Query psy5110
Match_columns 284
No_of_seqs 167 out of 1886
Neff 8.7
Searched_HMMs 46136
Date Fri Aug 16 17:31:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5110.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5110hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1046|consensus 100.0 2.3E-53 4.9E-58 423.4 16.5 259 8-282 187-480 (882)
2 TIGR02412 pepN_strep_liv amino 100.0 3.6E-51 7.8E-56 407.3 19.7 258 8-282 152-443 (831)
3 TIGR02414 pepN_proteo aminopep 100.0 1.4E-46 3E-51 371.6 17.0 253 12-281 146-435 (863)
4 COG0308 PepN Aminopeptidase N 100.0 1.6E-46 3.4E-51 374.2 16.7 260 8-281 168-463 (859)
5 TIGR02411 leuko_A4_hydro leuko 100.0 2.2E-46 4.9E-51 360.2 15.3 252 8-282 157-444 (601)
6 PRK14015 pepN aminopeptidase N 100.0 8.2E-46 1.8E-50 366.9 17.5 253 11-281 157-448 (875)
7 PF01433 Peptidase_M1: Peptida 100.0 6.5E-39 1.4E-43 296.0 16.3 210 7-222 157-390 (390)
8 KOG1047|consensus 100.0 1.9E-38 4.2E-43 288.7 12.1 233 21-271 181-425 (613)
9 KOG1932|consensus 99.8 2.6E-18 5.5E-23 167.8 15.3 257 8-273 208-506 (1180)
10 PF13485 Peptidase_MA_2: Pepti 99.4 4.5E-13 9.7E-18 103.8 5.7 104 126-244 23-127 (128)
11 COG3975 Predicted protease wit 98.3 7.2E-05 1.6E-09 69.8 17.1 120 48-171 166-301 (558)
12 PF05299 Peptidase_M61: M61 gl 97.2 0.00035 7.5E-09 53.7 3.1 44 128-171 4-58 (122)
13 PF10460 Peptidase_M30: Peptid 96.8 0.0016 3.4E-08 59.2 4.8 110 125-244 136-251 (366)
14 PF07607 DUF1570: Protein of u 96.8 0.00084 1.8E-08 52.1 2.2 38 130-168 3-43 (128)
15 PF10026 DUF2268: Predicted Zn 95.8 0.029 6.4E-07 46.9 6.5 50 123-172 60-113 (195)
16 PF10023 DUF2265: Predicted am 94.9 0.048 1E-06 49.1 5.2 41 125-171 162-202 (337)
17 COG4324 Predicted aminopeptida 93.9 0.072 1.6E-06 46.0 3.9 42 124-171 193-234 (376)
18 PF04450 BSP: Peptidase of pla 93.4 0.46 1E-05 40.0 7.9 40 125-167 93-132 (205)
19 PF11916 Vac14_Fig4_bd: Vacuol 85.6 0.19 4.2E-06 41.2 -0.6 64 219-282 6-91 (182)
20 PF12315 DUF3633: Protein of u 83.7 1.7 3.8E-05 36.4 4.2 42 128-171 93-134 (212)
21 PF12725 DUF3810: Protein of u 80.4 3 6.4E-05 37.7 4.8 32 128-171 196-227 (318)
22 PF10263 SprT-like: SprT-like 78.7 4.5 9.7E-05 32.1 4.9 19 125-143 57-75 (157)
23 PRK04860 hypothetical protein; 78.1 9.7 0.00021 30.7 6.6 17 124-140 59-75 (160)
24 PF13574 Reprolysin_2: Metallo 71.1 2.8 6.1E-05 34.2 1.9 13 128-140 111-123 (173)
25 smart00731 SprT SprT homologue 69.5 3.6 7.8E-05 32.6 2.2 17 126-142 57-73 (146)
26 COG2719 SpoVR Uncharacterized 68.5 15 0.00033 34.3 6.2 97 131-245 252-365 (495)
27 PRK04351 hypothetical protein; 66.7 13 0.00029 29.6 4.9 15 125-139 58-72 (149)
28 PRK05457 heat shock protein Ht 66.4 13 0.00028 32.9 5.3 20 124-143 130-149 (284)
29 PHA02456 zinc metallopeptidase 64.4 4.8 0.0001 30.2 1.8 14 127-140 78-91 (141)
30 PRK04897 heat shock protein Ht 63.8 16 0.00034 32.7 5.3 20 124-143 133-152 (298)
31 PRK03072 heat shock protein Ht 63.2 18 0.00039 32.1 5.6 19 124-142 123-141 (288)
32 PF06114 DUF955: Domain of unk 62.3 7.4 0.00016 28.7 2.6 20 127-146 41-60 (122)
33 PRK03001 M48 family peptidase; 62.2 20 0.00043 31.7 5.7 18 124-141 120-137 (283)
34 PF08325 WLM: WLM domain; Int 61.6 47 0.001 27.5 7.4 21 123-143 77-97 (186)
35 KOG2661|consensus 61.4 5.6 0.00012 35.8 2.0 22 123-144 270-291 (424)
36 PRK03982 heat shock protein Ht 61.1 21 0.00045 31.7 5.6 20 124-143 121-140 (288)
37 KOG0212|consensus 61.0 3.4 7.4E-05 39.7 0.6 67 216-282 429-516 (675)
38 PRK01345 heat shock protein Ht 60.4 21 0.00045 32.2 5.5 20 124-143 120-139 (317)
39 PF15641 Tox-MPTase5: Metallop 60.0 17 0.00037 26.0 3.8 25 123-147 59-84 (109)
40 cd04279 ZnMc_MMP_like_1 Zinc-d 59.9 35 0.00076 26.9 6.3 34 52-85 2-38 (156)
41 PF01863 DUF45: Protein of unk 59.5 27 0.00059 28.8 5.8 17 126-142 162-178 (205)
42 PRK02391 heat shock protein Ht 57.9 26 0.00057 31.2 5.7 20 124-143 129-148 (296)
43 PF13688 Reprolysin_5: Metallo 57.5 6.9 0.00015 32.3 1.8 18 126-144 140-157 (196)
44 PF01435 Peptidase_M48: Peptid 56.9 7.9 0.00017 32.4 2.1 23 125-147 86-108 (226)
45 COG0501 HtpX Zn-dependent prot 54.9 8.6 0.00019 33.9 2.1 23 124-146 153-175 (302)
46 COG1451 Predicted metal-depend 53.8 23 0.00051 30.2 4.5 20 124-143 171-190 (223)
47 cd04272 ZnMc_salivary_gland_MP 52.5 32 0.00068 29.1 5.1 13 128-140 145-157 (220)
48 PF13699 DUF4157: Domain of un 51.8 8.4 0.00018 27.1 1.2 12 129-140 62-73 (79)
49 PRK02870 heat shock protein Ht 48.3 13 0.00028 33.9 2.1 16 124-139 169-184 (336)
50 COG3091 SprT Zn-dependent meta 46.7 16 0.00035 29.0 2.2 16 124-139 57-72 (156)
51 PRK11767 SpoVR family protein; 46.4 37 0.00081 32.5 4.9 86 131-233 255-341 (498)
52 PF13582 Reprolysin_3: Metallo 45.5 13 0.00028 28.0 1.5 11 129-139 108-118 (124)
53 PF09768 Peptidase_M76: Peptid 45.3 86 0.0019 25.6 6.3 19 122-140 65-83 (173)
54 PF01447 Peptidase_M4: Thermol 45.2 12 0.00026 29.8 1.4 24 64-87 67-90 (150)
55 COG4783 Putative Zn-dependent 44.9 14 0.00031 34.9 2.0 20 126-145 128-147 (484)
56 PRK01265 heat shock protein Ht 44.7 16 0.00034 33.1 2.1 16 124-139 136-151 (324)
57 cd04269 ZnMc_adamalysin_II_lik 44.6 15 0.00033 30.2 1.9 14 127-140 130-143 (194)
58 COG2856 Predicted Zn peptidase 44.5 39 0.00084 28.6 4.3 43 126-168 70-117 (213)
59 PF01421 Reprolysin: Reprolysi 43.9 41 0.00089 27.7 4.5 14 126-139 129-142 (199)
60 cd04270 ZnMc_TACE_like Zinc-de 42.9 16 0.00034 31.6 1.8 15 128-143 167-181 (244)
61 PF14891 Peptidase_M91: Effect 40.7 19 0.00041 29.3 1.9 15 127-141 102-116 (174)
62 KOG2719|consensus 37.6 78 0.0017 29.8 5.5 15 125-139 277-291 (428)
63 PF04293 SpoVR: SpoVR like pro 36.8 80 0.0017 29.7 5.5 89 131-245 246-352 (426)
64 PF01431 Peptidase_M13: Peptid 35.6 58 0.0013 26.9 4.1 67 94-165 7-76 (206)
65 cd04267 ZnMc_ADAM_like Zinc-de 35.5 18 0.0004 29.6 1.0 16 127-143 132-147 (192)
66 PF00413 Peptidase_M10: Matrix 33.2 30 0.00064 27.0 1.9 13 127-139 104-116 (154)
67 cd04268 ZnMc_MMP_like Zinc-dep 30.2 43 0.00094 26.4 2.4 14 126-139 92-105 (165)
68 KOG3607|consensus 28.5 1.9E+02 0.0042 29.3 7.0 85 53-139 242-334 (716)
69 COG3824 Predicted Zn-dependent 28.3 30 0.00066 26.4 1.0 13 127-139 108-120 (136)
70 PF14521 Aspzincin_M35: Lysine 27.2 41 0.00089 26.6 1.7 13 127-139 95-107 (148)
71 PF02031 Peptidase_M7: Strepto 26.8 46 0.00099 25.8 1.8 15 125-139 74-88 (132)
72 PF02163 Peptidase_M50: Peptid 26.6 50 0.0011 26.9 2.2 23 128-150 7-29 (192)
73 cd04271 ZnMc_ADAM_fungal Zinc- 26.5 25 0.00053 30.1 0.3 13 130-143 147-159 (228)
74 PF08219 TOM13: Outer membrane 25.3 51 0.0011 22.9 1.6 19 129-147 53-73 (77)
75 PF12388 Peptidase_M57: Dual-a 25.0 44 0.00096 28.2 1.6 14 126-139 131-144 (211)
76 PF13583 Reprolysin_4: Metallo 25.0 40 0.00086 28.3 1.3 12 129-140 138-149 (206)
77 PF06262 DUF1025: Possibl zinc 24.4 75 0.0016 23.3 2.5 16 124-139 69-84 (97)
78 PF04228 Zn_peptidase: Putativ 23.9 60 0.0013 29.0 2.3 12 128-139 170-181 (292)
79 PF05572 Peptidase_M43: Pregna 23.7 48 0.001 26.4 1.5 14 129-143 70-83 (154)
80 cd00203 ZnMc Zinc-dependent me 23.1 44 0.00095 26.4 1.2 13 127-139 95-107 (167)
81 PF05569 Peptidase_M56: BlaR1 22.0 64 0.0014 28.5 2.1 16 124-139 192-207 (299)
82 KOG3314|consensus 22.0 1.8E+02 0.0039 23.6 4.4 20 121-140 84-103 (194)
83 PF09836 DUF2063: Uncharacteri 21.3 51 0.0011 23.6 1.1 28 228-265 54-81 (94)
84 COG4784 Putative Zn-dependent 20.3 2.1E+02 0.0046 26.2 4.9 50 90-140 83-136 (479)
No 1
>KOG1046|consensus
Probab=100.00 E-value=2.3e-53 Score=423.35 Aligned_cols=259 Identities=23% Similarity=0.355 Sum_probs=234.7
Q ss_pred CCCceeeeCCCcc--------------CCCceeEEEecccccCceeEEEeecCCCCCcceeEEEecCCccchHhHHHHHH
Q psy5110 8 KPFRIVLCNGEPI--------------QGNEKVLQSVQIFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTYYRFKWEKV 73 (284)
Q Consensus 8 ~~~~~v~~~g~~~--------------~~~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~~~~~~~~~ 73 (284)
+.+++.|||+..+ +.+++|++|++||.||+|+..+. ..+.+|++|+|++|+......++++.+
T Consensus 187 p~~~~aLSNm~v~~~~~~~~~~~~~~F~~Tp~MstYLvAf~V~~f~~~e~---~~~~~v~vrv~a~p~~~~~~~~al~~~ 263 (882)
T KOG1046|consen 187 PKGYTALSNMPVIKEEPVDDGWKTTTFEKTPKMSTYLVAFAVGDFVYVET---ITKSGVPVRVYARPEKINQGQFALEVA 263 (882)
T ss_pred cCCceEeecCcccccccccCCeeEEEEEecCCCchhhheeeeecccccee---ecCCCceEEEEeChHHhhHHHHHHHHH
Confidence 4588999997544 35689999999999999999885 234458999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCcccccccccc---------CCCCcHHHHHHHHHHHHHHHHHhhhccc
Q psy5110 74 ESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLAD---------SNRTTAAGLLENFGLVAHELAHQWFGNY 144 (284)
Q Consensus 74 ~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~---------~~~~~~~~~~~~~~~iaHEiAHqWfG~~ 144 (284)
.+++++++++|+ .+||++|+|+|++|++.. |+||||||++ +..++...+..+..+||||+|||||||+
T Consensus 264 ~~~L~~~e~~f~--i~yPLpK~D~iavPdf~~-GAMENwGLvtyre~~lL~~~~~ss~~~k~~va~vIaHElAHQWFGNL 340 (882)
T KOG1046|consen 264 TKVLEFYEDYFG--IPYPLPKLDLVAVPDFSA-GAMENWGLVTYRETALLYDPQTSSSSNKQRVAEVIAHELAHQWFGNL 340 (882)
T ss_pred HHHHHHHHHHhC--CCCCCccccEEecCCccc-cchhcCcceeeeehhhccCCCcCcHHHHHHHHHHHHHHHHHHHhcCc
Confidence 999999999998 589999999999999975 9999999874 3445667788899999999999999999
Q ss_pred cCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccHH
Q psy5110 145 ATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKGQ 223 (284)
Q Consensus 145 Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG~ 223 (284)
||++||+|+|||||||+|++...++..+|++...+++..+.+..++..|+.. ++|+...+.++.++...|+.++|.||+
T Consensus 341 VTm~wW~dLWLnEGfAt~~~~~~v~~~~p~~~~~~~~~~~~l~~~l~~D~l~~shpi~~~v~~~~ei~e~fd~i~Y~KGa 420 (882)
T KOG1046|consen 341 VTMKWWNDLWLNEGFATYVEYLAVDHLFPEWDIWEQFLLENLERVLSLDALASSHPISVPVESPSEIDEIFDEISYQKGA 420 (882)
T ss_pred ccHhhhhhhhhcccHHHHHHHHhhccCCcchhhHHHHHHHHHHHHhhhhcccccCCeeeecCCcchhhhhhhhhhhhHHH
Confidence 9999999999999999999999999999999988888888898999999998 999999888888888899999999999
Q ss_pred HHHHHHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccccc-----------cccccccCCCCCCCC
Q psy5110 224 SPAHVEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVEVK-----------IPIRDVPQDPCVNPP 282 (284)
Q Consensus 224 ~vl~mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~-----------~~~~~~~~~w~~~~~ 282 (284)
++||||+..+|++.|+++|+ .|+.+|+|+|++.+ ..++++|+.|++|+-
T Consensus 421 svlRML~~~lGe~~F~~gi~----------~yL~~~~y~na~~~DLw~~l~~~~~~~v~~~M~~Wt~Q~G 480 (882)
T KOG1046|consen 421 SVLRMLESLLGEEVFRKGLR----------SYLKKHQYSNAKTEDLWDALEEGSGLDVSELMDTWTKQMG 480 (882)
T ss_pred HHHHHHHHHHCHHHHHHHHH----------HHHHHhccCCCCchhHHHHHhccCCCCHHHHHhhhhcCCC
Confidence 99999999999999999999 99999999998654 467789999999973
No 2
>TIGR02412 pepN_strep_liv aminopeptidase N, Streptomyces lividans type. This family is a subset of the members of the zinc metallopeptidase family M1 (pfam01433), with a single member characterized in Streptomyces lividans 66 and designated aminopeptidase N. The spectrum of activity may differ somewhat from the aminopeptidase N clade of E. coli and most other Proteobacteria, well separated phylogenetically within the M1 family. The M1 family also includes leukotriene A-4 hydrolase/aminopeptidase (with a bifunctional active site).
