Query 015469
Match_columns 406
No_of_seqs 335 out of 2938
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 06:36:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015469.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015469hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00049 carboxyl-terminal pro 100.0 1.4E-71 3E-76 545.3 45.0 388 18-405 2-389 (389)
2 COG0793 Prc Periplasmic protea 100.0 1.5E-60 3.3E-65 465.7 36.6 358 26-401 32-391 (406)
3 PRK11186 carboxy-terminal prot 100.0 1.6E-57 3.5E-62 464.1 40.7 352 13-379 150-529 (667)
4 TIGR00225 prc C-terminal pepti 100.0 1.2E-54 2.7E-59 419.1 39.0 307 60-379 10-318 (334)
5 cd07562 Peptidase_S41_TRI Tric 100.0 7E-42 1.5E-46 320.2 20.0 260 20-400 1-263 (266)
6 cd06567 Peptidase_S41 C-termin 100.0 6.8E-40 1.5E-44 299.9 25.8 221 25-375 1-224 (224)
7 cd07563 Peptidase_S41_IRBP Int 100.0 2.9E-39 6.3E-44 300.2 24.2 234 24-386 1-248 (250)
8 smart00245 TSPc tail specific 100.0 5E-37 1.1E-41 273.5 23.7 189 180-375 3-192 (192)
9 cd07560 Peptidase_S41_CPP C-te 100.0 1.6E-35 3.4E-40 266.7 21.3 162 212-375 50-211 (211)
10 cd07561 Peptidase_S41_CPP_like 100.0 1.9E-33 4.2E-38 259.9 21.2 170 209-378 63-245 (256)
11 PF03572 Peptidase_S41: Peptid 100.0 2.1E-32 4.7E-37 239.2 16.8 164 211-374 1-169 (169)
12 PF14684 Tricorn_C1: Tricorn p 99.4 5.8E-14 1.3E-18 103.2 3.8 67 19-85 2-69 (70)
13 PF13180 PDZ_2: PDZ domain; PD 99.4 1.1E-11 2.3E-16 94.6 11.4 79 102-186 2-81 (82)
14 cd00988 PDZ_CTP_protease PDZ d 99.3 1.1E-10 2.3E-15 89.6 12.2 81 101-187 2-83 (85)
15 cd00991 PDZ_archaeal_metallopr 99.0 2.4E-09 5.1E-14 81.0 10.0 68 117-186 9-77 (79)
16 cd00989 PDZ_metalloprotease PD 99.0 2E-09 4.3E-14 81.3 9.5 76 103-186 3-78 (79)
17 cd00136 PDZ PDZ domain, also c 99.0 3.2E-09 7E-14 78.1 8.7 68 102-174 2-69 (70)
18 cd00990 PDZ_glycyl_aminopeptid 98.9 7.8E-09 1.7E-13 78.2 9.9 67 117-187 11-77 (80)
19 cd00986 PDZ_LON_protease PDZ d 98.9 1.8E-08 3.9E-13 76.1 9.7 69 118-189 8-77 (79)
20 PF00595 PDZ: PDZ domain (Also 98.8 1.3E-08 2.9E-13 77.2 7.2 72 101-175 10-81 (81)
21 cd00987 PDZ_serine_protease PD 98.7 7E-08 1.5E-12 74.6 8.5 66 117-184 23-89 (90)
22 COG3975 Predicted protease wit 98.6 8.2E-08 1.8E-12 94.1 7.8 159 6-186 362-521 (558)
23 smart00228 PDZ Domain present 98.6 4.7E-07 1E-11 69.0 9.4 74 101-178 12-85 (85)
24 PF14685 Tricorn_PDZ: Tricorn 98.6 4.1E-07 9E-12 69.4 8.7 74 103-184 3-87 (88)
25 cd00992 PDZ_signaling PDZ doma 98.5 4.2E-07 9.1E-12 68.9 8.2 70 101-174 12-81 (82)
26 TIGR00054 RIP metalloprotease 98.5 4.3E-07 9.3E-12 90.6 9.2 68 119-188 204-271 (420)
27 PRK10139 serine endoprotease; 98.5 7.3E-07 1.6E-11 89.6 9.7 69 117-187 289-358 (455)
