAAEIIKSLGLT 207 (375)
T ss_pred ---------CHHHHcCCCCCCEEEeECC-EEccCHHHHHHHHHhccCCccc--ceEEEEEeccceeeeccccceeeEeee
Confidence 0112223334433333221 11222322222 22222 34567788 99999999988888888
Q ss_pred ccccccceecccceEEe--cccccCC-----ccceeeeeecchhhHHHHHHHHHHHHhhcCCCCCccccccccchhhhhh
Q 009620 318 PYFVPSWQIGSFGAITR--IRNIVSK-----REDLLKVAAAGPLAGFSLGFVLFLVGFIFPPSDGIGIVVDASVFHESFL 390 (530)
Q Consensus 318 P~fIP~i~LgtFGAvi~--~~s~~~~-----RkalfdIAlAGPLAg~llAl~ll~iGl~l~~s~~~~~~v~~~~f~~s~L 390 (530)
|+++| ...+..++.++ ..+..++ ++...++..+++++.. +.-...++.+.+... .......+..+.+
T Consensus 208 P~~~~-~~~~~~~~~i~~~~i~~~p~~~~~~~~~~~~~~~~~~i~~~-v~~~~~~~~~~~~~l----~~~~~~~~~~~~l 281 (375)
T COG0750 208 PVVIP-LKPGDKIVAVDVGAIGLSPNGEPDVGKVLVKYGPLEAVGLA-VEKTGRLVKLTLKML----KKLITGDLSLKNL 281 (375)
T ss_pred cceec-cCCCCEEEEeeeeeeeeccCCCCccceeeeccCHHHHHHHH-HHHHHHHHHHHHHHH----HHheecccccccc
Confidence 98877 45555655443 3334444 7889999999999943 333333333322100 0000011112222
Q ss_pred hhhhHHhhhccccCCCCCccchHHHHHHHHHHHHHHHhhcCCCCCChHHHHHHHhhhHH
Q 009620 391 AGGFAKLLLGDVLKDGTPISVNPLVIWAWAGLLINAINSIPAGELDGGRIAFALWGRKA 449 (530)
Q Consensus 391 ~g~la~l~LG~~l~~g~~v~lhPL~~agwinLvLtafNLLPigpLDGGRIl~Allgrr~ 449 (530)
.|.+.....+.... .....|++.+++|+|+.++++||+|+++|||||++++++.+..
T Consensus 282 ~Gpi~i~~~~~~~~--~~~~~~~l~~~~~lsi~lg~lNllP~p~LDGG~i~~~~~e~~~ 338 (375)
T COG0750 282 SGPIGIAKIAGAAA--SLGLINLLFFLALLSINLGILNLLPIPPLDGGHLLFYLLEALR 338 (375)
T ss_pred cCceehhhhhhHHH--hhHHHHHHHHHHHHHHHHHHHhccCCCccCccHHHHHHHHHHh
Confidence 22221111111000 1234689999999999999999999999999999999987654
No 14
>PF13398 Peptidase_M50B: Peptidase M50B-like
Probab=97.32 E-value=0.00062 Score=66.40 Aligned_cols=65 Identities=31% Similarity=0.274 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHcCCcccCccccccceecc-cceEEecccccCCccceeeeeecchhhHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAAKSTGVELGVPYFVPSWQIGS-FGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVG 367 (530)
Q Consensus 295 ~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~Lgt-FGAvi~~~s~~~~RkalfdIAlAGPLAg~llAl~ll~iG 367 (530)
....+||+||.++|...|-++. .+.+.+ -++.+..+. +++...+.++.|||++..+++..++..+
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 4578999999999999999999 444433 466777666 5666789999999999999887776655
No 15
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=96.30 E-value=0.012 Score=61.16 Aligned_cols=82 Identities=28% Similarity=0.409 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCcccCcc--ccc-------c------ceecccceEEecccccC-----------
Q 009620 287 LPGALVTALVIGVHELGHILAAKSTGVELGVPY--FVP-------S------WQIGSFGAITRIRNIVS----------- 340 (530)
Q Consensus 287 lp~aL~Ll~iL~iHElGH~laAr~~Gvk~s~P~--fIP-------~------i~LgtFGAvi~~~s~~~----------- 340 (530)
+.+.+.+...+.+||+||+|.||++|+++.... |-| . +...+.|++.++.....
T Consensus 6 i~~i~~~~~lv~~he~gh~~~a~~~~~~v~~f~ig~g~~l~~~~~~~~~~~~i~~~plggyv~~~~~~~~~~~~~~~~~~ 85 (375)
T COG0750 6 IAFIIALGVLVFVHELGHFWVARRCGVKVERFSIGFGPKLFSRKDKGGTEYVLSAIPLGGYVKMLGEDAEEVVLKGPEPR 85 (375)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHhcCceeEEEEeccCcceEEEEcCCceEEEEeecCccceEEEecCccccccccccCcc
Confidence 334556667889999999999999999998421 112 0 12345666655432111
Q ss_pred -------CccceeeeeecchhhHHHHHHHHHHHHh
Q 009620 341 -------KREDLLKVAAAGPLAGFSLGFVLFLVGF 368 (530)
Q Consensus 341 -------~RkalfdIAlAGPLAg~llAl~ll~iGl 368 (530)
+-+..+.+-+|||+.|++.++...+...