Probab=100.00 E-value=3.6e-51 Score=407.30 Aligned_cols=258 Identities=18% Similarity=0.270 Sum_probs=220.8
Q ss_pred CCCceeeeCCCccC-------------CCceeEEEecccccCceeEEEeecCCCCCcceeEEEecCCccch--HhHHHHH
Q psy5110 8 KPFRIVLCNGEPIQ-------------GNEKVLQSVQIFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTY--YRFKWEK 72 (284)
Q Consensus 8 ~~~~~v~~~g~~~~-------------~~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~--~~~~~~~ 72 (284)
..+++|+|||...+ .+++|++|+++|++|+|..... ..+++++++|++|+..+. +.++++.
T Consensus 152 p~~~~v~sNg~~~~~~~~~~~~~~~F~~t~pmstYL~a~~vG~f~~~~~----~~~gvpi~v~~~~~~~~~~~~~~al~~ 227 (831)
T TIGR02412 152 PEDWTVISNSRETDVTPEPADRRWEFPETPKLSTYLTAVAAGPYHSVQD----ESRSYPLGIYARRSLAQYLDADAIFTI 227 (831)
T ss_pred CCCceEECCCccccccccCCCeEEEecCCCCcccceEEEEEeceEEEee----cCCCEEEEEEECcchhhhhhHHHHHHH
Confidence 45899999997532 3457899999999999998874 235789999999997664 4678999
Q ss_pred HHHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccCCC-------CcHHHHHHHHHHHHHHHHHhhhcccc
Q psy5110 73 VESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADSNR-------TTAAGLLENFGLVAHELAHQWFGNYA 145 (284)
Q Consensus 73 ~~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~~~-------~~~~~~~~~~~~iaHEiAHqWfG~~V 145 (284)
+++++++++++|| .||||+|+|+|++|++. .|||||+|+++... .+...+.....+|+||+|||||||+|
T Consensus 228 ~~~~l~~~e~~fg--~pYP~~k~d~V~vP~f~-~GaMEn~Glit~~e~~l~~~~~~~~~~~~~~~viaHElAHqWFGnlV 304 (831)
T TIGR02412 228 TRQGLAFFHRKFG--YPYPFKKYDQIFVPEFN-AGAMENAGCVTFAENFLHRAEATRAEKENRAGVILHEMAHMWFGDLV 304 (831)
T ss_pred HHHHHHHHHHHhC--CCCCcccCCEEEcCCCC-CCcccccceeeechhhccCCcCCHHHHHHHHHHHHHHHHHHHhCCEe
Confidence 9999999999998 58999999999999986 48999999886422 22344556789999999999999999
Q ss_pred CcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccHHH
Q psy5110 146 TPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKGQS 224 (284)
Q Consensus 146 t~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG~~ 224 (284)
|++||+|+|||||||+|++.+++++..|.+..+..|.......++..|+.. ++|+...+.++.++...|+.++|.||++
T Consensus 305 T~~wW~dlWLnEGFAty~e~~~~~~~~~~~~~~~~f~~~~~~~a~~~D~~~~t~Pi~~~~~~~~~~~~~fd~isY~KGa~ 384 (831)
T TIGR02412 305 TMRWWNDLWLNESFAEYMGTLASAEATEYTDAWTTFAAQGKQWAYEADQLPTTHPIVADVADLADALSNFDGITYAKGAS 384 (831)
T ss_pred ccccccchhHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHhcccCCCCCccCCCCHHHHHHhccCccchhHHH
Confidence 999999999999999999999999998877776777666666778888877 9999887777888888899999999999
Q ss_pred HHHHHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccccccccc-----------cccCCCCCCCC
Q psy5110 225 PAHVEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVEVKIPIR-----------DVPQDPCVNPP 282 (284)
Q Consensus 225 vl~mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~~~~~-----------~~~~~w~~~~~ 282 (284)
+||||+..||+++|+++|| +|+++|+|+|++.+|+++ +++++|+.||-
T Consensus 385 vL~mL~~~lGee~F~~glr----------~Yl~~~~~~nat~~Dl~~~l~~~sg~dl~~~~~~W~~~~G 443 (831)
T TIGR02412 385 VLKQLVAWVGEEAFFAGVN----------AYFKRHAFGNATLDDLIDSLAKASGRDLSAWSDAWLETAG 443 (831)
T ss_pred HHHHHHHHHCHHHHHHHHH----------HHHHHcCCCCCCHHHHHHHHHHHhCCCHHHHHHHHHcCCC
Confidence 9999999999999999999 999999999998776554 56899998864
No 3
>TIGR02414 pepN_proteo aminopeptidase N, Escherichia coli type. The M1 family of zinc metallopeptidases contains a number of distinct, well-separated clades of proteins with aminopeptidase activity. Several are designated aminopeptidase N, EC 3.4.11.2, after the Escherichia coli enzyme, suggesting a similar activity profile. This family consists of all aminopeptidases closely related to E. coli PepN and presumed to have similar (not identical) function. Nearly all are found in Proteobacteria, but members are found also in Cyanobacteria, plants, and apicomplexan parasites. This family differs greatly in sequence from the family of aminopeptidases typified by Streptomyces lividans PepN (TIGR02412), from the membrane bound aminopeptidase N family in animals, etc.
Probab=100.00 E-value=1.4e-46 Score=371.56 Aligned_cols=253 Identities=16% Similarity=0.157 Sum_probs=201.8
Q ss_pred eeeeCCCccC--------------CCceeEEEecccccCceeEEEe-ecCCCCCcceeEEEecCCccchHhHHHHHHHHH
Q psy5110 12 IVLCNGEPIQ--------------GNEKVLQSVQIFKIGKWVEISV-LGSPDSKKVVFSPWSVRNVRTYYRFKWEKVESC 76 (284)
Q Consensus 12 ~v~~~g~~~~--------------~~~k~~~y~~~~~ig~~~~~~~-~~~~~~~~v~i~v~~~~~~~~~~~~~~~~~~~~ 76 (284)
.++|||.++. .+.+|.+|++++.+|+|..... ..+.++++|++++|++|+..+.+.++++.++++
T Consensus 146 v~lSNg~~~~~~~~~~g~~~~~f~~t~pmptYLfA~vaGdf~~~~~~~~t~sg~~v~l~iy~~p~~~~~~~~al~~~~~~ 225 (863)
T TIGR02414 146 VLLSNGNKIASGELPDGRHWAEWEDPFPKPSYLFALVAGDLDVLEDTFTTKSGREVALRVYVEEGNKDKCDHAMESLKKA 225 (863)
T ss_pred EEEeCCccccceecCCCeEEEEEeCCCCcChhHheEEEeCCEEEEEEeeccCCCceEEEEEEccCcHHHHHHHHHHHHHH
Confidence 5689997652 1246789999999999998874 334577889999999999999999999999999
Q ss_pred HHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccCC---------CCcHHHHHHHHHHHHHHHHHhhhccccCc
Q psy5110 77 EQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADSN---------RTTAAGLLENFGLVAHELAHQWFGNYATP 147 (284)
Q Consensus 77 l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~~---------~~~~~~~~~~~~~iaHEiAHqWfG~~Vt~ 147 (284)
+++++++|| .+||++|+++|++|++.. |||||+||++.. ..+..+...+..+|+||+|||||||+||+
T Consensus 226 L~~~E~~fG--~pYPl~k~diVavpdf~~-GaMEN~GLi~f~e~~lL~~~~~~td~~~~~i~~VIaHElaHqWfGNlVT~ 302 (863)
T TIGR02414 226 MKWDEEVFG--LEYDLDIFMIVAVDDFNM-GAMENKGLNIFNSKYVLADPETATDADYERIESVIAHEYFHNWTGNRVTC 302 (863)
T ss_pred HHHHHHHhC--CCCChhhccEEecCCCCC-ccccccceeccccceEEeCCCCCCHHHHHHHHHHHHHHHHHHHhcceeee
Confidence 999999998 479999999999999864 899999986432 12334555678999999999999999999
Q ss_pred ccccchhhcchHHHHHHHHHHHHhcCcch--hhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccHHH
Q psy5110 148 SWWSYAWLKESVATLFEYYVVSWVEPTWR--MEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKGQS 224 (284)
Q Consensus 148 ~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG~~ 224 (284)
+||+++||+||||+|++..+.++..+... +.+.... ....+..|+.. .+|+.. ....+++..|+.++|.||++
T Consensus 303 ~~W~~LWLnEGfAty~e~~~~~~~~~~~~~~~~~~~~l--r~~~f~~D~~p~~~Pi~~--~~~~~i~~~y~~i~Y~KGA~ 378 (863)
T TIGR02414 303 RDWFQLSLKEGLTVFRDQEFSADMTSRAVKRIEDVRLL--RAHQFPEDAGPMAHPVRP--ESYVEINNFYTATVYEKGAE 378 (863)
T ss_pred cchhhhhhhhhHHHHHHHHHHHHhhhHHHHHHHHHHHH--HhhhhcccccccCCCCCC--cchhhHHhccchHHhHHHHH
Confidence 99999999999999999888776654311 1111111 11245567666 788764 23456677899999999999
Q ss_pred HHHHHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccccccccccc----------cCCCCCCC
Q psy5110 225 PAHVEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVEVKIPIRDV----------PQDPCVNP 281 (284)
Q Consensus 225 vl~mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~~~~~~~----------~~~w~~~~ 281 (284)
+||||+..||++.|+++|| .|+++|++++++.+|+++-+ +.+|..|+
T Consensus 379 vLrML~~~LGee~F~~gLr----------~Yl~r~~~~~at~~Df~~ale~asg~dL~~f~~W~~q~ 435 (863)
T TIGR02414 379 VIRMLHTLLGEEGFRKGMD----------LYFSRHDGQAVTCEDFVAAMEDASGRDLNQFRRWYSQA 435 (863)
T ss_pred HHHHHHHHhCHHHHHHHHH----------HHHHHhCCCCCCHHHHHHHHHHHhCCCHHHHHHHHcCC
Confidence 9999999999999999999 99999999999988766422 24788765
No 4
>COG0308 PepN Aminopeptidase N [Amino acid transport and metabolism]
Probab=100.00 E-value=1.6e-46 Score=374.24 Aligned_cols=260 Identities=20% Similarity=0.270 Sum_probs=224.7
Q ss_pred CCCceeeeCCCccCC--------------CceeEEEecccccCceeEEEeecCCCCCcceeEEEecCCccchHhHHHHHH
Q psy5110 8 KPFRIVLCNGEPIQG--------------NEKVLQSVQIFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTYYRFKWEKV 73 (284)
Q Consensus 8 ~~~~~v~~~g~~~~~--------------~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~~~~~~~~~ 73 (284)
++++.++|||.++.. ..+|++|++++.+|+|..+.......++++++++|++++....+++.++.+
T Consensus 168 ~k~~~~iSN~~~~~~~~~~~g~~~~~f~~~~~mptYL~al~~G~~~~~~~~~~~~~~~v~l~iy~~~g~~~~a~~~~~~~ 247 (859)
T COG0308 168 DKGPKLISNGNLIDGGTLVDGRKIVKFEDTPPMPTYLFALVAGDLEVFRDKFDTRSRDVPLEIYVPPGVLDRAKYALDET 247 (859)
T ss_pred cCcceeeecCCccccccccCCcEEEEEcCCCCcchHhhheeeecceeeeeeeccCCCCeeEEEEecCcchhhhhhhHHHH
Confidence 348999999998731 236789999999999988776433223689999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccC---------CCCcHHHHHHHHHHHHHHHHHhhhccc
Q psy5110 74 ESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADS---------NRTTAAGLLENFGLVAHELAHQWFGNY 144 (284)
Q Consensus 74 ~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~---------~~~~~~~~~~~~~~iaHEiAHqWfG~~ 144 (284)
++++++++++||. +||+++ ++|.+|++.. |+|||||+++. ..++.........+|+||+|||||||+
T Consensus 248 ~~~~~~~e~~fg~--~y~l~~-~~V~v~~f~~-GaMEN~Gl~tf~~~~ll~~~~~at~~~~~~~~~viaHElaHqWfGnl 323 (859)
T COG0308 248 KRSIEFYEEYFGL--PYALPI-DIVAVPDFSA-GAMENWGLVTFREKYLLADPETATDSDYENVEEVIAHELAHQWFGNL 323 (859)
T ss_pred HHHhhhHHHhcCC--CCCCcc-cEEeccCCCC-ccccccceeEEeeeEEeeCcccchhHHHHHHHHHHHHHHhhhcccce
Confidence 9999999999994 788888 9999999986 99999998643 233445557788899999999999999
Q ss_pred cCcccccchhhcchHHHHHHHHHHHHhcC-cchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccH
Q psy5110 145 ATPSWWSYAWLKESVATLFEYYVVSWVEP-TWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKG 222 (284)
Q Consensus 145 Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG 222 (284)
||++||+++|||||||+|++..+.++..| .+..+..+.......++..|+.. ++|+.....+|.+++..|+.++|.||
T Consensus 324 VT~~~W~~lWLnEgfat~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~~hPi~~~~~~~~ei~~~fD~i~Y~KG 403 (859)
T COG0308 324 VTMKWWDDLWLNEGFATFREVLWSEDLGGRAWKRWEDFRTLRTSIALAEDSLPSSHPIRVDVYDPKEINDFFDAIVYEKG 403 (859)
T ss_pred eeccCHHHHHHhhhhHHHHHHHHHHHhcchHHHHHHHHHHHhhhHHHhhccccccCCcccCCCCccchhhhcchhhcchh
Confidence 99999999999999999999999999998 66666676655454588889988 99999988888999999999999999
Q ss_pred HHHHHHHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccccccccc-----------cccCCCCCCC
Q psy5110 223 QSPAHVEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVEVKIPIR-----------DVPQDPCVNP 281 (284)
Q Consensus 223 ~~vl~mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~~~~~-----------~~~~~w~~~~ 281 (284)
++++|||+..+|++.|+++|+ .||++|++++++.+|+++ .++.+|..|+
T Consensus 404 s~vlrml~~~lG~e~F~kgl~----------~yf~~h~~~~~~~~Dl~~a~~~~sg~dl~~~~~~w~~q~ 463 (859)
T COG0308 404 ASVLRMLETLLGEEAFRKGLS----------LYFKRHAGGNATTMDLWKALEDASGKDLSAFFESWLSQA 463 (859)
T ss_pred HHHHHHHHHHHCHHHHHHHHH----------HHHHhcCCCCCCHHHHHHHHHHHhCCcHHHHHHHHHhCC
Confidence 999999999999999999999 999999999999988776 3578888877
No 5
>TIGR02411 leuko_A4_hydro leukotriene A-4 hydrolase/aminopeptidase. Members of this family represent a distinctive subset within the zinc metallopeptidase family M1 (pfam01433). The majority of the members of pfam01433 are aminopeptidases, but the sequences in this family for which the function is known are leukotriene A-4 hydrolase. A dual epoxide hydrolase and aminopeptidase activity at the same active site is indicated. The physiological substrate for aminopeptidase activity is not known.