28 PRK10898 serine endoprotease; 98.4 1.2E-06 2.5E-11 85.5 10.1 69 118-188 279-348 (353)
29 TIGR02038 protease_degS peripl 98.4 9.5E-07 2.1E-11 86.1 9.3 69 118-188 278-347 (351)
30 TIGR01713 typeII_sec_gspC gene 98.4 1.2E-06 2.6E-11 81.3 9.2 68 117-186 190-258 (259)
31 PRK10779 zinc metallopeptidase 98.4 9.6E-07 2.1E-11 89.0 9.2 68 119-188 222-289 (449)
32 TIGR02037 degP_htrA_DO peripla 98.3 2.1E-06 4.5E-11 86.2 9.4 69 118-188 257-326 (428)
33 PRK10779 zinc metallopeptidase 98.3 1.7E-06 3.7E-11 87.2 7.4 67 119-187 127-194 (449)
34 PRK10942 serine endoprotease; 98.3 3.4E-06 7.5E-11 85.2 9.5 69 117-187 310-379 (473)
35 TIGR02860 spore_IV_B stage IV 98.2 9.7E-06 2.1E-10 78.9 10.8 69 118-188 105-181 (402)
36 PRK10139 serine endoprotease; 98.2 5.4E-06 1.2E-10 83.5 8.9 65 118-185 390-454 (455)
37 TIGR02037 degP_htrA_DO peripla 98.1 7E-06 1.5E-10 82.4 8.7 65 118-184 362-427 (428)
38 PF04495 GRASP55_65: GRASP55/6 98.1 1.2E-05 2.6E-10 67.1 8.3 86 101-188 26-114 (138)
39 TIGR03279 cyano_FeS_chp putati 98.1 6.3E-06 1.4E-10 80.8 7.4 62 122-188 2-64 (433)
40 PRK10942 serine endoprotease; 98.1 1.3E-05 2.8E-10 81.1 8.8 65 118-185 408-472 (473)
41 KOG3129 26S proteasome regulat 98.0 2.8E-05 6E-10 67.6 7.5 73 119-191 140-213 (231)
42 KOG3209 WW domain-containing p 97.9 2.8E-05 6E-10 78.6 6.7 73 100-177 764-837 (984)
43 KOG3553 Tax interaction protei 97.8 2E-05 4.4E-10 59.9 3.3 47 117-163 58-104 (124)
44 TIGR00054 RIP metalloprotease 97.8 3.3E-05 7.2E-10 77.1 5.9 63 119-184 129-191 (420)
45 COG0265 DegQ Trypsin-like seri 97.6 0.00026 5.6E-09 69.1 9.7 70 117-188 269-339 (347)
46 KOG3550 Receptor targeting pro 97.6 0.00024 5.3E-09 58.4 6.6 71 101-175 101-172 (207)
47 COG3480 SdrC Predicted secrete 97.2 0.0021 4.5E-08 59.9 9.1 66 119-187 131-198 (342)
48 KOG3209 WW domain-containing p 97.1 0.0015 3.3E-08 66.5 8.0 77 99-176 353-431 (984)
49 PRK09681 putative type II secr 97.0 0.005 1.1E-07 57.2 10.0 54 131-186 220-274 (276)
50 KOG1421 Predicted signaling-as 97.0 0.0025 5.5E-08 64.7 8.1 69 117-188 302-370 (955)
51 KOG3580 Tight junction protein 96.7 0.0026 5.6E-08 63.6 5.7 57 119-175 430-487 (1027)
52 KOG3549 Syntrophins (type gamm 96.4 0.0063 1.4E-07 57.1 5.5 73 99-175 64-137 (505)
53 KOG3542 cAMP-regulated guanine 96.3 0.0042 9.2E-08 62.9 4.2 57 117-175 561-617 (1283)
54 KOG3552 FERM domain protein FR 96.3 0.0058 1.3E-07 64.0 5.2 67 99-176 65-131 (1298)
55 KOG3651 Protein kinase C, alph 96.1 0.011 2.4E-07 54.5 5.7 56 119-175 31-87 (429)
56 KOG1892 Actin filament-binding 95.9 0.02 4.3E-07 60.4 6.9 58 119-177 961-1019(1629)
57 KOG1320 Serine protease [Postt 95.8 0.031 6.7E-07 55.7 7.8 68 119-188 399-467 (473)