T Consensus 86 ~~~f~~~~~~~~~~~~~~Gp~~n~i~~~~~~~~~~ 120 (375)
T COG0750 86 PRAFNAKSVWQRIAIVFAGPLFNFILAIVLFVVLF 120 (375)
T ss_pred hhhhhcccccchhheeechHHHHHHHHHHHHHhhh
Confidence 1123678999999999998777765543
No 16
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=95.49 E-value=0.012 Score=63.33 Aligned_cols=82 Identities=28% Similarity=0.319 Sum_probs=53.1
Q ss_pred HhhHHHH-HHHHHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEecccc----cCCccceeeeeecchhhHHH
Q 009620 284 TNGLPGA-LVTALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNI----VSKREDLLKVAAAGPLAGFS 358 (530)
Q Consensus 284 ~~glp~a-L~Ll~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~----~~~RkalfdIAlAGPLAg~l 358 (530)
+.+++|. ..++..+.+||+||+|||.+.|+++.. |==++..--=||++.+... .+.- ....|--||-.-||+
T Consensus 120 l~~I~yf~t~lvi~~vvHElGHalAA~segV~vng--fgIfi~aiyPgafvdl~~dhLqsl~~f-r~LrIfcAGIWHNfv 196 (484)
T KOG2921|consen 120 LSGIAYFLTSLVITVVVHELGHALAAASEGVQVNG--FGIFIAAIYPGAFVDLDNDHLQSLPSF-RALRIFCAGIWHNFV 196 (484)
T ss_pred cccchhhhhhHHHHHHHHHhhHHHHHHhcCceeee--eEEEEEEEcCchhhhhhhhHHhhcchH-HHHHHHhhhHHHHHH
Confidence 3455544 456678889999999999999999972 1001111112566655321 1222 245788999999999
Q ss_pred HHHHHHHHHh
Q 009620 359 LGFVLFLVGF 368 (530)
Q Consensus 359 lAl~ll~iGl 368 (530)
+|+++.+.-.
T Consensus 197 fallc~lal~ 206 (484)
T KOG2921|consen 197 FALLCVLALF 206 (484)
T ss_pred HHHHHHHHHH
Confidence 9988865443
No 17
>PF11667 DUF3267: Protein of unknown function (DUF3267); InterPro: IPR021683 This family of proteins has no known function.
Probab=77.89 E-value=1.6 Score=38.50 Aligned_cols=69 Identities=22% Similarity=0.222 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHcCCcccCccccccceecccceEEecccccCCccceeeeeecchhhHHHHHHHHHHHHhh
Q 009620 294 ALVIGVHELGHILAAKSTGVELGVPYFVPSWQIGSFGAITRIRNIVSKREDLLKVAAAGPLAGFSLGFVLFLVGFI 369 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gvk~s~P~fIP~i~LgtFGAvi~~~s~~~~RkalfdIAlAGPLAg~llAl~ll~iGl~ 369 (530)
+..+.+||+-|++..+.+|.+.... | .+....+-.+.. .+ .+-.|..+.+...-|. ++++++.++++..
T Consensus 4 ~~~~~~HEliH~l~~~~~~~~~~~~-~--g~~~~~~~~~~~-~~-~~~sk~~~~i~~l~P~--ivl~~~~~~~~~~ 72 (111)
T PF11667_consen 4 IVLIPLHELIHGLFFKLFGKKPKVK-F--GFKWKLGPFYAT-CN-EPISKWRFIIILLAPF--IVLTILPLILGFF 72 (111)
T ss_pred EeeHHHHHHHHHHHHHHhCCCCceE-E--EEEeeeEEEEEe-cC-cEEeHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 3456899999999999999965311 1 000011111222 22 2334455666666675 4455555444443
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=60.44 E-value=5.2 Score=36.20 Aligned_cols=16 Identities=31% Similarity=0.665 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAAKS 310 (530)
Q Consensus 295 ~iL~iHElGH~laAr~ 310 (530)
..+++||+||.+=-..
T Consensus 106 ~~v~~HEiGHaLGL~H 121 (154)
T PF00413_consen 106 QSVAIHEIGHALGLDH 121 (154)
T ss_dssp HHHHHHHHHHHTTBES
T ss_pred hhhhhhccccccCcCc
Confidence 4578999999875433
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=58.13 E-value=6.1 Score=36.50 Aligned_cols=22 Identities=32% Similarity=0.364 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHcCCcc
Q 009620 294 ALVIGVHELGHILAAKSTGVEL 315 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gvk~ 315 (530)
+..+++||+||.+=.+....+.
T Consensus 104 ~~~~~~HEiGHaLGL~H~~~~~ 125 (156)
T cd04279 104 LQAIALHELGHALGLWHHSDRP 125 (156)
T ss_pred HHHHHHHHhhhhhcCCCCCCCc
Confidence 4578999999999887777765
No 20
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=50.71 E-value=13 Score=31.66 Aligned_cols=18 Identities=28% Similarity=0.233 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHcCC
Q 009620 296 VIGVHELGHILAAKSTGV 313 (530)
Q Consensus 296 iL~iHElGH~laAr~~Gv 313 (530)
-+++||++|.|.....+-
T Consensus 27 ~~l~HE~~H~~~~~~~~~ 44 (128)
T PF13485_consen 27 RVLAHELAHQWFGNYFGG 44 (128)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 678999999999999763
No 21
>cd04268 ZnMc_MMP_like Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases.
Probab=48.42 E-value=12 Score=34.42 Aligned_cols=21 Identities=29% Similarity=0.300 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009620 293 TALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 293 Ll~iL~iHElGH~laAr~~Gv 313 (530)
-....++||+||.+=-+.-.-
T Consensus 93 ~~~~~~~HEiGHaLGL~H~~~ 113 (165)
T cd04268 93 RLRNTAEHELGHALGLRHNFA 113 (165)
T ss_pred HHHHHHHHHHHHHhcccccCc
Confidence 445788999999975544443
No 22
>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=47.92 E-value=9.1 Score=36.24 Aligned_cols=12 Identities=42% Similarity=0.421 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
.-.++||+||++
T Consensus 70 g~TltHEvGH~L 81 (154)
T PF05572_consen 70 GKTLTHEVGHWL 81 (154)
T ss_dssp SHHHHHHHHHHT
T ss_pred ccchhhhhhhhh
Confidence 367899999986
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=47.81 E-value=8.2 Score=35.74 Aligned_cols=20 Identities=25% Similarity=0.479 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 009620 294 ALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gv 313 (530)
+..+++||+||.+=-..-..