Probab=100.00 E-value=2.2e-46 Score=360.22 Aligned_cols=252 Identities=19% Similarity=0.186 Sum_probs=190.1
Q ss_pred CCCceeeeCCCccC------------CCceeEEEecccccCceeEEEeecCCCCCcceeEEEecCCccchHhHHHH-HHH
Q psy5110 8 KPFRIVLCNGEPIQ------------GNEKVLQSVQIFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTYYRFKWE-KVE 74 (284)
Q Consensus 8 ~~~~~v~~~g~~~~------------~~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~~~~~~~-~~~ 74 (284)
.| ++|++||.++. .+..|.+|+++++||+|+.... +.++++|++|+..+.+.+.++ .++
T Consensus 157 ~P-~~av~sg~~~~~~~~~~~~~~F~~t~pmptYLia~avG~~~~~~~-------g~~~~v~~~p~~~~~~~~~~~~~~~ 228 (601)
T TIGR02411 157 SP-LPVLMSGIPDGETSNDPGKYLFKQKVPIPAYLIALASGDLASAPI-------GPRSSVYSEPEQLEKCQYEFEHDTE 228 (601)
T ss_pred eC-cceeccCCccccccCCCceEEEEeCCCcchhhheeeeccceeccc-------CCceEEEccchhHHHHHHHHHHhHH
Confidence 46 78888887653 2346788888899998876431 235699999998888888887 888
Q ss_pred HHHHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccCCCCcHHHHHHHHHHHHHHHHHhhhccccCcccccchh
Q psy5110 75 SCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADSNRTTAAGLLENFGLVAHELAHQWFGNYATPSWWSYAW 154 (284)
Q Consensus 75 ~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~~~~~~~~~~~~~~~iaHEiAHqWfG~~Vt~~~w~~~W 154 (284)
+++++++++. +||||+|+|+|++|+...+|||||+|++....+...+......+||||||||||||+||++||+|+|
T Consensus 229 ~~l~~~e~~~---~pYp~~k~d~vvlpp~f~~GgMEN~~ltf~~~~ll~~d~s~~~viaHElAHqWfGNlVT~~~W~d~W 305 (601)
T TIGR02411 229 NFIKTAEDLI---FPYEWGQYDLLVLPPSFPYGGMENPNLTFATPTLIAGDRSNVDVIAHELAHSWSGNLVTNCSWEHFW 305 (601)
T ss_pred HHHHHHHHhC---CCCcCccceEEEecCcccccccccccceeeccccccCChhhhhhHHHHHHhhccCceeecCCchHHH
Confidence 9999998875 5799999999998654457999999976544444444445678999999999999999999999999
Q ss_pred hcchHHHHHHHHHHHHhcCcchh--hhHHHHHHHHHHHhhcccC-CCCcccCCCCh--hhhhhcccccccccHHHHHHHH
Q psy5110 155 LKESVATLFEYYVVSWVEPTWRM--EDLFVVEQVQVAFNSDLKG-SHAMTSETTTP--DSISETFDHIIYNKGQSPAHVE 229 (284)
Q Consensus 155 L~Eg~a~y~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~--~~~~~~~~~~~Y~KG~~vl~mL 229 (284)
||||||+|++.+++++.+|+... ........++..+.. .. .+|+...+.+. .+++..|+.++|.||+++||||
T Consensus 306 LnEGfaty~e~~~~~~~~~e~~~~~~~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~dp~~~f~~i~Y~KGa~~L~mL 383 (601)
T TIGR02411 306 LNEGWTVYLERRIVGRLYGEKTRHFSALIGWGELQESVKT--LGEDPEYTKLVVDLKDNDPDDAFSSVPYEKGFNFLFYL 383 (601)
T ss_pred HHhhHHHHHHHHHHHHhcCcHHHHHHHHHhHHHHHHHHHh--hcCCCCCCcccccCCCCChhhhccccchhhHHHHHHHH
Confidence 99999999999999999987532 111111233333322 11 23333221111 1445689999999999999999
Q ss_pred HhhCC-hHHHHhhcCCchhhhhhhHHHHhhhcCcccccccccc----------------cc-cCCCCCCCC
Q psy5110 230 ISHCP-QRVCLESADPPLVICLVTDKLYLRHEWGLVEVKIPIR----------------DV-PQDPCVNPP 282 (284)
Q Consensus 230 ~~~lG-~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~~~~~----------------~~-~~~w~~~~~ 282 (284)
+..|| +++|+++|| +|+++|+|++++.+|+++ .+ ++.|+.||-
T Consensus 384 ~~~lG~~~~F~~~lr----------~Yl~~~~~~s~~t~df~~~l~~~~~~~~~~~~l~~~~~~~Wl~~~G 444 (601)
T TIGR02411 384 EQLLGGPAVFDPFLK----------HYFKKFAYKSLDTYQFKDALYEYFKDTGKVDKLNAVDWDTWLYSPG 444 (601)
T ss_pred HHHhCCHHHHHHHHH----------HHHHHhCCCCCCHHHHHHHHHHHhhhccccchhhhhhHHHHhcCCC
Confidence 99999 999999999 999999999998765433 23 688888874
No 6
>PRK14015 pepN aminopeptidase N; Provisional
Probab=100.00 E-value=8.2e-46 Score=366.94 Aligned_cols=253 Identities=16% Similarity=0.152 Sum_probs=199.6
Q ss_pred c-eeeeCCCccCC-----C---------ceeEEEecccccCceeEEEee-cCCCCCcceeEEEecCCccchHhHHHHHHH
Q psy5110 11 R-IVLCNGEPIQG-----N---------EKVLQSVQIFKIGKWVEISVL-GSPDSKKVVFSPWSVRNVRTYYRFKWEKVE 74 (284)
Q Consensus 11 ~-~v~~~g~~~~~-----~---------~k~~~y~~~~~ig~~~~~~~~-~~~~~~~v~i~v~~~~~~~~~~~~~~~~~~ 74 (284)
+ +++|||.+++. + .+|.+|++++.+|+|...... ...++++|++++|++|+..+.+.++++.++
T Consensus 157 ~~~~lSNG~l~~~~~~~~g~~~~~w~~~~PmpsYL~Al~aGdf~~~~d~~~~~~g~~vpl~iy~~p~~~~~~~~al~~~~ 236 (875)
T PRK14015 157 YPVLLSNGNLVESGELPDGRHWATWEDPFPKPSYLFALVAGDLDVLEDTFTTRSGREVALEIYVEPGNLDKCDHAMDSLK 236 (875)
T ss_pred CeEEecCCccccceeccCCeEEEEEEeCCCcccceEEEEEeCCEEEEEEeeccCCCeEEEEEEEeCCcHHHHHHHHHHHH
Confidence 5 67999986532 1 246789999999999988742 335667899999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccCCC---------CcHHHHHHHHHHHHHHHHHhhhcccc
Q psy5110 75 SCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADSNR---------TTAAGLLENFGLVAHELAHQWFGNYA 145 (284)
Q Consensus 75 ~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~~~---------~~~~~~~~~~~~iaHEiAHqWfG~~V 145 (284)
+++++++++||+ +||++++++|++|++.. |||||+|+++... .+..+...+..+||||+|||||||+|
T Consensus 237 ~~L~~~E~~FG~--pYP~~k~diVavp~f~~-GaMEN~Gl~~f~~~~lL~~~~~~t~~~~~~i~~vIaHElaHqWFGNlV 313 (875)
T PRK14015 237 KSMKWDEERFGL--EYDLDIFMIVAVDDFNM-GAMENKGLNIFNSKYVLADPETATDADYERIESVIAHEYFHNWTGNRV 313 (875)
T ss_pred HHHHHHHHHhCC--CCChhhhCEEeCCCCCC-cccccccccccccceEecCcccCCHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 999999999983 79999999999999875 8999999874322 22334456789999999999999999
Q ss_pred CcccccchhhcchHHHHHHHHHHHHhcCcc--hhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccH
Q psy5110 146 TPSWWSYAWLKESVATLFEYYVVSWVEPTW--RMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKG 222 (284)
Q Consensus 146 t~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG 222 (284)
|++||+++|||||||+|++..+.++..+.. ++.+.... ....+..|+.. .+|+.. .+..+++..|+.++|.||
T Consensus 314 T~~~W~dLWLnEGFAty~e~~~~~~~~~~~~~~~~~~~~l--~~~~~~~D~~~~a~pi~p--~~~~~i~~~f~~~~Y~KG 389 (875)
T PRK14015 314 TCRDWFQLSLKEGLTVFRDQEFSADLGSRAVKRIEDVRVL--RAAQFAEDAGPMAHPVRP--DSYIEINNFYTATVYEKG 389 (875)
T ss_pred eecchhhhhhhhHHHHHHHHHHHHHhhhHHHHHHHHHHHH--hhhcccccccccCCCCCC--cchhhHHhcccchhhhHH
Confidence 999999999999999999988877765421 11111111 11234456555 677753 233456678999999999
Q ss_pred HHHHHHHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccccccccc-----------cccCCCCCCC
Q psy5110 223 QSPAHVEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVEVKIPIR-----------DVPQDPCVNP 281 (284)
Q Consensus 223 ~~vl~mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~~~~~~~-----------~~~~~w~~~~ 281 (284)
+++||||+..||+++|+++|| .|+++|++++++.+|+++ ++ .+|..||
T Consensus 390 A~vLrMLr~~lGde~F~~gLr----------~Yl~~~~~~~at~~Df~~ale~asg~DL~~f-~~W~~q~ 448 (875)
T PRK14015 390 AEVIRMLHTLLGEEGFRKGMD----------LYFERHDGQAVTCEDFVAAMEDASGRDLSQF-RRWYSQA 448 (875)
T ss_pred HHHHHHHHHHhCHHHHHHHHH----------HHHHHhCCCCCCHHHHHHHHHHHhCCCHHHH-HHHHcCC
Confidence 999999999999999999999 999999999998877654 33 3787775
No 7
>PF01433 Peptidase_M1: Peptidase family M1 This is family M1 in the peptidase classification.; InterPro: IPR014782 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 M1 (clan MA(E)), the type example being aminopeptidase N from Homo sapiens (Human). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. Membrane alanine aminopeptidase (3.4.11.2 from EC) is part of the HEXXH+E group; it consists entirely of aminopeptidases, spread across a wide variety of species []. Functional studies show that CD13/APN catalyzes the removal of single amino acids from the amino terminus of small peptides and probably plays a role in their final digestion; one family member (leukotriene-A4 hydrolase) is known to hydrolyse the epoxide leukotriene-A4 to form an inflammatory mediator []. This hydrolase has been shown to have aminopeptidase activity [], and the zinc ligands of the M1 family were identified by site-directed mutagenesis on this enzyme [] CD13 participates in trimming peptides bound to MHC class II molecules [] and cleaves MIP-1 chemokine, which alters target cell specificity from basophils to eosinophils []. CD13 acts as a receptor for specific strains of RNA viruses (coronaviruses) which cause a relatively large percentage of upper respiratory trace infections. 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: 0008237 metallopeptidase activity, 0008270 zinc ion binding; PDB: 2XQ0_A 2XPY_A 2XPZ_A 3SE6_B 3EBH_A 3EBG_A 3T8V_A 3Q44_A 3Q43_A 3EBI_A ....
Probab=100.00 E-value=6.5e-39 Score=296.04 Aligned_cols=210 Identities=29% Similarity=0.477 Sum_probs=175.4
Q ss_pred CCCCceeeeCCCccC--------------CCceeEEEecccccCceeEEEeecCCCCCcceeEEEecCCccchHhHHHHH
Q psy5110 7 YKPFRIVLCNGEPIQ--------------GNEKVLQSVQIFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTYYRFKWEK 72 (284)
Q Consensus 7 ~~~~~~v~~~g~~~~--------------~~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~~~~~~~~ 72 (284)
...+++|+|||.... .+.+|.+|+++++||+|....... ..++++++|++|+..+.++.+++.
T Consensus 157 ~p~~~~~~sng~~~~~~~~~~~~~~~~f~~t~p~~~yl~a~~vg~~~~~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~ 233 (390)
T PF01433_consen 157 HPKDYTALSNGPLEEEESNDDGWKTTTFETTPPMPTYLFAFAVGDFESVEVTT---KSGVPVRVYARPGDEEQLQFALDI 233 (390)
T ss_dssp EETTTEEEESSEEEEEEEETTTEEEEEEEEEEEEEGGG--EEEESEEEEEEET---TTEEEEEEEEECTCGGGHHHHHHH
T ss_pred ccccceeeccccccccccccccceeEeeecccccCchhhhhhcCccccccccc---ccccchheeehhhhHHHHHHHHHh
Confidence 356789999998752 235678899999999999986522 226889999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCcccccccccc---------CCCCcHHHHHHHHHHHHHHHHHhhhcc
Q psy5110 73 VESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLAD---------SNRTTAAGLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 73 ~~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~---------~~~~~~~~~~~~~~~iaHEiAHqWfG~ 143 (284)
++++++++++++| .+||++|+|+|++|++.. ++||++|++. +..++...+.....+||||+|||||||
T Consensus 234 ~~~~l~~~~~~~g--~~yp~~k~~~v~~p~~~~-~~me~~g~i~~~~~~l~~~~~~~~~~~~~~~~~~iahElahqWfGn 310 (390)
T PF01433_consen 234 APKALEYYEEYFG--IPYPFKKLDIVAVPDFPF-GGMENWGLITYRESYLLYDPDISTIGDKQEIASLIAHELAHQWFGN 310 (390)
T ss_dssp HHHHHHHHHHHHT--S--SSSEEEEEEEST-SS-SEE--TTEEEEEGGGTS-STTTS-HHHHHHHHHHHHHHHHTTTBTT
T ss_pred hHHHHHHHHhhcc--ccceecceeEEEEecccc-ccccccccccccccccccCcccccchhhhhhHHHHHHHHHHHHhcc
Confidence 9999999999998 479999999999998764 8999999853 223344566778999999999999999
Q ss_pred ccCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhhhhhcccccccccH
Q psy5110 144 YATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDSISETFDHIIYNKG 222 (284)
Q Consensus 144 ~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~~~~~~~~~~Y~KG 222 (284)
+||+++|+|.||+||||+|++.+++++.+|.+.+.+.+..+.++.++..|+.. .+||...+.++.++...|+.++|.||
T Consensus 311 ~vt~~~w~d~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~pl~~~~~~~~~~~~~f~~~~Y~KG 390 (390)
T PF01433_consen 311 LVTPKWWSDLWLNEGFATYLEYLILEKLFGEWQMMELFLVQEMQRALREDALPNSHPLSSEVEDPSDIDDMFDDISYNKG 390 (390)
T ss_dssp TEEESSGGGHHHHHHHHHHHHHHHHHHHHGHHHHHHHHHHHHHHHHHHHHTSTTCCCSSSSSSSESCGGGGSSHHHHHHH
T ss_pred CCccccchhhhHHHHHHHHHHHHhHhhccCcccchhhhhhhhHHHHHHHhhcCCCcceEeCCCCCCChHHhcCccccCCC
Confidence 99999999999999999999999999999988888888888888999999988 99999777778888889999999998
No 8
>KOG1047|consensus
Probab=100.00 E-value=1.9e-38 Score=288.70 Aligned_cols=233 Identities=18% Similarity=0.207 Sum_probs=188.9
Q ss_pred CCCceeEEEecccccCceeEEEeecCCCCCcce--eEEEecCCccchHhHHHH-HHHHHHHHHHHhcCCCCCccCCceeE
Q psy5110 21 QGNEKVLQSVQIFKIGKWVEISVLGSPDSKKVV--FSPWSVRNVRTYYRFKWE-KVESCEQNISRTASPLFILPLSMSLV 97 (284)
Q Consensus 21 ~~~~k~~~y~~~~~ig~~~~~~~~~~~~~~~v~--i~v~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~yP~~k~di 97 (284)
+.+|.++.|.+..+|+.|....+++....+.|. -+||++|...+.+++.+. .++++++.-++.+| ||+|++||+
T Consensus 181 ~~~~~~f~f~q~~pIP~YLiai~~G~L~s~eIgpRs~VwaEp~~~~a~~~ef~~~~e~~L~~Ae~l~G---pY~WgryDl 257 (613)
T KOG1047|consen 181 SNGRAIFRFKQEVPIPSYLIAIAVGDLESREIGPRSRVWAEPCLLDACQEEFAGETEDFLKAAEKLFG---PYVWGRYDL 257 (613)
T ss_pred CCCcceEEEEeccCchhhhHHHhhccccccccCCccceecchhhhHHHHHHHHhhhHHHHHHHHHHcC---CcccccceE
Confidence 456889999999999999888887776666554 489999999998887776 88888888888875 799999999
Q ss_pred EEeCCCCCCccccccccccCCCCcHHHHHHHHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHhcCcchh
Q psy5110 98 LFLPPVSMLCSSELYGLADSNRTTAAGLLENFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWVEPTWRM 177 (284)
Q Consensus 98 V~~P~~~~~~~mE~~gl~~~~~~~~~~~~~~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~ 177 (284)
+++|+..++|||||+.|.....+.+.++..+..+|||||||.||||+||+.+|+++|||||||+|+|..+...++|....