58 cd07021 Clp_protease_NfeD_like 95.8 0.058 1.3E-06 47.2 8.7 69 223-318 13-81 (178)
59 KOG3532 Predicted protein kina 95.8 0.027 5.8E-07 57.4 7.2 65 101-172 386-450 (1051)
60 KOG3580 Tight junction protein 95.7 0.025 5.5E-07 56.8 6.8 57 119-177 41-97 (1027)
61 COG3031 PulC Type II secretory 95.7 0.027 5.8E-07 50.5 5.9 59 125-185 214-273 (275)
62 KOG3571 Dishevelled 3 and rela 95.3 0.036 7.8E-07 54.7 6.2 62 115-176 274-338 (626)
63 KOG3551 Syntrophins (type beta 95.0 0.025 5.5E-07 53.9 3.8 71 100-174 95-166 (506)
64 KOG3605 Beta amyloid precursor 94.6 0.041 8.9E-07 55.9 4.5 70 119-188 674-745 (829)
65 KOG0609 Calcium/calmodulin-dep 94.2 0.1 2.2E-06 52.3 6.2 69 102-176 135-204 (542)
66 KOG3606 Cell polarity protein 94.2 0.11 2.4E-06 47.4 5.9 59 118-177 194-253 (358)
67 KOG3834 Golgi reassembly stack 94.2 0.16 3.5E-06 49.4 7.3 82 103-187 94-179 (462)
68 KOG0606 Microtubule-associated 94.1 0.071 1.5E-06 57.6 5.1 54 120-174 660-713 (1205)
69 PF12812 PDZ_1: PDZ-like domai 93.1 0.22 4.8E-06 37.2 4.9 42 120-163 32-73 (78)
70 cd07020 Clp_protease_NfeD_1 No 92.9 0.81 1.8E-05 40.4 9.2 70 223-319 13-85 (187)
71 COG0750 Predicted membrane-ass 92.7 0.44 9.6E-06 46.8 8.0 58 121-180 132-193 (375)
72 KOG3605 Beta amyloid precursor 90.5 0.22 4.7E-06 50.9 3.0 48 121-168 759-806 (829)
73 cd07015 Clp_protease_NfeD Nodu 89.1 2.9 6.2E-05 36.4 8.6 70 223-319 13-85 (172)
74 KOG1738 Membrane-associated gu 88.8 0.68 1.5E-05 47.3 5.1 60 101-165 213-273 (638)
75 cd00394 Clp_protease_like Case 88.4 2.1 4.6E-05 36.5 7.4 69 223-318 11-80 (161)
76 KOG3834 Golgi reassembly stack 87.1 1.3 2.8E-05 43.3 5.7 68 118-187 15-85 (462)
77 TIGR00706 SppA_dom signal pept 84.8 6.7 0.00015 35.1 8.9 70 224-318 14-84 (207)
78 KOG3938 RGS-GAIP interacting p 83.0 2.2 4.7E-05 39.1 4.8 68 102-174 138-207 (334)
79 cd07016 S14_ClpP_1 Caseinolyti 82.1 4.4 9.5E-05 34.5 6.3 66 224-318 16-81 (160)
80 KOG2921 Intramembrane metallop 81.8 2 4.4E-05 41.6 4.3 46 117-164 219-265 (484)
81 PRK14512 ATP-dependent Clp pro 80.7 9.8 0.00021 33.8 8.2 82 210-319 23-105 (197)
82 PF11874 DUF3394: Domain of un 78.5 3.4 7.4E-05 36.1 4.4 38 103-146 113-150 (183)
83 COG1030 NfeD Membrane-bound se 76.5 16 0.00036 36.3 8.9 60 210-270 26-86 (436)
84 cd07014 S49_SppA Signal peptid 76.1 16 0.00034 31.7 8.1 71 224-318 23-94 (177)
85 COG0616 SppA Periplasmic serin 75.7 14 0.0003 35.6 8.2 80 225-334 82-162 (317)
86 PF01972 SDH_sah: Serine dehyd 74.9 15 0.00033 34.2 7.7 72 225-329 77-148 (285)
87 cd07013 S14_ClpP Caseinolytic 73.5 14 0.0003 31.7 6.9 70 222-318 11-81 (162)
88 cd07023 S49_Sppa_N_C Signal pe 73.3 22 0.00048 31.7 8.5 80 223-331 17-97 (208)