T Consensus 107 ~~~~~~HEiGHaLGL~H~~~ 126 (157)
T cd04278 107 LFSVAAHEIGHALGLGHSSD 126 (157)
T ss_pred HHHHHHHHhccccccCCCCC
Confidence 45678999999976544333
No 24
>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=47.33 E-value=14 Score=36.34 Aligned_cols=29 Identities=28% Similarity=0.265 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHcCC--cccCcccccc
Q 009620 295 LVIGVHELGHILAAKSTGV--ELGVPYFVPS 323 (530)
Q Consensus 295 ~iL~iHElGH~laAr~~Gv--k~s~P~fIP~ 323 (530)
-.+.+||.||+++|...+- ++..-..+|.
T Consensus 29 ~~~A~HEAGhAvva~~l~~~~~v~~vsi~pr 59 (213)
T PF01434_consen 29 RRIAYHEAGHAVVAYLLPPADPVSKVSIVPR 59 (213)
T ss_dssp HHHHHHHHHHHHHHHHSSS---EEEEESSTT
T ss_pred HHHHHHHHHHHHHHHHhcccccEEEEEEecC
Confidence 3578999999999999873 4443334453
No 25
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=46.73 E-value=15 Score=37.01 Aligned_cols=54 Identities=26% Similarity=0.324 Sum_probs=38.3
Q ss_pred eeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCceEEEEEec-CCCCCcEE
Q 009620 172 TFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQYKLFLLVN-PEDDKPVA 229 (530)
Q Consensus 172 tF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y~lfl~~~-~~~~kPv~ 229 (530)
..|+|++..-.=-+.|.||= |.|.++|.+|+.+= -+++|+|++==- .++=||+-
T Consensus 159 is~atgi~~~~mi~w~ign~-G~~~~a~gtVs~k~---~~~~YrV~i~WVd~eGWkP~k 213 (217)
T PF07423_consen 159 ISYATGISEDNMIVWFIGNN-GSPQKAIGTVSDKD---TGKKYRVYIEWVDNEGWKPVK 213 (217)
T ss_pred HHHhhCCChhheEEEhhhcC-CcccceeEEeccCC---CCceEEEEEEEecCCCcccee
Confidence 36889988777789999996 77799999987653 367899974221 12227764
No 26
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=44.50 E-value=15 Score=34.98 Aligned_cols=12 Identities=50% Similarity=0.717 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
..++.||+||+.
T Consensus 90 ~aVlaHElgH~~ 101 (226)
T PF01435_consen 90 AAVLAHELGHIK 101 (226)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 468999999986
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=42.87 E-value=15 Score=30.88 Aligned_cols=17 Identities=41% Similarity=0.542 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHcC
Q 009620 296 VIGVHELGHILAAKSTG 312 (530)
Q Consensus 296 iL~iHElGH~laAr~~G 312 (530)
..++||+||++.-....
T Consensus 44 f~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 44 FTLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHhhhccc
Confidence 36799999999766553
No 28
>PTZ00429 beta-adaptin; Provisional
Probab=40.09 E-value=27 Score=41.19 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=21.4
Q ss_pred CCChhhhcccCCCCCCCCCcCcccCCCCCCCccCCC
Q 009620 73 SNNDKEKEVHDGQENQPATASDQEDDKSQPDSQLDS 108 (530)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (530)
++.||||+|+++.++.+++.++..++++..++++..
T Consensus 606 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 641 (746)
T PTZ00429 606 VELDEEDTEDDDAVELPSTPSMGTQDGSPAPSAAPA 641 (746)
T ss_pred cccccccccchhhccCCCCCCCCCCCCCCCcccccc
Confidence 344555666666667777777766666555455443
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=39.03 E-value=17 Score=34.60 Aligned_cols=21 Identities=29% Similarity=0.368 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHcCCcc
Q 009620 295 LVIGVHELGHILAAKSTGVEL 315 (530)
Q Consensus 295 ~iL~iHElGH~laAr~~Gvk~ 315 (530)
...++||+||.+=-+.-+...
T Consensus 114 ~~t~~HEiGHaLGL~H~~~~~ 134 (186)
T cd04277 114 YQTIIHEIGHALGLEHPGDYN 134 (186)
T ss_pred HHHHHHHHHHHhcCCCCCcCC
Confidence 467899999998665544443
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=38.35 E-value=16 Score=32.83 Aligned_cols=18 Identities=33% Similarity=0.527 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHcCCc
Q 009620 297 IGVHELGHILAAKSTGVE 314 (530)
Q Consensus 297 L~iHElGH~laAr~~Gvk 314 (530)
+++||+||++=...-..+
T Consensus 89 ~~~HEigHaLGl~H~~~~ 106 (140)
T smart00235 89 VAAHELGHALGLYHEQSR 106 (140)
T ss_pred cHHHHHHHHhcCCcCCCC
Confidence 789999999855443333
No 31
>PF14247 DUF4344: Domain of unknown function (DUF4344)
Probab=38.14 E-value=32 Score=34.76 Aligned_cols=25 Identities=32% Similarity=0.406 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcc
Q 009620 290 ALVTALVIGVHELGHILAAKSTGVEL 315 (530)
Q Consensus 290 aL~Ll~iL~iHElGH~laAr~~Gvk~ 315 (530)
++..+..++.||+||++...+ ++++
T Consensus 88 ~~~~~~~~l~HE~GHAlI~~~-~lPv 112 (220)
T PF14247_consen 88 AIGNVLFTLYHELGHALIDDL-DLPV 112 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHh-cCCc
Confidence 555666789999999998753 3443
No 32
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=37.89 E-value=30 Score=41.74 Aligned_cols=18 Identities=28% Similarity=0.366 Sum_probs=8.7
Q ss_pred cccccccccCCCCccccc
Q 009620 5 TTFRGNLSLLPHCSSCCD 22 (530)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~ 22 (530)
+||-|.-..+--|++-.+
T Consensus 1354 aTi~v~R~~~Dlct~~~D 1371 (1516)
T KOG1832|consen 1354 ATIPVDRCLLDLCTEPTD 1371 (1516)
T ss_pred eeeecccchhhhhcCCcc
Confidence 444444444555555443
No 33
>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=37.86 E-value=17 Score=33.28 Aligned_cols=21 Identities=29% Similarity=0.219 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009620 293 TALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 293 Ll~iL~iHElGH~laAr~~Gv 313 (530)
....+++||+||.+=.+.-.-
T Consensus 95 ~~~~~~~HElGH~LGl~H~~~ 115 (167)
T cd00203 95 EGAQTIAHELGHALGFYHDHD 115 (167)
T ss_pred cchhhHHHHHHHHhCCCccCc
Confidence 345678999999986654443
No 34
>PF13688 Reprolysin_5: Metallo-peptidase family M12; PDB: 2FV5_B 3EWJ_A 3KME_A 3L0T_B 1BKC_E 3G42_D 2I47_D 2FV9_B 3LEA_A 1ZXC_B ....