T Consensus 258 lvlPpSFP~gGMENPcltF~TpTllaGDrsl~~vIaHEIAHSWtGNlVTN~sWehfWLNEGfTvylErrI~g~~~g~~~~ 337 (613)
T KOG1047|consen 258 LVLPPSFPFGGMENPCLTFVTPTLLAGDRSLVDVIAHEIAHSWTGNLVTNASWEHFWLNEGFTVYLERRIVGRLYGEAYR 337 (613)
T ss_pred EEecCCCCcccccCcceeeecchhhcCCcchhhHHHHHhhhhhcccccccCccchhhhcccchhhhhhhhhhhhcchhHH
Confidence 99999999999999999888888889999999999999999999999999999999999999999999999999986422
Q ss_pred h--hHHHHHHHHHHHhhcccC-CCCcccC-----CCChhhhhhcccccccccHHHHHHHHHhhCCh-HHHHhhcCCchhh
Q psy5110 178 E--DLFVVEQVQVAFNSDLKG-SHAMTSE-----TTTPDSISETFDHIIYNKGQSPAHVEISHCPQ-RVCLESADPPLVI 248 (284)
Q Consensus 178 ~--~~~~~~~~~~~~~~d~~~-~~Pl~~~-----~~~~~~~~~~~~~~~Y~KG~~vl~mL~~~lG~-~~F~~~l~~~l~~ 248 (284)
. .....+.++..+ |... .+|.... ..+|+ ..|+.+.|.||.++|+-|++.+|+ +.|...||
T Consensus 338 ~f~a~~gw~~L~~~~--d~~g~~~~~tkLv~kl~~~dPD---dafs~VpYeKG~~ll~~Le~~lG~~~~Fd~FLr----- 407 (613)
T KOG1047|consen 338 QFEALIGWRELRPSM--DLFGETSEFTKLVVKLENVDPD---DAFSQVPYEKGFALLFYLEQLLGDPTRFDPFLR----- 407 (613)
T ss_pred HHHHhcChhhhhhHH--HhcCCCcccchhhhhccCCChH---HhhhcCchhhhhHHHHHHHHHhCChhhHHHHHH-----
Confidence 1 111112333333 3333 4444431 12444 489999999999999999999995 57888998
Q ss_pred hhhhHHHHhhhcCcccccccccc
Q psy5110 249 CLVTDKLYLRHEWGLVEVKIPIR 271 (284)
Q Consensus 249 ~~~~~~y~~~~~~~~~~~~~~~~ 271 (284)
.|+.+++++....++|.+
T Consensus 408 -----~Yv~kfa~ksI~t~dfld 425 (613)
T KOG1047|consen 408 -----AYVHKFAFKSILTQDFLD 425 (613)
T ss_pred -----HHHHHhccceecHHHHHH
Confidence 999999999887665443
No 9
>KOG1932|consensus
Probab=99.78 E-value=2.6e-18 Score=167.75 Aligned_cols=257 Identities=13% Similarity=0.179 Sum_probs=176.3
Q ss_pred CCCceeeeCCCccC------CCceeEEEec---------ccccCceeEEEeecCCCCCcceeEEEecCCccchHhHHHHH
Q psy5110 8 KPFRIVLCNGEPIQ------GNEKVLQSVQ---------IFKIGKWVEISVLGSPDSKKVVFSPWSVRNVRTYYRFKWEK 72 (284)
Q Consensus 8 ~~~~~v~~~g~~~~------~~~k~~~y~~---------~~~ig~~~~~~~~~~~~~~~v~i~v~~~~~~~~~~~~~~~~ 72 (284)
.+.-+-++.|...+ .++|.++|.+ +|+||+|..... +. .++|+.+|.|+..+.++...-.
T Consensus 208 p~~~~av~~geLl~~v~~~D~~Kkt~~ys~tvPvA~~~I~~AiG~F~~~~~---P~--~~~i~~f~LP~~~~~v~nt~~~ 282 (1180)
T KOG1932|consen 208 PKNLVAVSCGELLEQVETPDLRKKTYHYSLTVPVAPSNIGFAIGPFKSYVE---PS--MIDITHFCLPGLEPLVKNTTVY 282 (1180)
T ss_pred cccceeccchhhhheeecccccccEEEEEEeccCCccccceeeccccccCC---Cc--cCcceeEecCcchHHhhhHHHH
Confidence 34445556666542 3467888777 567777777632 22 5667999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCccccccccccC------CCCcHHHHHHHHHHHHHHHHHhhhccccC
Q psy5110 73 VESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELYGLADS------NRTTAAGLLENFGLVAHELAHQWFGNYAT 146 (284)
Q Consensus 73 ~~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~gl~~~------~~~~~~~~~~~~~~iaHEiAHqWfG~~Vt 146 (284)
+.++++|+|+++++ .|||+.|.+|++|.... -.+.+..|... ....+.+....+..+|-.+|-||||..+|
T Consensus 283 l~k~iefye~~ls~--rYPF~~~k~VFvd~~~~-~i~~~asl~I~st~lLy~~~iIDq~~~tr~~La~aLA~Q~fg~yIs 359 (1180)
T KOG1932|consen 283 LHKAIEFYEEELSS--RYPFSCYKTVFVDEAAV-EISSYASLSIFSTSLLYSKNIIDQTFLTRRKLAWALASQWFGVYIS 359 (1180)
T ss_pred HHHHHHHHHHHhcc--CCCcceeeEEEecCCcc-eeeecceeeeeeccccchHhhhhHHHHHHHHHHHHHHHhhhEEEee
Confidence 99999999999985 48999999999986642 22222222111 11223444567889999999999999999
Q ss_pred cccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-----CCCcccCCC--------------Ch
Q psy5110 147 PSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-----SHAMTSETT--------------TP 207 (284)
Q Consensus 147 ~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-----~~Pl~~~~~--------------~~ 207 (284)
+.+|+|.||-+|+|.|+..+++++..|...+..+ +.+.+...+..|-.. +.|+..... ..
T Consensus 360 p~~wsD~Wl~~GiagYl~~l~~kk~lGNNEyry~-lKk~~d~V~~~d~~~g~i~l~~Pi~~s~k~~~~~~~~lh~~~r~~ 438 (1180)
T KOG1932|consen 360 PVDWSDFWLLKGIAGYLTGLFVKKFLGNNEYRYQ-LKKALDAVVDYDVQKGAIYLTRPISPSMKFKLKGPFHLHISIRHL 438 (1180)
T ss_pred ccchhhhHHHHhHHHHHHHHHHHHHhCchHHHHH-HHHHHHHHHHhhhccCceeeccCCCcchhhcccCcceeeecccce
Confidence 9999999999999999999999999998765332 223444555554321 334443211 01
Q ss_pred hhhhhcccccccccHHHHHHHHHhhCChHHHHhhcCCchhhh--hhhHHHHhhhcCcccccccccccc
Q psy5110 208 DSISETFDHIIYNKGQSPAHVEISHCPQRVCLESADPPLVIC--LVTDKLYLRHEWGLVEVKIPIRDV 273 (284)
Q Consensus 208 ~~~~~~~~~~~Y~KG~~vl~mL~~~lG~~~F~~~l~~~l~~~--~~~~~y~~~~~~~~~~~~~~~~~~ 273 (284)
...+..|....-.|+..+.+|+++.+|.+.|.+.+++-+.-. .+++.+++++.++-..+..++..+
T Consensus 439 ~~~s~~~~~a~~~k~~~~~~m~~~~i~~e~~~q~f~kv~~~~~~~~~k~~~~~Wv~~~g~~~~r~~~~ 506 (1180)
T KOG1932|consen 439 HTLSGSYGMAFVIKKLLLQRMSGNRINEELSFQVFNKVLELASKMLLKSFFQTWVYGLGVPILRLGQR 506 (1180)
T ss_pred eecChhHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHhhhhhHHHHHHHHHHhccCCeeEEEEEE
Confidence 111122223333689999999999999998888877653221 224677888888877666555544
No 10
>PF13485 Peptidase_MA_2: Peptidase MA superfamily
Probab=99.39 E-value=4.5e-13 Score=103.79 Aligned_cols=104 Identities=23% Similarity=0.165 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCC
Q psy5110 126 LENFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSET 204 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~ 204 (284)
.....+++||++|+|++..++.......|++||+|+|++.. . .......+..++..+... ..++....
T Consensus 23 ~~~~~~l~HE~~H~~~~~~~~~~~~~~~W~~EG~A~y~~~~--------~---~~~~~~~~~~~~~~~~~~~~~~l~~~~ 91 (128)
T PF13485_consen 23 DWLDRVLAHELAHQWFGNYFGGDDNAPRWFNEGLAEYVEGR--------I---EDEFDEDLKQAIESGSLPPLEPLNSSF 91 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCccCchHHHHHHHHHHhcC--------c---cchhHHHHHHHHHcCCCCChHHHhccc
Confidence 34568999999999999999876777899999999999932 1 111122333444433322 22222211
Q ss_pred CChhhhhhcccccccccHHHHHHHHHhhCChHHHHhhcCC
Q psy5110 205 TTPDSISETFDHIIYNKGQSPAHVEISHCPQRVCLESADP 244 (284)
Q Consensus 205 ~~~~~~~~~~~~~~Y~KG~~vl~mL~~~lG~~~F~~~l~~ 244 (284)
.. ...+....|.+|.+++++|....|+++|++.|++
T Consensus 92 ~~----~~~~~~~~Y~~~~~~~~~L~~~~G~~~~~~~l~~ 127 (128)
T PF13485_consen 92 DF----SWEDDSLAYYQGYLFVRFLEEKYGREKFKAFLRE 127 (128)
T ss_pred cc----cccccccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 10 2345667999999999999999999999999984
No 11
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=98.27 E-value=7.2e-05 Score=69.81 Aligned_cols=120 Identities=12% Similarity=0.094 Sum_probs=78.5
Q ss_pred CCCcceeEEEecCCccchHhHHHHHHHHHHHHHHHhcCCCCCccCCceeEEEeCCCCCCcccccc---ccccCC--CCcH
Q psy5110 48 DSKKVVFSPWSVRNVRTYYRFKWEKVESCEQNISRTASPLFILPLSMSLVLFLPPVSMLCSSELY---GLADSN--RTTA 122 (284)
Q Consensus 48 ~~~~v~i~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~yP~~k~diV~~P~~~~~~~mE~~---gl~~~~--~~~~ 122 (284)
.+++..+.++..-. ........+..++++..--+.|| +-||++|..++.-.-..+||+|+. +|+..- .+..
T Consensus 166 ~g~ph~~~~~g~~p-~~d~~~~~~~~k~ii~~~~~vFg---~~~~~~Y~Fl~~~s~q~~GGlEH~~St~l~~~r~~~~~~ 241 (558)
T COG3975 166 TGAPHTIALRGELP-NFDKERLASDTKKIIEAEIKVFG---SAPFDKYVFLLHLSDQIYGGLEHRRSTALIYDRFGFTDQ 241 (558)
T ss_pred cCCceeEEEeeccc-cccHHHHHHHHHHHHHHHHHHhc---CCCccceEEEEEecCCCCCCceeccccccccccccccch
Confidence 45666667776442 12233444556666665556665 468899888776544457899974 232211 1111
Q ss_pred HHHHHHHHHHHHHHHHhhhccccCccc-c----------cchhhcchHHHHHHHHHHHHh
Q psy5110 123 AGLLENFGLVAHELAHQWFGNYATPSW-W----------SYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 123 ~~~~~~~~~iaHEiAHqWfG~~Vt~~~-w----------~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
...+....+++||..|-|-+-.+-+.. | ...|+.|||++|...++....
T Consensus 242 ~ky~~~l~llsHEyfH~WNvKrIrpa~l~p~~~d~en~t~~lW~~EG~T~Yy~~ll~lRs 301 (558)
T COG3975 242 DKYQDLLGLLSHEYFHAWNVKRIRPAALEPFNLDKENYTPLLWFSEGFTSYYDRLLALRS 301 (558)
T ss_pred hHHHHHHHHHHHHHHHhccceeccccccCCccccccCCCcceeeecCchHHHHHHHHHHh
Confidence 223566889999999999988777654 2 358999999999999887654
No 12
>PF05299 Peptidase_M61: M61 glycyl aminopeptidase; InterPro: IPR007963 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 M61 (glycyl aminopeptidase 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 type example is glycyl aminopeptidase from Sphingomonas capsulata.
Probab=97.17 E-value=0.00035 Score=53.70 Aligned_cols=44 Identities=20% Similarity=0.449 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHhhhccccCcccc-----------cchhhcchHHHHHHHHHHHHh
Q psy5110 128 NFGLVAHELAHQWFGNYATPSWW-----------SYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 128 ~~~~iaHEiAHqWfG~~Vt~~~w-----------~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
...+++||.-|.|-+..+-|..- +.+|+-||+++|++.+++.+.
T Consensus 4 ~l~l~sHEffH~WnvkrirP~~l~p~dy~~~~~t~~LWv~EG~T~Y~~~l~l~Ra 58 (122)
T PF05299_consen 4 FLGLLSHEFFHSWNVKRIRPAELGPFDYEKPNYTELLWVYEGFTSYYGDLLLVRA 58 (122)
T ss_pred hhhhhhhhccccccceEeccccccCCCCCCCCCCCCEeeeeCcHHHHHHHHHHHc
Confidence 45789999999999877766442 357999999999999998764
No 13
>PF10460 Peptidase_M30: Peptidase M30; InterPro: IPR019501 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 family contains metallopeptidases belonging to MEROPS peptidase family M30 (hyicolysin family, clan MA). Hyicolysin has a zinc ion which is liganded by two histidine and one glutamate residue.