89 PRK12553 ATP-dependent Clp pro 68.0 20 0.00044 32.1 7.0 70 222-318 46-116 (207)
90 cd07022 S49_Sppa_36K_type Sign 67.6 54 0.0012 29.4 9.7 80 223-332 25-105 (214)
91 KOG1421 Predicted signaling-as 67.3 20 0.00043 37.6 7.3 69 117-188 861-931 (955)
92 cd07017 S14_ClpP_2 Caseinolyti 65.8 27 0.00058 30.2 7.1 68 223-317 21-89 (171)
93 cd07019 S49_SppA_1 Signal pept 64.7 44 0.00096 29.9 8.6 70 224-317 22-92 (211)
94 PF00574 CLP_protease: Clp pro 59.6 17 0.00037 31.6 4.8 82 211-320 17-99 (182)
95 TIGR00705 SppA_67K signal pept 47.8 2E+02 0.0043 30.3 11.1 96 209-333 307-411 (584)
96 TIGR00493 clpP ATP-dependent C 47.4 86 0.0019 27.6 7.3 67 224-317 39-106 (191)
97 PRK00277 clpP ATP-dependent Cl 46.9 86 0.0019 27.8 7.2 68 222-316 42-110 (200)
98 cd07041 STAS_RsbR_RsbS_like Su 45.0 46 0.001 25.9 4.8 44 211-254 10-55 (109)
99 COG5233 GRH1 Peripheral Golgi 44.7 14 0.0003 35.0 1.8 35 117-151 62-96 (417)
100 PRK10949 protease 4; Provision 44.1 1.2E+02 0.0026 32.1 8.8 97 209-334 325-430 (618)
101 PRK12551 ATP-dependent Clp pro 43.6 87 0.0019 27.8 6.7 80 210-317 25-105 (196)
102 cd07043 STAS_anti-anti-sigma_f 41.2 1E+02 0.0022 23.0 6.1 51 211-261 8-59 (99)
103 PRK11778 putative inner membra 37.7 2.8E+02 0.0062 26.8 9.6 98 210-336 90-190 (330)
104 PF04343 DUF488: Protein of un 35.4 45 0.00098 26.9 3.3 29 228-257 2-34 (122)
105 PRK14513 ATP-dependent Clp pro 35.1 2.3E+02 0.005 25.3 8.0 80 210-317 27-107 (201)
106 PF01740 STAS: STAS domain; I 34.7 1.2E+02 0.0025 23.8 5.6 47 211-257 9-65 (117)
107 KOG4407 Predicted Rho GTPase-a 33.8 24 0.00053 39.7 1.8 46 118-163 143-188 (1973)
108 PRK14514 ATP-dependent Clp pro 33.0 1.7E+02 0.0036 26.6 6.8 80 211-318 55-135 (221)
109 TIGR02886 spore_II_AA anti-sig 33.0 1.1E+02 0.0023 23.6 5.1 46 211-256 8-55 (106)
110 COG4702 Uncharacterized conser 32.2 49 0.0011 27.9 3.0 36 215-250 21-56 (168)
111 cd00466 DHQase_II Dehydroquina 30.8 67 0.0014 26.8 3.5 49 216-269 43-91 (140)
112 TIGR00377 ant_ant_sig anti-ant 29.4 1.6E+02 0.0036 22.5 5.6 46 211-256 12-59 (108)
113 KOG4371 Membrane-associated pr 28.3 57 0.0012 36.1 3.4 72 100-176 1256-1328(1332)
114 cd06844 STAS Sulphate Transpor 28.0 1.3E+02 0.0028 22.9 4.7 44 211-254 8-53 (100)
115 cd07560 Peptidase_S41_CPP C-te 27.8 1.1E+02 0.0023 27.5 4.7 43 24-86 7-49 (211)
116 TIGR01088 aroQ 3-dehydroquinat 27.5 86 0.0019 26.2 3.6 49 216-269 43-91 (141)
117 PRK06688 enoyl-CoA hydratase; 27.5 71 0.0015 29.4 3.7 99 210-317 13-118 (259)
118 cd07042 STAS_SulP_like_sulfate 26.4 2.8E+02 0.0061 20.8 6.6 47 209-255 7-56 (107)
119 PRK05395 3-dehydroquinate dehy 25.8 90 0.0019 26.3 3.5 49 216-269 45-93 (146)