Probab=37.55 E-value=18 Score=34.27 Aligned_cols=21 Identities=33% Similarity=0.414 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 009620 294 ALVIGVHELGHILAAKSTGVE 314 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gvk 314 (530)
-.++++||+||-+=|..=+..
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 347889999999988875554
No 35
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=36.84 E-value=18 Score=31.74 Aligned_cols=13 Identities=38% Similarity=0.434 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHH
Q 009620 296 VIGVHELGHILAA 308 (530)
Q Consensus 296 iL~iHElGH~laA 308 (530)
..++||+||-+=+
T Consensus 109 ~~~~HEiGH~lGl 121 (124)
T PF13582_consen 109 DTFAHEIGHNLGL 121 (124)
T ss_dssp THHHHHHHHHTT-
T ss_pred eEeeehhhHhcCC
Confidence 6789999997643
No 36
>PF14891 Peptidase_M91: Effector protein
Probab=36.46 E-value=23 Score=33.88 Aligned_cols=16 Identities=31% Similarity=0.299 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAAKS 310 (530)
Q Consensus 295 ~iL~iHElGH~laAr~ 310 (530)
++++.|||+|++-...
T Consensus 104 ~v~L~HEL~HA~~~~~ 119 (174)
T PF14891_consen 104 FVVLYHELIHAYDYMN 119 (174)
T ss_pred HHHHHHHHHHHHHHHC
Confidence 5789999999987654
No 37
>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=35.99 E-value=26 Score=35.43 Aligned_cols=28 Identities=32% Similarity=0.330 Sum_probs=19.7
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHcCCc
Q 009620 284 TNGLPGALVTALVIGVHELGHILAAKSTGVE 314 (530)
Q Consensus 284 ~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk 314 (530)
+.|+|-. ++.++++||++|+|. |..|.+
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 4456643 446899999999998 555644
No 38
>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=33.54 E-value=25 Score=33.57 Aligned_cols=21 Identities=33% Similarity=0.286 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHcCCc
Q 009620 294 ALVIGVHELGHILAAKSTGVE 314 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gvk 314 (530)
-.-.++||+||-+=|..-+-.
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 345689999999998877663
No 39
>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=32.76 E-value=27 Score=32.91 Aligned_cols=10 Identities=80% Similarity=1.291 Sum_probs=8.8
Q ss_pred HHHHHHHHHH
Q 009620 297 IGVHELGHIL 306 (530)
Q Consensus 297 L~iHElGH~l 306 (530)
+.+||+||.+
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 40
>PRK03001 M48 family peptidase; Provisional
Probab=31.33 E-value=30 Score=35.56 Aligned_cols=12 Identities=33% Similarity=0.426 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
.++++||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (283)
T PRK03001 125 RGVMAHELAHVK 136 (283)
T ss_pred HHHHHHHHHHHh
Confidence 468999999974
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=31.01 E-value=27 Score=33.86 Aligned_cols=16 Identities=31% Similarity=0.434 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAAKS 310 (530)
Q Consensus 295 ~iL~iHElGH~laAr~ 310 (530)
...++||+||++=...
T Consensus 93 ~~~i~HElgHaLG~~H 108 (198)
T cd04327 93 SRVVLHEFGHALGFIH 108 (198)
T ss_pred HHHHHHHHHHHhcCcc
Confidence 3578899999875443
No 42
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=30.94 E-value=29 Score=32.10 Aligned_cols=19 Identities=26% Similarity=0.305 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHcCCccc
Q 009620 298 GVHELGHILAAKSTGVELG 316 (530)
Q Consensus 298 ~iHElGH~laAr~~Gvk~s 316 (530)
+.||++|.|.-|.||.-..
T Consensus 83 L~HEL~H~WQ~RsYG~i~P 101 (141)
T PHA02456 83 LAHELNHAWQFRTYGLVQP 101 (141)
T ss_pred HHHHHHHHHhhhccceeee
Confidence 5799999999999997553
No 43
>PRK03982 heat shock protein HtpX; Provisional
Probab=30.76 E-value=31 Score=35.53 Aligned_cols=12 Identities=42% Similarity=0.362 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
.++++||+||.-
T Consensus 126 ~AVlAHElgHi~ 137 (288)
T PRK03982 126 EGVIAHELTHIK 137 (288)
T ss_pred HHHHHHHHHHHH
Confidence 468999999974
No 44
>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=30.36 E-value=34 Score=32.60 Aligned_cols=20 Identities=35% Similarity=0.350 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 009620 294 ALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gv 313 (530)
.+.+++||+||-+=+..-+.