Probab=96.83 E-value=0.0016 Score=59.21 Aligned_cols=110 Identities=14% Similarity=0.100 Sum_probs=68.1
Q ss_pred HHHHHHHHHHHHHHhh--hccccCcc--cccchhhcchHHHHHHHHHHHHhcCcc-hhhhHHHHHHHHHHHhhcccC-CC
Q psy5110 125 LLENFGLVAHELAHQW--FGNYATPS--WWSYAWLKESVATLFEYYVVSWVEPTW-RMEDLFVVEQVQVAFNSDLKG-SH 198 (284)
Q Consensus 125 ~~~~~~~iaHEiAHqW--fG~~Vt~~--~w~~~WL~Eg~a~y~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~d~~~-~~ 198 (284)
......+||||+=|.= --+.|-.. .-.|.||+||++.-.|.++..+..+.. ...+. ++.......+.. ..
T Consensus 136 ~~~~~sTlAHEfQHmInfy~~~v~~g~~~~~dtWLnE~lS~~aEdl~s~~~~~~~n~i~d~----R~~~y~~~~~~~~~~ 211 (366)
T PF10460_consen 136 PDTVYSTLAHEFQHMINFYQRGVLHGKQYAMDTWLNEMLSMSAEDLYSSKIDPGYNNIRDS----RIPYYNNYTSGNYNC 211 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHhcCCCcccCccccc----cHHHHhhccccCCCc
Confidence 4457899999999984 32344333 236999999999999999887764321 11111 111111111111 33
Q ss_pred CcccCCCChhhhhhcccccccccHHHHHHHHHhhCChHHHHhhcCC
Q psy5110 199 AMTSETTTPDSISETFDHIIYNKGQSPAHVEISHCPQRVCLESADP 244 (284)
Q Consensus 199 Pl~~~~~~~~~~~~~~~~~~Y~KG~~vl~mL~~~lG~~~F~~~l~~ 244 (284)
.+... .... -.-..|....+++.-|....|.+.+++.|..
T Consensus 212 ~l~~w-~~~g-----~~l~sYs~s~~Fg~~L~rQ~G~~~~~~~l~~ 251 (366)
T PF10460_consen 212 SLTAW-SSFG-----DSLASYSSSYSFGAYLYRQYGGDFYKKLLTN 251 (366)
T ss_pred ceeec-CCCc-----cccccchhHHHHHHHHHHHcChHHHHHHHhc
Confidence 34332 1111 1235699999999888888899999998874
No 14
>PF07607 DUF1570: Protein of unknown function (DUF1570); InterPro: IPR011464 This entry represents hypothetical proteins confined to bacteria.
Probab=96.77 E-value=0.00084 Score=52.07 Aligned_cols=38 Identities=37% Similarity=0.552 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhhccc-cCc--ccccchhhcchHHHHHHHHHH
Q psy5110 130 GLVAHELAHQWFGNY-ATP--SWWSYAWLKESVATLFEYYVV 168 (284)
Q Consensus 130 ~~iaHEiAHqWfG~~-Vt~--~~w~~~WL~Eg~a~y~~~~~~ 168 (284)
.+++||.+||=.-|. |-+ ..|- .||.||||+|+|..-.
T Consensus 3 ~T~~HEa~HQl~~N~Gl~~r~~~~P-~Wv~EGlA~yFE~~~~ 43 (128)
T PF07607_consen 3 ATIAHEATHQLAFNTGLHPRLADWP-RWVSEGLATYFETPGM 43 (128)
T ss_pred hHHHHHHHHHHHHHccccccCCCCc-hHHHHhHHHHcCCCcc
Confidence 579999999987654 211 2222 8999999999998776
No 15
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=95.80 E-value=0.029 Score=46.89 Aligned_cols=50 Identities=20% Similarity=0.044 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHhhhccccC----cccccchhhcchHHHHHHHHHHHHhc
Q psy5110 123 AGLLENFGLVAHELAHQWFGNYAT----PSWWSYAWLKESVATLFEYYVVSWVE 172 (284)
Q Consensus 123 ~~~~~~~~~iaHEiAHqWfG~~Vt----~~~w~~~WL~Eg~a~y~~~~~~~~~~ 172 (284)
.....+..++|||..|.+--..+. ...--|.-+.||+|.+++..+..+..
T Consensus 60 ~~~~~l~~~iaHE~hH~~r~~~~~~~~~~~TLld~~I~EGlAe~f~~~~~g~~~ 113 (195)
T PF10026_consen 60 YSLEELPALIAHEYHHNCRYEQIGWDPEDTTLLDSLIMEGLAEYFAEELYGEEY 113 (195)
T ss_pred ccHHHHHHHHHHHHHHHHHHhccCCCCCCCCHHHHHHHhhHHHHHHHHHcCCCC
Confidence 345578899999999996444333 22234677899999999998877655
No 16
>PF10023 DUF2265: Predicted aminopeptidase (DUF2265); InterPro: IPR014553 This group represents a predicted aminopeptidase.
Probab=94.90 E-value=0.048 Score=49.05 Aligned_cols=41 Identities=32% Similarity=0.099 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHh
Q psy5110 125 LLENFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 125 ~~~~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
...+..+|.||+|||= |-.. +|.=+||+||++++..-+.+.
T Consensus 162 ~~~LA~LIfHELaHq~----~Yv~--~dt~FNEsfAtfVe~~G~~~w 202 (337)
T PF10023_consen 162 DGELARLIFHELAHQT----LYVK--GDTAFNESFATFVEREGARRW 202 (337)
T ss_pred chHHHHHHHHHHhhce----eecC--CCchhhHHHHHHHHHHHHHHH
Confidence 4568899999999993 2222 467799999999998877654
No 17
>COG4324 Predicted aminopeptidase [General function prediction only]
Probab=93.92 E-value=0.072 Score=46.00 Aligned_cols=42 Identities=31% Similarity=0.098 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
++..+..+|-||+|||=|. |. +|.=+||+||+++|..-+.+.
T Consensus 193 dd~~lA~LIFHELAHQk~Y--~~----~DtAFNEsFAtaVEt~Gvr~W 234 (376)
T COG4324 193 DDTYLASLIFHELAHQKIY--VN----NDTAFNESFATAVETSGVRKW 234 (376)
T ss_pred ChHHHHHHHHHHHhhheEe--ec----CcchHhHHHHHHHHHHhHHHH
Confidence 3456889999999999553 22 467789999999999888765
No 18
>PF04450 BSP: Peptidase of plants and bacteria; InterPro: IPR007541 These basic secretory proteins (BSPs) are believed to be part of the plants defence mechanism against pathogens [].
Probab=93.35 E-value=0.46 Score=40.00 Aligned_cols=40 Identities=23% Similarity=0.238 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHH
Q psy5110 125 LLENFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYV 167 (284)
Q Consensus 125 ~~~~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~ 167 (284)
+..+..+|.|||+|-|=.+--+. .--||-||+|.|+...+
T Consensus 93 ~~Ei~Gvl~HE~~H~~Q~~~~~~---~P~~liEGIADyVRl~a 132 (205)
T PF04450_consen 93 RDEIIGVLYHEMVHCWQWDGRGT---APGGLIEGIADYVRLKA 132 (205)
T ss_pred HHHHHHHHHHHHHHHhhcCCCCC---CChhheecHHHHHHHHc
Confidence 35678999999999875554322 23589999999987753
No 19
>PF11916 Vac14_Fig4_bd: Vacuolar protein 14 C-terminal Fig4p binding; InterPro: IPR021841 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 211 to 243 amino acids in length. This domain is found associated with PF02985 from PFAM.
Probab=85.60 E-value=0.19 Score=41.16 Aligned_cols=64 Identities=13% Similarity=-0.013 Sum_probs=44.6
Q ss_pred cccHHHHHHHHHhhCChHHHHhhcCCc----------------hhhhhhhHHHHhhhcCc--cc----ccccccccccCC
Q psy5110 219 YNKGQSPAHVEISHCPQRVCLESADPP----------------LVICLVTDKLYLRHEWG--LV----EVKIPIRDVPQD 276 (284)
Q Consensus 219 Y~KG~~vl~mL~~~lG~~~F~~~l~~~----------------l~~~~~~~~y~~~~~~~--~~----~~~~~~~~~~~~ 276 (284)
=.||..|+|.|...+|.|+..+.+..- |++..++..-...-+-+ +. +....+.-+.++
T Consensus 6 ~~Rg~~IIRqLC~~L~~E~iy~~la~iL~~~~dl~Fas~mVq~LN~iLLTs~EL~~LR~~Lr~~~~~~~~~~lF~~Ly~s 85 (182)
T PF11916_consen 6 ERRGSFIIRQLCVLLNAERIYRTLASILESEEDLEFASMMVQTLNNILLTSPELFDLRKKLRNLDTDEEGQSLFSTLYRS 85 (182)
T ss_pred HHHHHHHHHHHHhhcCHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcchHHHHHHHHHHhccccchHHhHHHHHHHHH
Confidence 359999999999999999877776553 77777754333222222 21 234577788999
Q ss_pred CCCCCC
Q psy5110 277 PCVNPP 282 (284)
Q Consensus 277 w~~~~~ 282 (284)
|++||.
T Consensus 86 WchNpv 91 (182)
T PF11916_consen 86 WCHNPV 91 (182)
T ss_pred HhcCHH
Confidence 999984
No 20
>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=83.69 E-value=1.7 Score=36.36 Aligned_cols=42 Identities=19% Similarity=0.236 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHh
Q psy5110 128 NFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 128 ~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
...++|||+-|-|.-. ..-.--+..+-||+++-++.++++..
T Consensus 93 ~gsiLAHE~mHa~Lrl--~g~~~L~~~vEEGiCqvla~~wL~~~ 134 (212)
T PF12315_consen 93 TGSILAHELMHAWLRL--NGFPNLSPEVEEGICQVLAYLWLESE 134 (212)
T ss_pred HhhHHHHHHHHHHhcc--cCCCCCChHHHHHHHHHHHHHHHhhh
Confidence 3578999999999732 11112367899999999999999853
No 21
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=80.36 E-value=3 Score=37.68 Aligned_cols=32 Identities=28% Similarity=0.282 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHh
Q psy5110 128 NFGLVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWV 171 (284)
Q Consensus 128 ~~~~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~ 171 (284)
.-.+++||+|||= =...|.=|+|++.++-.+.
T Consensus 196 ~P~T~~HElAHq~------------G~a~E~EANFiayLac~~s 227 (318)
T PF12725_consen 196 LPFTICHELAHQL------------GFASEDEANFIAYLACINS 227 (318)
T ss_pred ccHHHHHHHHHHh------------CCCCHHHHHHHHHHHHhcC
Confidence 3468999999992 2357888999999876543
No 22
>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=78.74 E-value=4.5 Score=32.14 Aligned_cols=19 Identities=26% Similarity=0.071 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHhhhcc
Q psy5110 125 LLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 125 ~~~~~~~iaHEiAHqWfG~ 143 (284)
...+..+|.|||+|.|...
T Consensus 57 ~~~~~~tL~HEm~H~~~~~ 75 (157)
T PF10263_consen 57 EEELIDTLLHEMAHAAAYV 75 (157)
T ss_pred HHHHHHHHHHHHHHHHhhh
Confidence 4578899999999999743
No 23
>PRK04860 hypothetical protein; Provisional
Probab=78.09 E-value=9.7 Score=30.74 Aligned_cols=17 Identities=35% Similarity=0.186 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHhh
Q psy5110 124 GLLENFGLVAHELAHQW 140 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqW 140 (284)
+...+..+|+||+||-|
T Consensus 59 ~~~~l~~~v~HEl~H~~ 75 (160)
T PRK04860 59 QQAFIDEVVPHELAHLL 75 (160)
T ss_pred cHHHHHhHHHHHHHHHH
Confidence 45678899999999986
No 24
>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=71.14 E-value=2.8 Score=34.20 Aligned_cols=13 Identities=46% Similarity=0.636 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHhh
Q psy5110 128 NFGLVAHELAHQW 140 (284)
Q Consensus 128 ~~~~iaHEiAHqW 140 (284)
-..++||||+||+
T Consensus 111 ~~~~~aHElGH~l 123 (173)
T PF13574_consen 111 GIDTFAHELGHQL 123 (173)
T ss_dssp HHHHHHHHHHHHH
T ss_pred eeeeehhhhHhhc
Confidence 4567999999994
No 25
>smart00731 SprT SprT homologues. Predicted to have roles in transcription elongation. Contains a conserved HExxH motif, indicating a metalloprotease function.
Probab=69.52 E-value=3.6 Score=32.56 Aligned_cols=17 Identities=24% Similarity=0.061 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhhhc
Q psy5110 126 LENFGLVAHELAHQWFG 142 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG 142 (284)
..+..+|.|||+|.+..