120 PRK13015 3-dehydroquinate dehy 24.6 96 0.0021 26.1 3.4 49 216-269 45-93 (146)
121 PF01220 DHquinase_II: Dehydro 24.3 82 0.0018 26.3 3.0 49 216-269 44-92 (140)
122 PF13200 DUF4015: Putative gly 23.4 1.1E+02 0.0024 29.4 4.2 36 218-253 5-40 (316)
123 COG4100 Cystathionine beta-lya 22.6 1.4E+02 0.0031 28.4 4.5 23 135-159 103-125 (416)
124 CHL00028 clpP ATP-dependent Cl 22.5 3E+02 0.0065 24.5 6.5 80 210-317 30-110 (200)
125 PF08090 Enterotoxin_HS1: Heat 21.8 35 0.00077 20.3 0.3 12 386-397 2-13 (36)
126 TIGR03000 plancto_dom_1 Planct 20.7 2.3E+02 0.0049 20.9 4.3 42 322-363 14-57 (75)
127 TIGR03121 one_C_dehyd_A formyl 20.3 99 0.0021 32.2 3.3 73 305-378 282-356 (556)
No 1
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=100.00 E-value=1.4e-71 Score=545.28 Aligned_cols=388 Identities=80% Similarity=1.272 Sum_probs=343.6
Q ss_pred cchhhHHHHHHHHHHHHhccccccCCcchHHHHHhhhhcCCCCCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCc
Q 015469 18 LSEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQ 97 (406)
Q Consensus 18 ~~~~~~~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~ 97 (406)
.++++++|+++|++++++|||++++++||++++++|++...+++..+++.++..|+++|+|||+.|++++++..+.....
T Consensus 2 ~~~~~~~f~e~w~~v~~~~~d~~~~g~dW~~~~e~y~~~~~~~~~~~~~~~i~~ml~~L~D~hs~y~~~~~~~~~~~~~~ 81 (389)
T PLN00049 2 LTEENLLFLEAWRTVDRAYVDKTFNGQSWFRYRENALKNEPMNTREETYAAIRKMLATLDDPFTRFLEPEKFKSLRSGTK 81 (389)
T ss_pred CccHHHHHHHHHHHHHHHHcCccccccCHHHHHHHHhhccCCCcHHHHHHHHHHHHhhCCCCcccCcCHHHHHHHHHhcc
Confidence 46789999999999999999999999999999999998777788899999999999999999999999999887766667
Q ss_pred ceeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC
Q 015469 98 GALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG 177 (406)
Q Consensus 98 ~~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~ 177 (406)
+.+.|+|+.+...........+++|..|.++|||+++||++||+|++|||+++.++...++..++++..|+++.++|.|+
T Consensus 82 ~~~~GiG~~~~~~~~~~~~~~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~r~ 161 (389)
T PLN00049 82 GAVTGVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRRG 161 (389)
T ss_pred CCceEEEEEEEEccCCCCccCcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEEEC
Confidence 88899999987642110011278999999999999999999999999999999988777888888888899999999999
Q ss_pred CeeEEEEEEeeccccCceeeeeeecCCCCCCCCceEEEEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHH
Q 015469 178 AEIRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPE 257 (406)
Q Consensus 178 g~~~~~~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~ 257 (406)
++..++++++..+..+|+.............+++||||+|++|.....+++.+++++++++++++||||||+|+||.+..