T Consensus 131 ~a~~~AHElGH~lG~~HD~~ 150 (194)
T cd04269 131 FAVTMAHELGHNLGMEHDDG 150 (194)
T ss_pred HHHHHHHHHHhhcCCCcCCC
Confidence 35788999999987664443
No 45
>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=30.17 E-value=32 Score=34.72 Aligned_cols=17 Identities=29% Similarity=0.536 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 009620 293 TALVIGVHELGHILAAK 309 (530)
Q Consensus 293 Ll~iL~iHElGH~laAr 309 (530)
.+...++||+||-+=+.
T Consensus 166 ~~a~t~AHElGHnlGm~ 182 (244)
T cd04270 166 ESDLVTAHELGHNFGSP 182 (244)
T ss_pred HHHHHHHHHHHHhcCCC
Confidence 45678999999987665
No 46
>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=30.12 E-value=4.7e+02 Score=25.86 Aligned_cols=82 Identities=22% Similarity=0.353 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHhhcCCCCCChHHHHHHHhh-hHHHHHHHH-HHHHHHHHHHHh---------h---hh-------hHHH
Q 009620 416 IWAWAGLLINAINSIPAGELDGGRIAFALWG-RKASTRLTG-VSIVLLGLSSLF---------S---DV-------TFYW 474 (530)
Q Consensus 416 ~agwinLvLtafNLLPigpLDGGRIl~Allg-rr~a~~i~~-~~~~lLGl~~l~---------~---~~-------~l~W 474 (530)
+++-+..+.-.||.-+++| +-+++-.+. .....+++. +.++++|+.++. . +. ..+|
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 4455777888899999999 777777643 322333332 222223322211 0 11 1233
Q ss_pred HHHHHHHHhCCCCCCCcCCCCCChhHHH
Q 009620 475 VVLVFFLQRGPIAPLSEEITDPDDKYIA 502 (530)
Q Consensus 475 ~ililfl~rgp~~P~~nevt~~~~~r~~ 502 (530)
++ +|..-+|..|....+.+++..-..
T Consensus 110 ~i--vF~~lnP~fp~~~~~~~l~~nTii 135 (173)
T PF11085_consen 110 AI--VFFVLNPIFPMIKPVTELDWNTII 135 (173)
T ss_pred HH--HHHHhcccccCChhhhhCchhHHH
Confidence 32 334457888888888888865543
No 47
>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=29.75 E-value=38 Score=31.08 Aligned_cols=19 Identities=21% Similarity=0.123 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHc
Q 009620 293 TALVIGVHELGHILAAKST 311 (530)
Q Consensus 293 Ll~iL~iHElGH~laAr~~ 311 (530)
.+.-.++|||.|+++-...
T Consensus 59 ~~~~tL~HEm~H~~~~~~~ 77 (157)
T PF10263_consen 59 ELIDTLLHEMAHAAAYVFG 77 (157)
T ss_pred HHHHHHHHHHHHHHhhhcc
Confidence 4456789999999996663
No 48
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=29.14 E-value=30 Score=34.81 Aligned_cols=15 Identities=40% Similarity=0.485 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHc
Q 009620 297 IGVHELGHILAAKST 311 (530)
Q Consensus 297 L~iHElGH~laAr~~ 311 (530)
.++||+||++.=+.-
T Consensus 75 tlAHELGH~llH~~~ 89 (213)
T COG2856 75 TLAHELGHALLHTDL 89 (213)
T ss_pred HHHHHHhHHHhcccc
Confidence 478999999865443
No 49
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=28.97 E-value=34 Score=31.75 Aligned_cols=17 Identities=24% Similarity=-0.021 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 009620 294 ALVIGVHELGHILAAKS 310 (530)
Q Consensus 294 l~iL~iHElGH~laAr~ 310 (530)
+.-++.|||+|+++-..
T Consensus 59 l~~~l~HEm~H~~~~~~ 75 (146)
T smart00731 59 LRETLLHELCHAALYLF 75 (146)
T ss_pred HHhhHHHHHHHHHHHHh
Confidence 34578999999999875
No 50
>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=28.80 E-value=24 Score=36.43 Aligned_cols=14 Identities=36% Similarity=0.596 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAA 308 (530)
Q Consensus 295 ~iL~iHElGH~laA 308 (530)
.-+++||+||.++-
T Consensus 217 ~~v~vHE~GHsf~~ 230 (264)
T PF09471_consen 217 KQVVVHEFGHSFGG 230 (264)
T ss_dssp HHHHHHHHHHHTT-
T ss_pred cceeeeeccccccc
Confidence 45789999998753
No 51
>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=27.65 E-value=27 Score=33.12 Aligned_cols=20 Identities=40% Similarity=0.531 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHcCC
Q 009620 294 ALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 294 l~iL~iHElGH~laAr~~Gv 313 (530)
.+.+++||+||.+=+..-+.
T Consensus 133 ~~~~~aHElGH~lG~~HD~~ 152 (192)
T cd04267 133 TALTMAHELGHNLGAEHDGG 152 (192)
T ss_pred ehhhhhhhHHhhcCCcCCCC
Confidence 35688999999987766553
No 52
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=27.63 E-value=38 Score=34.04 Aligned_cols=12 Identities=50% Similarity=0.672 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
..++.||+||..