T Consensus 57 ~~l~~~l~HEm~H~~~~ 73 (146)
T smart00731 57 DRLRETLLHELCHAALY 73 (146)
T ss_pred HHHHhhHHHHHHHHHHH
Confidence 56788999999999865
No 26
>COG2719 SpoVR Uncharacterized conserved protein [Function unknown]
Probab=68.49 E-value=15 Score=34.27 Aligned_cols=97 Identities=11% Similarity=0.100 Sum_probs=56.5
Q ss_pred HHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhh
Q psy5110 131 LVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDS 209 (284)
Q Consensus 131 ~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~ 209 (284)
.|..++|. +|.-.... --||||.|+|-.+.++.+.+-+..+.+.++++-++. .+.-. ..|... |
T Consensus 252 ~ivR~ea~-YF~PQ~qT-----kVMNEGWAtfWHytiln~lydE~~~~~~~~lEfL~~---h~~Vv~qp~~~~----p-- 316 (495)
T COG2719 252 RIVRKEAQ-YFYPQRQT-----KVMNEGWATFWHYTILNHLYDEGKLTERAMLEFLKS---HTNVVFQPPYNS----P-- 316 (495)
T ss_pred HHHHHHHH-HhcchHHH-----HHhhhhHHHHHHHHHHHhhhhhcccChHHHHHHHHh---cCCeeecCCCCC----c--
Confidence 34455554 44433332 369999999999999998886655556655544332 11111 222221 1
Q ss_pred hhhccc-ccccccHHHHHHHHH---------hhC------ChHHHHhhcCCc
Q psy5110 210 ISETFD-HIIYNKGQSPAHVEI---------SHC------PQRVCLESADPP 245 (284)
Q Consensus 210 ~~~~~~-~~~Y~KG~~vl~mL~---------~~l------G~~~F~~~l~~~ 245 (284)
.|+ .-.|.-|..++.-++ ... |.|++..+.+.+
T Consensus 317 ---~ys~iNPYyLGf~m~~DI~~i~~~pt~Edr~wfp~~aGrd~l~~vre~~ 365 (495)
T COG2719 317 ---SYSGINPYYLGFAMFQDIERICQEPTEEDRYWFPDIAGRDTLFFVREIH 365 (495)
T ss_pred ---cccCCChHHHhHHHHHHHHHHhcCCcHHHHhcCCCcccHHHHHHHHHhc
Confidence 122 346889999998883 333 777766665543
No 27
>PRK04351 hypothetical protein; Provisional
Probab=66.67 E-value=13 Score=29.57 Aligned_cols=15 Identities=47% Similarity=0.740 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHh
Q psy5110 125 LLENFGLVAHELAHQ 139 (284)
Q Consensus 125 ~~~~~~~iaHEiAHq 139 (284)
...+..+|+||++|-
T Consensus 58 ~~~l~~vv~HElcH~ 72 (149)
T PRK04351 58 LEELIGIIKHELCHY 72 (149)
T ss_pred HHHHHhhHHHHHHHH
Confidence 567899999999995
No 28
>PRK05457 heat shock protein HtpX; Provisional
Probab=66.37 E-value=13 Score=32.94 Aligned_cols=20 Identities=30% Similarity=0.300 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
..+.+..++|||++|.=-|+
T Consensus 130 ~~~El~aVlAHElgHi~~~d 149 (284)
T PRK05457 130 SRDEVEAVLAHEISHIANGD 149 (284)
T ss_pred CHHHHHHHHHHHHHHHHcCC
Confidence 44678999999999975554
No 29
>PHA02456 zinc metallopeptidase motif-containing protein
Probab=64.40 E-value=4.8 Score=30.15 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhh
Q psy5110 127 ENFGLVAHELAHQW 140 (284)
Q Consensus 127 ~~~~~iaHEiAHqW 140 (284)
.++.+++||++|-|
T Consensus 78 GC~~TL~HEL~H~W 91 (141)
T PHA02456 78 GCRDTLAHELNHAW 91 (141)
T ss_pred chHHHHHHHHHHHH
Confidence 45778999999999
No 30
>PRK04897 heat shock protein HtpX; Provisional
Probab=63.77 E-value=16 Score=32.68 Aligned_cols=20 Identities=25% Similarity=0.255 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
..+.+..++|||++|-=-|+
T Consensus 133 ~~~El~aVlAHElgHi~~~d 152 (298)
T PRK04897 133 NREELEGVIGHEISHIRNYD 152 (298)
T ss_pred CHHHHHHHHHHHHHHHhcCC
Confidence 34678999999999964333
No 31
>PRK03072 heat shock protein HtpX; Provisional
Probab=63.23 E-value=18 Score=32.15 Aligned_cols=19 Identities=32% Similarity=0.399 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q psy5110 124 GLLENFGLVAHELAHQWFG 142 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG 142 (284)
..+.+..++|||++|-==|
T Consensus 123 ~~~El~aVlAHElgHi~~~ 141 (288)
T PRK03072 123 NERELRGVLGHELSHVYNR 141 (288)
T ss_pred CHHHHHHHHHHHHHHHhcC
Confidence 3457889999999996433
No 32
>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=62.31 E-value=7.4 Score=28.68 Aligned_cols=20 Identities=25% Similarity=0.177 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHhhhccccC
Q psy5110 127 ENFGLVAHELAHQWFGNYAT 146 (284)
Q Consensus 127 ~~~~~iaHEiAHqWfG~~Vt 146 (284)
....+++||++|.+++..-.
T Consensus 41 ~~~f~laHELgH~~~~~~~~ 60 (122)
T PF06114_consen 41 RQRFTLAHELGHILLHHGDE 60 (122)
T ss_dssp HHHHHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHHHHhhhccc
Confidence 44679999999999886553
No 33
>PRK03001 M48 family peptidase; Provisional
Probab=62.25 E-value=20 Score=31.67 Aligned_cols=18 Identities=44% Similarity=0.414 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHhhh
Q psy5110 124 GLLENFGLVAHELAHQWF 141 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWf 141 (284)
....+..++|||++|-==
T Consensus 120 ~~~El~aVlAHElgHi~~ 137 (283)
T PRK03001 120 SEREIRGVMAHELAHVKH 137 (283)
T ss_pred CHHHHHHHHHHHHHHHhC
Confidence 356789999999999743
No 34
>PF08325 WLM: WLM domain; InterPro: IPR013536 The WLM (WSS1-like metalloprotease) domain is a globular domain related to the zincin-like superfamily of Zn-dependent peptidase. Since the WLM domain contains all known active site residues of zincins, it is predicted to be a catalytically active peptidase domain. The WLM domain is a eukaryotic domain represented in plants, fungi, Plasmodium, and kinetoplastids. By contrast, it is absent in animals, Cryptosporidium, and Microsporidia, suggesting that it has been lost on multiple occasions during the evolution of eukaryotes. The WLM domain is found either in stand-alone form or in association with other domains such as the RanBP2 zinc finger , the ubiquitin domain, or the PUB/PUG domain. This domain could function as a specific de-SUMOylating domain of distinct protein complexes in the nucleus and the cytoplasm []. It has been suggested to form a segregated alpha/beta structure with eight helices and five strands. Proteins containign this domain include yeast WSS1 (a weak suppressor of the Ub-related protein SMT3), and various putative metalloproteases from plant and fungal species.
Probab=61.62 E-value=47 Score=27.48 Aligned_cols=21 Identities=33% Similarity=0.396 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHhhhcc
Q psy5110 123 AGLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 123 ~~~~~~~~~iaHEiAHqWfG~ 143 (284)
-....+..++.||+||.++|+
T Consensus 77 l~~~~i~~t~lHELaH~~~~~ 97 (186)
T PF08325_consen 77 LPYETILGTMLHELAHNVHGP 97 (186)
T ss_pred eeHHHHHHHHHHHHHhcccCC
Confidence 344578899999999998876
No 35
>KOG2661|consensus
Probab=61.44 E-value=5.6 Score=35.79 Aligned_cols=22 Identities=18% Similarity=0.037 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHhhhccc
Q psy5110 123 AGLLENFGLVAHELAHQWFGNY 144 (284)
Q Consensus 123 ~~~~~~~~~iaHEiAHqWfG~~ 144 (284)
.++..+..+++||+|||=-++.
T Consensus 270 k~ddglAtvLgHE~aHaVarH~ 291 (424)
T KOG2661|consen 270 KDDDGLATVLGHEIAHAVARHA 291 (424)
T ss_pred cChHHHHHHHHHHHHHHHHHHH
Confidence 3455688999999999965543
No 36
>PRK03982 heat shock protein HtpX; Provisional
Probab=61.09 E-value=21 Score=31.66 Aligned_cols=20 Identities=35% Similarity=0.287 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
..+.+..++|||++|-==++
T Consensus 121 ~~~El~AVlAHElgHi~~~h 140 (288)
T PRK03982 121 NEDELEGVIAHELTHIKNRD 140 (288)
T ss_pred CHHHHHHHHHHHHHHHHcCC
Confidence 35678999999999974433
No 37
>KOG0212|consensus
Probab=61.04 E-value=3.4 Score=39.73 Aligned_cols=67 Identities=18% Similarity=0.121 Sum_probs=45.5
Q ss_pred ccccccHHHHHHHHHhhCChHHHHhhcCCc----------------hhhhhhh-HHHH-hhhcC---ccccccccccccc
Q psy5110 216 HIIYNKGQSPAHVEISHCPQRVCLESADPP----------------LVICLVT-DKLY-LRHEW---GLVEVKIPIRDVP 274 (284)
Q Consensus 216 ~~~Y~KG~~vl~mL~~~lG~~~F~~~l~~~----------------l~~~~~~-~~y~-~~~~~---~~~~~~~~~~~~~ 274 (284)
.+.+.+|+.++|.|.-.+..|...+.+..- |+-.+++ ...| -++.- ++.+.+..+.-+.
T Consensus 429 ~~l~~Rg~lIIRqlC~lL~aE~IYr~~a~ILe~e~nl~FAstMV~~Ln~iLlTStELf~LR~~Lk~lsn~es~~lF~cLy 508 (675)
T KOG0212|consen 429 KLLEVRGNLIIRQLCLLLNAERIYRSIADILEREENLKFASTMVQALNTILLTSTELFQLRNKLKDLSNEESQNLFCCLY 508 (675)
T ss_pred HHHHhhhhHHHHHHHHHhCHHHHHHHHHHHHhccccchHHHHHHHHHHhhhcccHHHHHHHHHHHhccChhhhHHHHHHH
Confidence 468899999999999999988765555432 4444443 1111 22222 3455667888899
Q ss_pred CCCCCCCC
Q psy5110 275 QDPCVNPP 282 (284)
Q Consensus 275 ~~w~~~~~ 282 (284)
++||+||-
T Consensus 509 ~sWchnPv 516 (675)
T KOG0212|consen 509 RSWCHNPV 516 (675)
T ss_pred HHHcCCcH
Confidence 99999994
No 38
>PRK01345 heat shock protein HtpX; Provisional
Probab=60.39 E-value=21 Score=32.23 Aligned_cols=20 Identities=40% Similarity=0.366 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
..+.+..++|||++|.==++
T Consensus 120 ~~dEL~aVlAHElgHi~~~d 139 (317)
T PRK01345 120 SPEEVAGVMAHELAHVKNRD 139 (317)
T ss_pred CHHHHHHHHHHHHHHHHcCC
Confidence 34578999999999984443
No 39
>PF15641 Tox-MPTase5: Metallopeptidase toxin 5
Probab=60.00 E-value=17 Score=25.96 Aligned_cols=25 Identities=24% Similarity=0.383 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHH-HHHHhhhccccCc
Q psy5110 123 AGLLENFGLVAH-ELAHQWFGNYATP 147 (284)
Q Consensus 123 ~~~~~~~~~iaH-EiAHqWfG~~Vt~ 147 (284)
+....+..+|+| |+-|.||..-+..
T Consensus 59 ~sra~lr~~iiheelhhrw~~rgl~~ 84 (109)
T PF15641_consen 59 SSRAELRNTIIHEELHHRWWKRGLNN 84 (109)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 444456667777 5667788655443
No 40
>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=59.85 E-value=35 Score=26.93 Aligned_cols=34 Identities=3% Similarity=-0.078 Sum_probs=21.3
Q ss_pred ceeEEEecCCcc---chHhHHHHHHHHHHHHHHHhcC
Q psy5110 52 VVFSPWSVRNVR---TYYRFKWEKVESCEQNISRTAS 85 (284)
Q Consensus 52 v~i~v~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~ 85 (284)
.+|++|..+... .......+.++++++..++...
T Consensus 2 ~~i~~~i~~~~~~~~~~~~~~~~~v~~A~~~W~~~~~ 38 (156)
T cd04279 2 SPIRVYIDPTPAPPDSRAQSWLQAVKQAAAEWENVGP 38 (156)
T ss_pred CCeEEEEcCCCCccccchHHHHHHHHHHHHHHHHhCC
Confidence 356888877643 2334456677777777777643
No 41
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=59.49 E-value=27 Score=28.82 Aligned_cols=17 Identities=29% Similarity=0.090 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHhhhc
Q psy5110 126 LENFGLVAHELAHQWFG 142 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG 142 (284)
..+..+|+||+||--..
T Consensus 162 ~~idYVvvHEL~Hl~~~ 178 (205)
T PF01863_consen 162 EVIDYVVVHELCHLRHP 178 (205)
T ss_pred cHHHHHHHHHHHHhccC
Confidence 45789999999998643
No 42
>PRK02391 heat shock protein HtpX; Provisional
Probab=57.91 E-value=26 Score=31.22 Aligned_cols=20 Identities=30% Similarity=0.182 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
....+..++|||++|--=++
T Consensus 129 ~~~El~aVlaHElgHi~~~d 148 (296)
T PRK02391 129 DPDELEAVLAHELSHVKNRD 148 (296)
T ss_pred CHHHHHHHHHHHHHHHHcCC
Confidence 34678899999999975444
No 43
>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=57.49 E-value=6.9 Score=32.26 Aligned_cols=18 Identities=28% Similarity=0.381 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHhhhccc
Q psy5110 126 LENFGLVAHELAHQWFGNY 144 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG~~ 144 (284)
.....++||||+|. ||..
T Consensus 140 ~~~~~~~AHEiGH~-lGa~ 157 (196)
T PF13688_consen 140 YNGAITFAHEIGHN-LGAP 157 (196)
T ss_dssp HHHHHHHHHHHHHH-TT--
T ss_pred CceehhhHHhHHHh-cCCC
Confidence 34568999999999 4543
No 44
>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=56.91 E-value=7.9 Score=32.42 Aligned_cols=23 Identities=26% Similarity=0.167 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHhhhccccCc
Q psy5110 125 LLENFGLVAHELAHQWFGNYATP 147 (284)
Q Consensus 125 ~~~~~~~iaHEiAHqWfG~~Vt~ 147 (284)
...+..++|||++|---++..-.
T Consensus 86 ~~el~aVlaHElgH~~~~h~~~~ 108 (226)
T PF01435_consen 86 EDELAAVLAHELGHIKHRHILKS 108 (226)
T ss_dssp HHHHHHHHHHHHHHHHTTHCCCC
T ss_pred HHHHHHHHHHHHHHHHcCCcchH
Confidence 45688999999999987766544
No 45
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=54.90 E-value=8.6 Score=33.90 Aligned_cols=23 Identities=26% Similarity=0.065 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHhhhccccC
Q psy5110 124 GLLENFGLVAHELAHQWFGNYAT 146 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~~Vt 146 (284)
..+.+..+++||++|.=-++.+.
T Consensus 153 ~~dEl~aVlaHElgHi~~rd~~~ 175 (302)
T COG0501 153 NDDELEAVLAHELGHIKNRHTLV 175 (302)
T ss_pred CHHHHHHHHHHHHHHHhcccHHH
Confidence 45578999999999986655443
No 46
>COG1451 Predicted metal-dependent hydrolase [General function prediction only]
Probab=53.76 E-value=23 Score=30.19 Aligned_cols=20 Identities=35% Similarity=0.013 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHhhhcc
Q psy5110 124 GLLENFGLVAHELAHQWFGN 143 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHqWfG~ 143 (284)
....+..+++||+||-=..|
T Consensus 171 p~~~i~YVvvHELaHLke~n 190 (223)
T COG1451 171 PEEVIDYVVVHELAHLKEKN 190 (223)
T ss_pred CHHHHHHHHHHHHHHHhhhh
Confidence 34567899999999997777
No 47
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=52.55 E-value=32 Score=29.05 Aligned_cols=13 Identities=38% Similarity=0.440 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhh
Q psy5110 128 NFGLVAHELAHQW 140 (284)
Q Consensus 128 ~~~~iaHEiAHqW 140 (284)
...++|||++|..
T Consensus 145 ~~~~~AHElGH~l 157 (220)
T cd04272 145 GVYTMTHELAHLL 157 (220)
T ss_pred cHHHHHHHHHHHh
Confidence 4689999999983
No 48
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=51.80 E-value=8.4 Score=27.11 Aligned_cols=12 Identities=58% Similarity=0.650 Sum_probs=10.0
Q ss_pred HHHHHHHHHHhh
Q psy5110 129 FGLVAHELAHQW 140 (284)
Q Consensus 129 ~~~iaHEiAHqW 140 (284)
..+++||++|-+
T Consensus 62 ~~llaHEl~Hv~ 73 (79)
T PF13699_consen 62 RALLAHELAHVV 73 (79)
T ss_pred chhHhHHHHHHH
Confidence 568999999964
No 49
>PRK02870 heat shock protein HtpX; Provisional
Probab=48.25 E-value=13 Score=33.88 Aligned_cols=16 Identities=38% Similarity=0.356 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQ 139 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHq 139 (284)
....+..++|||++|-
T Consensus 169 ~~dEL~aVlAHELgHi 184 (336)
T PRK02870 169 DRDELQAVMAHELSHI 184 (336)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 4567899999999996
No 50
>COG3091 SprT Zn-dependent metalloprotease, SprT family [General function prediction only]
Probab=46.68 E-value=16 Score=29.03 Aligned_cols=16 Identities=44% Similarity=0.295 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQ 139 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHq 139 (284)
+...+..+|.||+||-
T Consensus 57 ~~~f~~~vV~HELaHl 72 (156)
T COG3091 57 GEDFIEQVVPHELAHL 72 (156)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 4557889999999985
No 51
>PRK11767 SpoVR family protein; Provisional
Probab=46.36 E-value=37 Score=32.47 Aligned_cols=86 Identities=16% Similarity=0.172 Sum_probs=46.5
Q ss_pred HHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccC-CCCcccCCCChhh
Q psy5110 131 LVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKG-SHAMTSETTTPDS 209 (284)
Q Consensus 131 ~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~-~~Pl~~~~~~~~~ 209 (284)
.|+.+.|.=++.-.-| --||||.|+|--+.++.+++.+..+.+.+.++-++ .-+.. ..|-. .+|.