T Consensus 162 g~~~~~~l~r~~v~~~~v~~~~~~~~~~~~~~~~IgYi~i~~F~~~~~~~~~~~l~~l~~~~~~glIlDLR~N~GG~~~~ 241 (389)
T PLN00049 162 PETRLVTLTREKVSLNPVKSRLCEVPGPGAGSPKIGYIKLTTFNQNASSAVKEAIETLRANGVDAFVLDLRDNSGGLFPA 241 (389)
T ss_pred CEEEEEEEEeeeEeccceeeEEEeeccccCCCCCEEEEEeccccchhHHHHHHHHHHHHHCCCCEEEEEcCCCCCCCHHH
Confidence 99999999999888888877655321111234689999999999888899999999999889999999999999999999
Q ss_pred HHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceee
Q 015469 258 GIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQ 337 (406)
Q Consensus 258 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~ 337 (406)
+..++++|++++.+++...+++....+...+.....+.+|++||||+.||||||+|+.+||+++++++||++|+|++..+
T Consensus 242 a~~ia~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~PvvVLvn~~TaSasEi~a~alk~~~~~~vvG~~T~Gkg~~q 321 (389)
T PLN00049 242 GIEIAKLWLDKGVIVYIADSRGVRDIYDADGSSAIATSEPLAVLVNKGTASASEILAGALKDNKRAVVLGEPTFGKGLIQ 321 (389)
T ss_pred HHHHHHHhcCCCcEEEEecCCCceeEEecCCCccccCCCCEEEEECCCCccHHHHHHHHHhhCCCeEEEecCCcCCcccc
Confidence 99999999999987776655565555554433334578999999999999999999999999999999999999999999
Q ss_pred eEEECCCCCeEEEEEeEEEcCCCCccCCCCcccCeecCCCCCCCcchhhhhcccccchhhcccccccc
Q 015469 338 SVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNGGQLFA 405 (406)
Q Consensus 338 ~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (406)
..+.|+||+.+++|++++++|+|+.+|+.||+||++||..+...++.+|+|+.|+.++|-.++-|+|.
T Consensus 322 ~~~~L~dG~~l~lt~~~~~~p~G~~ie~~Gi~PDi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 389 (389)
T PLN00049 322 SVFELSDGSGLAVTVARYQTPAGTDIDKVGITPDHPLPESLPKDEEAFCGCLADPAAACYLNAPQLFS 389 (389)
T ss_pred eeEEeCCCCEEEEEEEEEECCCCCCcCCCCcCCCeECCCCCCcchHHHHHHhhcchhhcccchhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999873
No 2
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=1.5e-60 Score=465.70 Aligned_cols=358 Identities=34% Similarity=0.567 Sum_probs=304.3
Q ss_pred HHHHHHHHHhccccccCCcchHHHHHhhhhcCCCCCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCcceeeeeEE
Q 015469 26 LEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGVGL 105 (406)
Q Consensus 26 ~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~~~~~g~g~ 105 (406)
+..|+.....+.+..++. ++++|.. ...+...++.++..|++.|.|||+.|+.|+++..+.....+++.|+|+
T Consensus 32 ~~~~~~~~~~~~~~~~~~-----i~~~y~~--~~~~~~l~~~ai~g~ls~l~Dp~s~y~~~e~~~~~~~~~~~~~~GiG~ 104 (406)
T COG0793 32 DAVLRLVALDKLDDKYEG-----IREEYVT--RVDSDKLFEGAIEGMLSSLGDPHSTYLDPEDAAEFRTDTSGEFGGIGI 104 (406)
T ss_pred hhhhHHHHHHHHHHHHHh-----hHHHHcc--CccHHHHHHHHHHHHHHhcCCCcccccCHHHHHHhhhhccccccceeE
Confidence 455555555554444433 3333322 244557788999999999999999999999999999888999999999
Q ss_pred EEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC--CeeEEE
Q 015469 106 SIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG--AEIRHL 183 (406)
Q Consensus 106 ~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~--g~~~~~ 183 (406)
.+.... .+.+.|.++.+++||+++||++||.|++|||+++.....++++..++++.|++++|++.|. ++..++
T Consensus 105 ~i~~~~-----~~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~~~av~~irG~~Gt~V~L~i~r~~~~k~~~v 179 (406)
T COG0793 105 ELQMED-----IGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRAGGGKPFTV 179 (406)
T ss_pred EEEEec-----CCCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCHHHHHHHhCCCCCCeEEEEEEEcCCCceeEE
Confidence 998752 2789999999999999999999999999999999998888899999999999999999985 668899
Q ss_pred EEEeeccccCceeeeeeecCCCCCCCCceEEEEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHH
Q 015469 184 ALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAK 263 (406)
Q Consensus 184 ~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~ 263 (406)
++.|+.+.+.++.+..... ...+++||||||++|+....++++.++.+|+++++++||||||+|+||.+.++..++.