T Consensus 158 ~aVlaHElgHi~ 169 (302)
T COG0501 158 EAVLAHELGHIK 169 (302)
T ss_pred HHHHHHHHHHHh
Confidence 367899999963
No 53
>PRK04897 heat shock protein HtpX; Provisional
Probab=26.69 E-value=40 Score=35.09 Aligned_cols=12 Identities=33% Similarity=0.274 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
.++++||+||.-
T Consensus 138 ~aVlAHElgHi~ 149 (298)
T PRK04897 138 EGVIGHEISHIR 149 (298)
T ss_pred HHHHHHHHHHHh
Confidence 467899999963
No 54
>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=26.58 E-value=41 Score=31.90 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 009620 297 IGVHELGHILAA 308 (530)
Q Consensus 297 L~iHElGH~laA 308 (530)
++.|||+|.++-
T Consensus 138 VvaHEltHGVte 149 (150)
T PF01447_consen 138 VVAHELTHGVTE 149 (150)
T ss_dssp HHHHHHHHHHHH
T ss_pred eeeecccccccc
Confidence 689999999863
No 55
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=26.31 E-value=34 Score=33.62 Aligned_cols=17 Identities=29% Similarity=0.280 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHcCC
Q 009620 297 IGVHELGHILAAKSTGV 313 (530)
Q Consensus 297 L~iHElGH~laAr~~Gv 313 (530)
.++||+||.+=|+.-+-
T Consensus 140 ~~aHEiGH~lGl~H~~~ 156 (206)
T PF13583_consen 140 TFAHEIGHNLGLRHDFD 156 (206)
T ss_pred HHHHHHHHHhcCCCCcc
Confidence 48899999998876665
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=26.13 E-value=34 Score=34.50 Aligned_cols=26 Identities=19% Similarity=0.190 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCc
Q 009620 289 GALVTALVIGVHELGHILAAKSTGVE 314 (530)
Q Consensus 289 ~aL~Ll~iL~iHElGH~laAr~~Gvk 314 (530)
+..-+..-++.||+||.+=-|.-...
T Consensus 128 ~~~~~~~hvi~HEiGH~IGfRHTD~~ 153 (211)
T PF12388_consen 128 YSVNVIEHVITHEIGHCIGFRHTDYF 153 (211)
T ss_pred CchhHHHHHHHHHhhhhccccccCcC
Confidence 34445667899999999877765544
No 57
>PRK12462 phosphoserine aminotransferase; Provisional
Probab=25.87 E-value=1e+02 Score=33.30 Aligned_cols=63 Identities=13% Similarity=0.201 Sum_probs=43.2
Q ss_pred cCCCCHhHHHHhhccccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 009620 152 YIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 222 (530)
Q Consensus 152 ~~~i~~ed~~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 222 (530)
+..+|+|.++++++++.-|.. -+-+++=.+---.+=.+.|++.+++|+++|+ |.|.+++++-.
T Consensus 12 Pa~lp~~Vl~~~~~~~~~~~~--------~g~si~eisHRs~~F~~i~~~~~~~Lr~Ll~~P~~y~Vlfl~Gg 76 (364)
T PRK12462 12 PGALPDTVLEQVRQAVVELPE--------TGLSVLGMSHRSSWFSSLLAQAEADLRDLLGIPDEYGVVFLQGG 76 (364)
T ss_pred CcCCCHHHHHHHHHHHhcccc--------cCccccccccccHHHHHHHHHHHHHHHHHhCCCCCCeEEEEecc
Confidence 458999999999985543321 1123333333234568899999999999998 68988766654
No 58
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=25.62 E-value=31 Score=32.31 Aligned_cols=14 Identities=29% Similarity=0.558 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHH
Q 009620 293 TALVIGVHELGHIL 306 (530)
Q Consensus 293 Ll~iL~iHElGH~l 306 (530)
.+..+++||+||.+
T Consensus 108 ~vthvliHEIgHhF 121 (136)
T COG3824 108 QVTHVLIHEIGHHF 121 (136)
T ss_pred Hhhhhhhhhhhhhc
Confidence 56688999999985
No 59
>PRK01345 heat shock protein HtpX; Provisional
Probab=25.10 E-value=44 Score=35.21 Aligned_cols=12 Identities=33% Similarity=0.454 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 009620 295 LVIGVHELGHIL 306 (530)
Q Consensus 295 ~iL~iHElGH~l 306 (530)
..++.||+||.-
T Consensus 125 ~aVlAHElgHi~ 136 (317)
T PRK01345 125 AGVMAHELAHVK 136 (317)
T ss_pred HHHHHHHHHHHH
Confidence 468999999975
No 60
>PRK03072 heat shock protein HtpX; Provisional
Probab=24.88 E-value=45 Score=34.56 Aligned_cols=11 Identities=36% Similarity=0.395 Sum_probs=9.3
Q ss_pred HHHHHHHHHHH
Q 009620 295 LVIGVHELGHI 305 (530)
Q Consensus 295 ~iL~iHElGH~ 305 (530)
..+++||+||.
T Consensus 128 ~aVlAHElgHi 138 (288)
T PRK03072 128 RGVLGHELSHV 138 (288)
T ss_pred HHHHHHHHHHH
Confidence 46789999995
No 61
>COG5309 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]
Probab=24.84 E-value=1.1e+02 Score=32.37 Aligned_cols=61 Identities=16% Similarity=0.312 Sum_probs=43.1
Q ss_pred HhHHHHhhcccccc-ceeeeccccccCceEEEEeccCC--chHHHHHHHHHHHHhhhCCceEEEEEec
Q 009620 157 KETIDILKDQVFGF-DTFFVTNQEPYEGGVLFKGNLRG--QAAKTYEKISTRMKNKFGDQYKLFLLVN 221 (530)
Q Consensus 157 ~ed~~~ik~~~Fg~-dtF~~t~~~~~~~gvi~rGnLR~--~~e~~y~~l~~~l~~~fGd~y~lfl~~~ 221 (530)
.|.+++||. .||= .+||+||+-.--.|--+-++.-. +..+.++++..+|++. | |.+|+++-
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 688999999 6666 99999998755555555444433 3466778888888874 7 66665553
No 62
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=24.81 E-value=43 Score=28.44 Aligned_cols=12 Identities=33% Similarity=0.650 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHH
Q 009620 296 VIGVHELGHILA 307 (530)
Q Consensus 296 iL~iHElGH~la 307 (530)
.++.||++|.+.