T Consensus 255 ~IVR~ea~YF~PQ~qT------KIMNEGWAsyWH~~im~~l~d~~~l~~~~~lef~~----~H~~Vv~qp~~---~~p~- 320 (498)
T PRK11767 255 RIVRKIAQYFYPQRQT------QVMNEGWATFWHYTILNHLYDEGLVTDGFMLEFLH----SHTNVVFQPPY---NSPY- 320 (498)
T ss_pred HHHHHHHHhccchhhh------hHHhhHhHHHHHHHHHHHhhhcCCCCcHHHHHHHH----hcCCeeecCCC---CCCC-
Confidence 4555655443333333 36899999999999999886443332333232221 11111 11211 0110
Q ss_pred hhhcccccccccHHHHHHHHHhhC
Q psy5110 210 ISETFDHIIYNKGQSPAHVEISHC 233 (284)
Q Consensus 210 ~~~~~~~~~Y~KG~~vl~mL~~~l 233 (284)
--.-..|.=|..++.-++...
T Consensus 321 ---~~giNPY~LGf~m~~DIer~~ 341 (498)
T PRK11767 321 ---YSGINPYALGFAMFQDIRRIC 341 (498)
T ss_pred ---CCCCCcHHHHHHHHHHHHHHH
Confidence 011246889999999997776
No 52
>PF13582 Reprolysin_3: Metallo-peptidase family M12B Reprolysin-like; PDB: 3P24_C.
Probab=45.45 E-value=13 Score=28.03 Aligned_cols=11 Identities=36% Similarity=0.637 Sum_probs=9.7
Q ss_pred HHHHHHHHHHh
Q psy5110 129 FGLVAHELAHQ 139 (284)
Q Consensus 129 ~~~iaHEiAHq 139 (284)
..+++|||+|+
T Consensus 108 ~~~~~HEiGH~ 118 (124)
T PF13582_consen 108 VDTFAHEIGHN 118 (124)
T ss_dssp TTHHHHHHHHH
T ss_pred ceEeeehhhHh
Confidence 37899999998
No 53
>PF09768 Peptidase_M76: Peptidase M76 family; InterPro: IPR019165 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 []. Mitochondrial inner membrane protease ATP23 has two roles in the assembly of mitochondrial ATPase. Firstly, it acts as a protease that removes the N-terminal 10 residues of mitochondrial ATPase CF(0) subunit 6 (ATP6) at the intermembrane space side. Secondly, it is involved in the correct assembly of the membrane-embedded ATPase CF(0) particle, probably mediating association of ATP6 with the subunit 9 ring [, ].; GO: 0004222 metalloendopeptidase activity
Probab=45.33 E-value=86 Score=25.64 Aligned_cols=19 Identities=21% Similarity=0.184 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q psy5110 122 AAGLLENFGLVAHELAHQW 140 (284)
Q Consensus 122 ~~~~~~~~~~iaHEiAHqW 140 (284)
......+..+|+|||.|-|
T Consensus 65 ~~~~~~l~~~l~HELIHay 83 (173)
T PF09768_consen 65 IRSQGHLEDTLTHELIHAY 83 (173)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 3456678899999999986
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=45.23 E-value=12 Score=29.80 Aligned_cols=24 Identities=0% Similarity=-0.307 Sum_probs=17.9
Q ss_pred chHhHHHHHHHHHHHHHHHhcCCC
Q psy5110 64 TYYRFKWEKVESCEQNISRTASPL 87 (284)
Q Consensus 64 ~~~~~~~~~~~~~l~~~~~~~~~~ 87 (284)
..+..+...+..+.+|+.+.++..
T Consensus 67 ~~~vdA~~~~~~v~d~y~~~~gr~ 90 (150)
T PF01447_consen 67 SAAVDAHYNAGKVYDYYKNVFGRN 90 (150)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSS-
T ss_pred cHHHHHHHhHHHHHHHHHHHHCCC
Confidence 345566777788899999999863
No 55
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=44.91 E-value=14 Score=34.88 Aligned_cols=20 Identities=35% Similarity=0.400 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHhhhcccc
Q psy5110 126 LENFGLVAHELAHQWFGNYA 145 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG~~V 145 (284)
..+..|||||++|-==++++
T Consensus 128 sElagViAHEigHv~qrH~a 147 (484)
T COG4783 128 SELAGVIAHEIGHVAQRHLA 147 (484)
T ss_pred HHHHHHHHHHHHHHhhhhHH
Confidence 35789999999996444444
No 56
>PRK01265 heat shock protein HtpX; Provisional
Probab=44.72 E-value=16 Score=33.13 Aligned_cols=16 Identities=31% Similarity=0.275 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQ 139 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHq 139 (284)
..+.+..++|||++|-
T Consensus 136 ~~~El~aVlAHElgHi 151 (324)
T PRK01265 136 NRDEIKAVAGHELGHL 151 (324)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 3467889999999996
No 57
>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=44.58 E-value=15 Score=30.19 Aligned_cols=14 Identities=36% Similarity=0.271 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHhh
Q psy5110 127 ENFGLVAHELAHQW 140 (284)
Q Consensus 127 ~~~~~iaHEiAHqW 140 (284)
....++||||+|+.
T Consensus 130 ~~a~~~AHElGH~l 143 (194)
T cd04269 130 LFAVTMAHELGHNL 143 (194)
T ss_pred HHHHHHHHHHHhhc
Confidence 45789999999994
No 58
>COG2856 Predicted Zn peptidase [Amino acid transport and metabolism]
Probab=44.46 E-value=39 Score=28.64 Aligned_cols=43 Identities=19% Similarity=0.064 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhhhccccC-----cccccchhhcchHHHHHHHHHH
Q psy5110 126 LENFGLVAHELAHQWFGNYAT-----PSWWSYAWLKESVATLFEYYVV 168 (284)
Q Consensus 126 ~~~~~~iaHEiAHqWfG~~Vt-----~~~w~~~WL~Eg~a~y~~~~~~ 168 (284)
..-..++|||++|-|+.--.. ...+...=.-|..|++++..++
T Consensus 70 ~r~rFtlAHELGH~llH~~~~~~~~~~~~~~~~~~~E~~AN~FAa~lL 117 (213)
T COG2856 70 ERKRFTLAHELGHALLHTDLNTRFDAEPTLQQDRKIEAEANAFAAELL 117 (213)
T ss_pred HHHHHHHHHHHhHHHhccccchhhhcccccchhHHHHHHHHHHHHHHh
Confidence 344679999999999985531 1222333346777787777654
No 59
>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=43.94 E-value=41 Score=27.73 Aligned_cols=14 Identities=43% Similarity=0.586 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHh
Q psy5110 126 LENFGLVAHELAHQ 139 (284)
Q Consensus 126 ~~~~~~iaHEiAHq 139 (284)
.....++||||+|.
T Consensus 129 ~~~a~~~AHelGH~ 142 (199)
T PF01421_consen 129 LSFAVIIAHELGHN 142 (199)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHh
Confidence 45678999999997
No 60
>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=42.87 E-value=16 Score=31.61 Aligned_cols=15 Identities=47% Similarity=0.700 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHhhhcc
Q psy5110 128 NFGLVAHELAHQWFGN 143 (284)
Q Consensus 128 ~~~~iaHEiAHqWfG~ 143 (284)
...++||||+|. ||.
T Consensus 167 ~a~t~AHElGHn-lGm 181 (244)
T cd04270 167 SDLVTAHELGHN-FGS 181 (244)
T ss_pred HHHHHHHHHHHh-cCC
Confidence 457999999999 454
No 61
>PF14891 Peptidase_M91: Effector protein
Probab=40.73 E-value=19 Score=29.32 Aligned_cols=15 Identities=33% Similarity=0.487 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHhhh
Q psy5110 127 ENFGLVAHELAHQWF 141 (284)
Q Consensus 127 ~~~~~iaHEiAHqWf 141 (284)
....+++|||+|-|=
T Consensus 102 ~p~v~L~HEL~HA~~ 116 (174)
T PF14891_consen 102 PPFVVLYHELIHAYD 116 (174)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456899999999983
No 62
>KOG2719|consensus
Probab=37.63 E-value=78 Score=29.76 Aligned_cols=15 Identities=40% Similarity=0.419 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHh
Q psy5110 125 LLENFGLVAHELAHQ 139 (284)
Q Consensus 125 ~~~~~~~iaHEiAHq 139 (284)
.+.+..+++||++|-
T Consensus 277 ~eel~AVl~HELGHW 291 (428)
T KOG2719|consen 277 NEELVAVLAHELGHW 291 (428)
T ss_pred cHHHHHHHHHHhhHH
Confidence 467889999999994
No 63
>PF04293 SpoVR: SpoVR like protein; InterPro: IPR007390 One of the family members P37875 from SWISSPROT is Bacillus subtilis stage V sporulation protein R, which is involved in spore cortex formation []. Little is known about cortex biosynthesis, except that it depends on several sigma E controlled genes, including spoVR [].
Probab=36.84 E-value=80 Score=29.74 Aligned_cols=89 Identities=13% Similarity=0.016 Sum_probs=50.7
Q ss_pred HHHHHHHHhhhccccCcccccchhhcchHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHhhcccCCCCcccCCCChhhh
Q psy5110 131 LVAHELAHQWFGNYATPSWWSYAWLKESVATLFEYYVVSWVEPTWRMEDLFVVEQVQVAFNSDLKGSHAMTSETTTPDSI 210 (284)
Q Consensus 131 ~iaHEiAHqWfG~~Vt~~~w~~~WL~Eg~a~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~Pl~~~~~~~~~~ 210 (284)
.|+.+.|.=.+.-.-| --||||+|+|--..++.+..-.. ...++-+ ..-+....|..
T Consensus 246 ~iVR~ea~YF~PQ~qT------KIMNEGWAsywH~~im~~l~l~~----~~~~efa----~~ha~V~~~~~--------- 302 (426)
T PF04293_consen 246 RIVREEAQYFYPQIQT------KIMNEGWASYWHYRIMRELDLTD----GEFLEFA----RSHAGVVAPSY--------- 302 (426)
T ss_pred HHHHHHHHHhcchhhh------hhhccchHHHHHHHHHhhccCCc----hHHHHHH----HHccCeeCCCC---------
Confidence 3445555443333333 24999999999999998773211 1111111 11111111111
Q ss_pred hhcccccccccHHHHHHHHHhhC------------------ChHHHHhhcCCc
Q psy5110 211 SETFDHIIYNKGQSPAHVEISHC------------------PQRVCLESADPP 245 (284)
Q Consensus 211 ~~~~~~~~Y~KG~~vl~mL~~~l------------------G~~~F~~~l~~~ 245 (284)
-+-..|.=|..++.-++... |.++.+.+.+.|
T Consensus 303 ---~glNPY~LG~~l~~dIe~~~~~~~~ed~~~f~di~~~~g~~~ifevr~~~ 352 (426)
T PF04293_consen 303 ---SGLNPYALGFRLFEDIERRWNKPTFEDREWFPDIAGNDGREKIFEVRENY 352 (426)
T ss_pred ---CCCCcHHHHHHHHHHHHHHHhcCChhHHHHhhhccCCcHHHHHHHHHHhc
Confidence 11235888888998888888 888888777766
No 64
>PF01431 Peptidase_M13: Peptidase family M13 This is family M13 in the peptidase classification. ; InterPro: IPR018497 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 M13 (neprilysin family, clan MA(E)). 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 []. M13 peptidases are well-studied proteases found in a wide range of organisms including mammals and bacteria. In mammals they participate in processes such as cardiovascular development, blood-pressure regulation, nervous control of respiration, and regulation of the function of neuropeptides in the central nervous system. In bacteria they may be used for digestion of milk [, ]. The family includes eukaryotic and prokaryotic oligopeptidases, as well as some of the proteins responsible for the molecular basis of the blood group antigens e.g. Kell []. Neprilysin (3.4.24.11 from EC), is another member of this group, it is variously known as common acute lymphoblastic leukemia antigen (CALLA), enkephalinase (gp100) and neutral endopeptidase metalloendopeptidase (NEP). It is a plasma membrane-bound mammalian enzyme that is able to digest biologically-active peptides, including enkephalins []. The zinc ligands of neprilysin are known and are analogous to those in thermolysin, a related peptidase [, ]. Neprilysins, like thermolysin, are inhibited by phosphoramidon, which appears to selectively inhibit this family in mammals. The enzymes are all oligopeptidases, digesting oligo- and polypeptides, but not proteins []. Neprilysin consists of a short cytoplasmic domain, a membrane-spanning region and a large extracellular domain. The cytoplasmic domain contains a conformationally-restrained octapeptide, which is thought to act as a stop transfer sequence that prevents proteolysis and secretion [, ].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QPJ_A 1R1I_A 1R1J_A 1Y8J_A 1R1H_A 1DMT_A 2YB9_A 3DWB_A 3ZUK_A.
Probab=35.56 E-value=58 Score=26.94 Aligned_cols=67 Identities=19% Similarity=0.064 Sum_probs=33.6
Q ss_pred ceeEEEeCCCCCCccccccccccCCCCcHHHHHHHHHHHHHHHHHhhhccccCcc---cccchhhcchHHHHHHH
Q psy5110 94 MSLVLFLPPVSMLCSSELYGLADSNRTTAAGLLENFGLVAHELAHQWFGNYATPS---WWSYAWLKESVATLFEY 165 (284)
Q Consensus 94 k~diV~~P~~~~~~~mE~~gl~~~~~~~~~~~~~~~~~iaHEiAHqWfG~~Vt~~---~w~~~WL~Eg~a~y~~~ 165 (284)
..+.|.+|. +.+..+ +++...........+-.+|||||.|-.-...+..+ ...+.|-.+....|.+.
T Consensus 7 ~~N~i~ip~----~~l~~P-~f~~~~p~~~~yg~lG~ilahel~hafd~~g~~~D~~g~~~~wWs~~~~~~~~~~ 76 (206)
T PF01431_consen 7 RFNSIVIPA----GILQPP-FFDPNYPPALNYGGLGFILAHELMHAFDPEGINYDEDGNLRNWWSEESRSNFKER 76 (206)
T ss_dssp TTTEEEEEG----GGSSTT-T--TTS-HHHHHHTHHHHHHHHHHHCTSTTGGGB-TTS-BS--S-HHHHHHHHHH
T ss_pred ccCEEEecH----HHhCCc-cCCCCCCHHHHHHHHHHHHHHHHHHHHHHhHhhcCcccccccccchhhHHHHHHH
Confidence 345666663 234444 22333333444556778999999999744333331 23345656666666544
No 65
>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=35.52 E-value=18 Score=29.63 Aligned_cols=16 Identities=38% Similarity=0.476 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHhhhcc
Q psy5110 127 ENFGLVAHELAHQWFGN 143 (284)
Q Consensus 127 ~~~~~iaHEiAHqWfG~ 143 (284)
....++|||++|. ||.
T Consensus 132 ~~~~~~aHElGH~-lG~ 147 (192)
T cd04267 132 LTALTMAHELGHN-LGA 147 (192)
T ss_pred eehhhhhhhHHhh-cCC
Confidence 3467999999997 443
No 66
>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=33.25 E-value=30 Score=27.00 Aligned_cols=13 Identities=23% Similarity=0.445 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHh
Q psy5110 127 ENFGLVAHELAHQ 139 (284)
Q Consensus 127 ~~~~~iaHEiAHq 139 (284)
.+..++.|||+|-
T Consensus 104 ~~~~v~~HEiGHa 116 (154)
T PF00413_consen 104 DLQSVAIHEIGHA 116 (154)
T ss_dssp EHHHHHHHHHHHH
T ss_pred hhhhhhhhccccc
Confidence 4678999999997
No 67
>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=30.17 E-value=43 Score=26.42 Aligned_cols=14 Identities=29% Similarity=0.290 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHh
Q psy5110 126 LENFGLVAHELAHQ 139 (284)
Q Consensus 126 ~~~~~~iaHEiAHq 139 (284)
.....+++|||.|-
T Consensus 92 ~~~~~~~~HEiGHa 105 (165)
T cd04268 92 ARLRNTAEHELGHA 105 (165)
T ss_pred HHHHHHHHHHHHHH
Confidence 34678999999997
No 68
>KOG3607|consensus
Probab=28.50 E-value=1.9e+02 Score=29.27 Aligned_cols=85 Identities=16% Similarity=0.071 Sum_probs=38.8
Q ss_pred eeEEEecCCccchHhHHHHHHHHHHHHHHHhcCCCCCccCCceeEEEe-CCCCCCccccccccc-cCCC------CcHHH
Q psy5110 53 VFSPWSVRNVRTYYRFKWEKVESCEQNISRTASPLFILPLSMSLVLFL-PPVSMLCSSELYGLA-DSNR------TTAAG 124 (284)
Q Consensus 53 ~i~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~yP~~k~diV~~-P~~~~~~~mE~~gl~-~~~~------~~~~~ 124 (284)
.+.+|..++.......+-+.+..-+.+=..+... ..|.+...++.. -......|+...|-+ .... .....
T Consensus 242 ~lE~Wt~~dki~~~~~~~~tL~~F~~wr~~~l~~--r~~hD~a~L~~~~~~~~~~~G~a~~~~mCs~~~s~gv~~~~~~~ 319 (716)
T KOG3607|consen 242 GLEIWTDGNKIDVSEDLRETLHNFLKWRKSYLTT--RLPHDAAHLLSGILFYGKYVGLAYFGGMCSPGHSGGVNKFHSDI 319 (716)
T ss_pred EEEecCCCCeecccccHHHHHHHHHHHHHhhccc--cCCCCceEEEEeeeccCceeceeecccccCcccccceeecCccc
Confidence 3578998887765544444444433333332321 224444333332 111122233333211 1000 00011
Q ss_pred HHHHHHHHHHHHHHh
Q psy5110 125 LLENFGLVAHELAHQ 139 (284)
Q Consensus 125 ~~~~~~~iaHEiAHq 139 (284)
......++||||+|.
T Consensus 320 ~~~~a~v~AhelgH~ 334 (716)
T KOG3607|consen 320 LLAFAVVLAHELGHN 334 (716)
T ss_pred chhHHHHHHHHHHhh
Confidence 345678999999998
No 69
>COG3824 Predicted Zn-dependent protease [General function prediction only]
Probab=28.34 E-value=30 Score=26.41 Aligned_cols=13 Identities=23% Similarity=0.483 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHh
Q psy5110 127 ENFGLVAHELAHQ 139 (284)
Q Consensus 127 ~~~~~iaHEiAHq 139 (284)
.+..++.|||+|+
T Consensus 108 ~vthvliHEIgHh 120 (136)
T COG3824 108 QVTHVLIHEIGHH 120 (136)
T ss_pred Hhhhhhhhhhhhh
Confidence 4567999999998
No 70
>PF14521 Aspzincin_M35: Lysine-specific metallo-endopeptidase ; PDB: 2X3C_A 2X3A_A 2X3B_A 1GE7_B 1GE6_A 1GE5_A 1G12_A.
Probab=27.22 E-value=41 Score=26.60 Aligned_cols=13 Identities=31% Similarity=0.432 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHh
Q psy5110 127 ENFGLVAHELAHQ 139 (284)
Q Consensus 127 ~~~~~iaHEiAHq 139 (284)
.-..+|+||++|.
T Consensus 95 Sk~~TLiHE~SHf 107 (148)
T PF14521_consen 95 SKEGTLIHEWSHF 107 (148)
T ss_dssp -HHHHHHHHHHHS
T ss_pred chHHHHHHhhhhh
Confidence 4478999999993
No 71
>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=26.82 E-value=46 Score=25.78 Aligned_cols=15 Identities=33% Similarity=0.395 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHh
Q psy5110 125 LLENFGLVAHELAHQ 139 (284)
Q Consensus 125 ~~~~~~~iaHEiAHq 139 (284)
.....++.+||+.|-
T Consensus 74 gy~~~RIaaHE~GHi 88 (132)
T PF02031_consen 74 GYNSTRIAAHELGHI 88 (132)
T ss_dssp HS-HHHHHHHHHHHH
T ss_pred CCccceeeeehhccc
Confidence 334667999999997
No 72
>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=26.64 E-value=50 Score=26.93 Aligned_cols=23 Identities=22% Similarity=0.141 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHhhhccccCcccc
Q psy5110 128 NFGLVAHELAHQWFGNYATPSWW 150 (284)
Q Consensus 128 ~~~~iaHEiAHqWfG~~Vt~~~w 150 (284)
...++.||++|-+.+...+.+..
T Consensus 7 ~i~i~~HE~gH~~~a~~~G~~~~ 29 (192)
T PF02163_consen 7 LISIVLHELGHALAARLYGDKVP 29 (192)
T ss_dssp HHHHHHHHHHHHHHHHTTT--B-
T ss_pred ccccccccccccccccccccccc
Confidence 45689999999999888776543
No 73
>cd04271 ZnMc_ADAM_fungal Zinc-dependent metalloprotease, ADAM_fungal subgroup. The adamalysin_like or ADAM (A Disintegrin And Metalloprotease) family of metalloproteases are integral membrane proteases acting on a variety of extracellular targets. They are involved in shedding soluble peptides or proteins from the cell surface. This subfamily contains fungal ADAMs, whose precise function has yet to be determined.
Probab=26.47 E-value=25 Score=30.10 Aligned_cols=13 Identities=46% Similarity=0.910 Sum_probs=10.6
Q ss_pred HHHHHHHHHhhhcc
Q psy5110 130 GLVAHELAHQWFGN 143 (284)
Q Consensus 130 ~~iaHEiAHqWfG~ 143 (284)
.++||||+|. ||.
T Consensus 147 ~t~AHElGHn-LGm 159 (228)
T cd04271 147 QVFAHEIGHT-FGA 159 (228)
T ss_pred eehhhhhhhh-cCC
Confidence 4899999999 554
No 74
>PF08219 TOM13: Outer membrane protein TOM13; InterPro: IPR013262 The TOM13 family of proteins are mitochondrial outer membrane proteins that mediate the assembly of beta-barrel proteins [].; GO: 0005741 mitochondrial outer membrane
Probab=25.32 E-value=51 Score=22.95 Aligned_cols=19 Identities=37% Similarity=0.401 Sum_probs=12.9
Q ss_pred HHHHHHHHHHhh--hccccCc
Q psy5110 129 FGLVAHELAHQW--FGNYATP 147 (284)
Q Consensus 129 ~~~iaHEiAHqW--fG~~Vt~ 147 (284)
-+++|||+++.| .|--|-|
T Consensus 53 GEl~AhE~~fr~gW~g~ki~P 73 (77)
T PF08219_consen 53 GELFAHEIAFRLGWSGTKIFP 73 (77)
T ss_pred HHHHHHHHHHHhccCcceecC
Confidence 478999999874 4444433
No 75
>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=25.05 E-value=44 Score=28.24 Aligned_cols=14 Identities=21% Similarity=0.216 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHh
Q psy5110 126 LENFGLVAHELAHQ 139 (284)
Q Consensus 126 ~~~~~~iaHEiAHq 139 (284)
.....+|+|||.|-
T Consensus 131 ~~~~hvi~HEiGH~ 144 (211)
T PF12388_consen 131 NVIEHVITHEIGHC 144 (211)
T ss_pred hHHHHHHHHHhhhh
Confidence 34567999998886
No 76
>PF13583 Reprolysin_4: Metallo-peptidase family M12B Reprolysin-like
Probab=25.01 E-value=40 Score=28.27 Aligned_cols=12 Identities=33% Similarity=0.673 Sum_probs=9.8
Q ss_pred HHHHHHHHHHhh
Q psy5110 129 FGLVAHELAHQW 140 (284)
Q Consensus 129 ~~~iaHEiAHqW 140 (284)
..+++|||+|..
T Consensus 138 ~~~~aHEiGH~l 149 (206)
T PF13583_consen 138 YQTFAHEIGHNL 149 (206)
T ss_pred chHHHHHHHHHh
Confidence 367999999983
No 77
>PF06262 DUF1025: Possibl zinc metallo-peptidase; InterPro: IPR010428 This is a family of bacterial protein with undetermined function.; PDB: 3E11_A.
Probab=24.43 E-value=75 Score=23.31 Aligned_cols=16 Identities=25% Similarity=0.117 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQ 139 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHq 139 (284)
....+..++.||+||.
T Consensus 69 L~~~I~~tlvhEiah~ 84 (97)
T PF06262_consen 69 LAELIRDTLVHEIAHH 84 (97)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4445788999999998
No 78
>PF04228 Zn_peptidase: Putative neutral zinc metallopeptidase; InterPro: IPR007343 Members of this family of bacterial proteins are described as hypothetical proteins or zinc metallopeptidases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=23.88 E-value=60 Score=28.96 Aligned_cols=12 Identities=33% Similarity=0.492 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHh
Q psy5110 128 NFGLVAHELAHQ 139 (284)
Q Consensus 128 ~~~~iaHEiAHq 139 (284)
...+||||..|+
T Consensus 170 ~ayVlAHEyGHH 181 (292)
T PF04228_consen 170 QAYVLAHEYGHH 181 (292)
T ss_pred HHHHHHHHHHHH
Confidence 467999999998
No 79
>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=23.75 E-value=48 Score=26.43 Aligned_cols=14 Identities=36% Similarity=0.774 Sum_probs=10.4
Q ss_pred HHHHHHHHHHhhhcc
Q psy5110 129 FGLVAHELAHQWFGN 143 (284)
Q Consensus 129 ~~~iaHEiAHqWfG~ 143 (284)
..+++||+.| |+|=
T Consensus 70 g~TltHEvGH-~LGL 83 (154)
T PF05572_consen 70 GKTLTHEVGH-WLGL 83 (154)
T ss_dssp SHHHHHHHHH-HTT-
T ss_pred ccchhhhhhh-hhcc
Confidence 4789999998 5553
No 80
>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=23.07 E-value=44 Score=26.39 Aligned_cols=13 Identities=46% Similarity=0.636 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHh
Q psy5110 127 ENFGLVAHELAHQ 139 (284)
Q Consensus 127 ~~~~~iaHEiAHq 139 (284)
....+++|||+|.
T Consensus 95 ~~~~~~~HElGH~ 107 (167)
T cd00203 95 EGAQTIAHELGHA 107 (167)
T ss_pred cchhhHHHHHHHH
Confidence 4678999999998
No 81
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 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 M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=22.02 E-value=64 Score=28.50 Aligned_cols=16 Identities=38% Similarity=0.339 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHh
Q psy5110 124 GLLENFGLVAHELAHQ 139 (284)
Q Consensus 124 ~~~~~~~~iaHEiAHq 139 (284)
..+....++.||++|-
T Consensus 192 ~~~el~~il~HEl~Hi 207 (299)
T PF05569_consen 192 SEEELRAILLHELAHI 207 (299)
T ss_pred CHHHHHHHHHHHHHHH
Confidence 3456778999999996
No 82
>KOG3314|consensus
Probab=21.96 E-value=1.8e+02 Score=23.59 Aligned_cols=20 Identities=25% Similarity=0.165 Sum_probs=16.1
Q ss_pred cHHHHHHHHHHHHHHHHHhh
Q psy5110 121 TAAGLLENFGLVAHELAHQW 140 (284)
Q Consensus 121 ~~~~~~~~~~~iaHEiAHqW 140 (284)
-+..+..+..+++||+-|.+
T Consensus 84 ~l~~q~h~n~vv~HElIH~f 103 (194)
T KOG3314|consen 84 RLTIQDHVNQVVIHELIHAF 103 (194)
T ss_pred ccchHHHHHHHHHHHHHHHH
Confidence 34556678999999999985
No 83
>PF09836 DUF2063: Uncharacterized protein conserved in bacteria (DUF2063); InterPro: IPR018640 This entry contains proteins that have no known function. ; PDB: 3DEE_A.
Probab=21.33 E-value=51 Score=23.62 Aligned_cols=28 Identities=11% Similarity=-0.132 Sum_probs=19.0
Q ss_pred HHHhhCChHHHHhhcCCchhhhhhhHHHHhhhcCcccc
Q psy5110 228 VEISHCPQRVCLESADPPLVICLVTDKLYLRHEWGLVE 265 (284)
Q Consensus 228 mL~~~lG~~~F~~~l~~~l~~~~~~~~y~~~~~~~~~~ 265 (284)
.++..||++.|.+..+ .|+.+|--...+
T Consensus 54 ~~~~llG~~~f~~la~----------~y~~~~p~~s~~ 81 (94)
T PF09836_consen 54 VVRALLGEEFFDALAR----------AYIRAHPSRSPD 81 (94)
T ss_dssp TGGGGS-HHHHHHHHH----------HHHHSGGGG-S-
T ss_pred HHHHHhCHHHHHHHHH----------HHHHhCCCCCCc
Confidence 3567899999999998 777766544444
No 84
>COG4784 Putative Zn-dependent protease [General function prediction only]
Probab=20.29 E-value=2.1e+02 Score=26.22 Aligned_cols=50 Identities=20% Similarity=0.167 Sum_probs=25.6
Q ss_pred ccCCceeEEEeCCCCCCccccccc---cccCCC-CcHHHHHHHHHHHHHHHHHhh
Q psy5110 90 LPLSMSLVLFLPPVSMLCSSELYG---LADSNR-TTAAGLLENFGLVAHELAHQW 140 (284)
Q Consensus 90 yP~~k~diV~~P~~~~~~~mE~~g---l~~~~~-~~~~~~~~~~~~iaHEiAHqW 140 (284)
-|-.+|++-++.... +.+.--+| .|+... ....+...+..+|+|||+|-=
T Consensus 83 ~p~q~YriTilnSP~-INAFALPGGYlYitRGLlAland~sEvAAVl~HEmgHVt 136 (479)
T COG4784 83 NPQQTYRITILNSPN-INAFALPGGYLYITRGLLALANDSSEVAAVLAHEMGHVT 136 (479)
T ss_pred CCCceEEEEEecCCC-ccccccCCceEEEehhHHHHcCCHHHHHHHHHhhhhhee
Confidence 354566766653322 23334444 222111 111233467889999999953
Done!