T Consensus 63 ~llaHEl~Hv~Q 74 (79)
T PF13699_consen 63 ALLAHELAHVVQ 74 (79)
T ss_pred hhHhHHHHHHHh
Confidence 578999999874
No 63
>COG0830 UreF Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
Probab=24.62 E-value=80 Score=32.25 Aligned_cols=32 Identities=31% Similarity=0.348 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHhhcCCCCCChHHHHHHHhh
Q 009620 415 VIWAWAGLLINAINSIPAGELDGGRIAFALWG 446 (530)
Q Consensus 415 ~~agwinLvLtafNLLPigpLDGGRIl~Allg 446 (530)
.++.-.|++.++.=|+|.||+||=||+..+-.
T Consensus 157 lya~~~~lv~aavRlipLgQ~~gq~il~~l~~ 188 (229)
T COG0830 157 LYAWASNLVSAAVRLIPLGQLDGQKILAQLEP 188 (229)
T ss_pred HHHHHHHHHHHHHHhcccCcHHHHHHHHHhhH
Confidence 34445799999999999999999999998844
No 64
>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=24.47 E-value=34 Score=37.74 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHcC
Q 009620 296 VIGVHELGHILAAKSTG 312 (530)
Q Consensus 296 iL~iHElGH~laAr~~G 312 (530)
.+..||.||++++..++
T Consensus 313 ~~A~hEaGhAlv~~~l~ 329 (495)
T TIGR01241 313 LVAYHEAGHALVGLLLK 329 (495)
T ss_pred HHHHHHHhHHHHHHhcC
Confidence 57899999999998874
No 65
>KOG3320 consensus 40S ribosomal protein S7 [Translation, ribosomal structure and biogenesis]
Probab=24.34 E-value=1e+02 Score=30.60 Aligned_cols=27 Identities=15% Similarity=0.321 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhhCCceEEEEEecC
Q 009620 196 AKTYEKISTRMKNKFGDQYKLFLLVNP 222 (530)
Q Consensus 196 e~~y~~l~~~l~~~fGd~y~lfl~~~~ 222 (530)
.+.|.+|...||.+|+|+|.+|+.+..
T Consensus 74 qki~~~LvreleKKF~gk~Vifia~Rr 100 (192)
T KOG3320|consen 74 QKIQVRLVRELEKKFSGKHVIFIAQRR 100 (192)
T ss_pred HHHHHHHHHHHHHhcCCceEEEEEeee
Confidence 455556666999999999999876654
No 66
>PRK02391 heat shock protein HtpX; Provisional
Probab=24.11 E-value=48 Score=34.64 Aligned_cols=11 Identities=36% Similarity=0.582 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 009620 295 LVIGVHELGHI 305 (530)
Q Consensus 295 ~iL~iHElGH~ 305 (530)
..++.||+||.
T Consensus 134 ~aVlaHElgHi 144 (296)
T PRK02391 134 EAVLAHELSHV 144 (296)
T ss_pred HHHHHHHHHHH
Confidence 36789999995
No 67
>PLN02452 phosphoserine transaminase
Probab=23.86 E-value=1.3e+02 Score=32.37 Aligned_cols=63 Identities=10% Similarity=0.228 Sum_probs=44.8
Q ss_pred cCCCCHhHHHHhhccccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhC--CceEEEEEecC
Q 009620 152 YIRIPKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFG--DQYKLFLLVNP 222 (530)
Q Consensus 152 ~~~i~~ed~~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fG--d~y~lfl~~~~ 222 (530)
+..+|++.+++++.+++-|. .-+-+++-.+---.+=.++++.++++|+++++ +.|.+.+++-.
T Consensus 15 P~~lp~~Vl~~~~~~~~~~~--------~~g~s~~~~sHRs~~f~~i~~~~~~~L~~l~~~p~~y~v~~l~Gs 79 (365)
T PLN02452 15 PATLPANVLAKAQAELYNWE--------GSGMSVMEMSHRGKEFLSIIQKAEADLRELLDIPDNYEVLFLQGG 79 (365)
T ss_pred CCCCCHHHHHHHHHHHhccc--------ccCccccccCCCchHHHHHHHHHHHHHHHHhCCCCCceEEEEeCc
Confidence 45899999999998655443 22334444444444567999999999999997 67988766544
No 68
>PRK05457 heat shock protein HtpX; Provisional
Probab=23.80 E-value=49 Score=34.31 Aligned_cols=11 Identities=36% Similarity=0.573 Sum_probs=9.3
Q ss_pred HHHHHHHHHHH
Q 009620 295 LVIGVHELGHI 305 (530)
Q Consensus 295 ~iL~iHElGH~ 305 (530)
..++.||+||.
T Consensus 135 ~aVlAHElgHi 145 (284)
T PRK05457 135 EAVLAHEISHI 145 (284)
T ss_pred HHHHHHHHHHH
Confidence 46789999996
No 69
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=23.78 E-value=74 Score=39.87 Aligned_cols=18 Identities=11% Similarity=0.159 Sum_probs=8.2
Q ss_pred CCCCCCCCccccCCCCHh
Q 009620 141 SPLPGVKQLDEYIRIPKE 158 (530)
Q Consensus 141 ~~~~~~~~~~~~~~i~~e 158 (530)
+|.|-.-..+++.+=+++
T Consensus 1814 epV~~afe~adpqp~dpd 1831 (3015)
T KOG0943|consen 1814 EPVPAAFEEADPQPNDPD 1831 (3015)
T ss_pred CCcccccCcCCCCCCCCC
Confidence 455544444444444443
No 70
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=22.55 E-value=51 Score=33.57 Aligned_cols=12 Identities=33% Similarity=0.822 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHH
Q 009620 296 VIGVHELGHILA 307 (530)
Q Consensus 296 iL~iHElGH~la 307 (530)
.+.+||.||++.
T Consensus 91 aVAAHEvGHAiQ 102 (222)
T PF04298_consen 91 AVAAHEVGHAIQ 102 (222)
T ss_pred HHHHHHHhHHHh
Confidence 578999999875
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=22.09 E-value=62 Score=30.99 Aligned_cols=21 Identities=43% Similarity=0.494 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHcCC
Q 009620 293 TALVIGVHELGHILAAKSTGV 313 (530)
Q Consensus 293 Ll~iL~iHElGH~laAr~~Gv 313 (530)
.++.+++||+||.+=+..-+.
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 445778999999877666555
No 72
>PRK01265 heat shock protein HtpX; Provisional
Probab=22.09 E-value=55 Score=34.87 Aligned_cols=11 Identities=45% Similarity=0.827 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 009620 295 LVIGVHELGHI 305 (530)
Q Consensus 295 ~iL~iHElGH~ 305 (530)
..++.||+||+
T Consensus 141 ~aVlAHElgHi 151 (324)
T PRK01265 141 KAVAGHELGHL 151 (324)
T ss_pred HHHHHHHHHHH
Confidence 36789999996
No 73
>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=22.02 E-value=1.1e+02 Score=25.28 Aligned_cols=35 Identities=23% Similarity=0.314 Sum_probs=25.0
Q ss_pred cccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCc
Q 009620 168 FGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQ 213 (530)
Q Consensus 168 Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~ 213 (530)
.-+||||+++.. |+ ...++..+++++.|++.+|+-
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 457999997531 11 244567788999999999863
No 74
>PRK02870 heat shock protein HtpX; Provisional
Probab=21.76 E-value=56 Score=34.95 Aligned_cols=11 Identities=45% Similarity=0.673 Sum_probs=9.5
Q ss_pred HHHHHHHHHHH
Q 009620 295 LVIGVHELGHI 305 (530)
Q Consensus 295 ~iL~iHElGH~ 305 (530)
..++.||+||.
T Consensus 174 ~aVlAHELgHi 184 (336)
T PRK02870 174 QAVMAHELSHI 184 (336)
T ss_pred HHHHHHHHHHH
Confidence 46789999998
No 75
>PRK04860 hypothetical protein; Provisional
Probab=21.74 E-value=85 Score=30.25 Aligned_cols=21 Identities=29% Similarity=0.284 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHcC
Q 009620 292 VTALVIGVHELGHILAAKSTG 312 (530)
Q Consensus 292 ~Ll~iL~iHElGH~laAr~~G 312 (530)
..+.-++.||++|+++=..+|
T Consensus 61 ~~l~~~v~HEl~H~~~~~~~g 81 (160)
T PRK04860 61 AFIDEVVPHELAHLLVYQLFG 81 (160)
T ss_pred HHHHhHHHHHHHHHHHHHHcC
Confidence 345567899999999999888
No 76
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=21.45 E-value=52 Score=36.48 Aligned_cols=14 Identities=36% Similarity=0.513 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHH
Q 009620 295 LVIGVHELGHILAA 308 (530)
Q Consensus 295 ~iL~iHElGH~laA 308 (530)
.++++||+||+---
T Consensus 281 ~AVl~HELGHW~~~ 294 (428)
T KOG2719|consen 281 VAVLAHELGHWKLN 294 (428)
T ss_pred HHHHHHHhhHHHHh
Confidence 57899999998543
No 77
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=21.27 E-value=1.5e+02 Score=34.31 Aligned_cols=11 Identities=27% Similarity=0.438 Sum_probs=6.2
Q ss_pred CCHhHHHHhhc
Q 009620 155 IPKETIDILKD 165 (530)
Q Consensus 155 i~~ed~~~ik~ 165 (530)
.+++.|++++.
T Consensus 313 cd~~eL~rlR~ 323 (600)
T TIGR01651 313 CDEEELDRLRA 323 (600)
T ss_pred cCHHHHHHHHH
Confidence 45555666555
No 78
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=20.88 E-value=1.4e+02 Score=28.96 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=22.8
Q ss_pred chHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCCccc
Q 009620 279 NLNLLTNGLPGALVTALVIGVHELGHILAAKSTGVELG 316 (530)
Q Consensus 279 ~~~~l~~glp~aL~Ll~iL~iHElGH~laAr~~Gvk~s 316 (530)
||.++.. ....++.-++-||++|+.+=..+| +..
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 5554443 233455567899999999988877 443
No 79
>COG5495 Uncharacterized conserved protein [Function unknown]
Probab=20.72 E-value=64 Score=33.60 Aligned_cols=37 Identities=24% Similarity=0.379 Sum_probs=25.0
Q ss_pred CHhHHHHhhccccccceeeeccccccCceEEEEeccCCchHHHHHHHHHHHHhhhCCce
Q 009620 156 PKETIDILKDQVFGFDTFFVTNQEPYEGGVLFKGNLRGQAAKTYEKISTRMKNKFGDQY 214 (530)
Q Consensus 156 ~~ed~~~ik~~~Fg~dtF~~t~~~~~~~gvi~rGnLR~~~e~~y~~l~~~l~~~fGd~y 214 (530)
.+||++++|++||++ |+.+ ++.-.|-++|....|.+|
T Consensus 129 l~edl~rl~d~~~~i-----~eaD-----------------~~g~ai~q~la~emgg~~ 165 (289)
T COG5495 129 LDEDLSRLKDTIFGI-----TEAD-----------------DVGYAIVQSLALEMGGEP 165 (289)
T ss_pred CHHHHHhCcccEEEe-----eccc-----------------ccccHHHHHHHHHhCCCc
Confidence 579999999988765 3333 333346666777677666
Done!