T Consensus 180 ~l~Re~i~l~~v~~~~~~~---~~~~~~IGyI~I~~F~~~~~~~~~~al~~L~~~~~~GlIlDLR~N~GG~L~~av~i~~ 256 (406)
T COG0793 180 TLTREEIELEDVAAKEKVE---EGGKGRIGYIRIPSFGEGTYEDLEKALDELKKQGAKGLILDLRNNPGGLLSQAVKLAG 256 (406)
T ss_pred EEEEEEEeccceeeeeeee---cCCCceEEEEEecccccchHHHHHHHHHHHHhcCCcEEEEEeCCCCCccHHHHHHHHH
Confidence 9999999998887763211 1233469999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEECC
Q 015469 264 IWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLS 343 (406)
Q Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~ 343 (406)
+|++++++++++.|.|....+.... ....+++|++||||++||||+|+||.+||++++++|||++|+|++++|..++|+
T Consensus 257 ~f~~~g~iv~~~~r~g~~~~~~~~~-~~~~~~~PlvvLvn~~SASAsEI~agalqd~~ra~lVG~~TfGkg~vQ~~~~L~ 335 (406)
T COG0793 257 LFLPSGPIVSTRGRNGKVNVYFSAS-GEALYDGPLVVLVNEGSASASEIFAGALQDYGRATLVGETTFGKGTVQTLRPLS 335 (406)
T ss_pred cccCCCcEEEEecCCCceeeccccc-cccCCCCCEEEEECCCCccHHHHHHHHHHHcCCcEEEecccccceEEEeeEEcC
Confidence 9999999999999888765544322 223689999999999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEEeEEEcCCCCccCCCCcccCeecCCCCCCCcchhhhhcccccchhhcccc
Q 015469 344 DGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNGG 401 (406)
Q Consensus 344 ~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~ 401 (406)
+|+.+.+|.++||+|+|+.+|++||+|||+|+.+.. ...-....+|+-.+|++...
T Consensus 336 dg~~lklT~a~yytp~G~~i~~~GI~PDI~v~~~~~--~~~e~~~~~~~~~~~~~~~~ 391 (406)
T COG0793 336 DGSALKLTIAKYYTPSGRSIEGKGITPDIEVPQADD--EPGEYAAGRDPQLEAALEAL 391 (406)
T ss_pred CCCeEEEEEEEEECCCCccccccCcCCCEeccCCcc--cchhhhcccchHhhhhhhhh
Confidence 999999999999999999999999999999998864 22233446677777777653
No 3
>PRK11186 carboxy-terminal protease; Provisional
Probab=100.00 E-value=1.6e-57 Score=464.09 Aligned_cols=352 Identities=25% Similarity=0.458 Sum_probs=294.6
Q ss_pred CCCcccchhhHHHHHHHH-HHHHhccccccCCcchHHHHH----hhhh----cCCCCCHHHHHHHHHHHHHhCCCCCCCc
Q 015469 13 TPSLALSEENRLFLEAWR-TIDRAYVDKTFNGQSWFRYRE----NALR----NEPMNTREETYMAIRKMLATLDDPFTRF 83 (406)
Q Consensus 13 ~~~~~~~~~~~~f~~~w~-~i~~~y~~~~~~~~dW~~~~~----~~~~----~~~~~~~~~~~~~i~~~~~~L~D~ht~~ 83 (406)
..+|+.++. .++++|+ .+++.|.+..+++.+|+++++ +|.. ....+..+-|..++..|++.+ |||+.|
T Consensus 150 ~~~w~~~~~--el~~~W~k~vk~~~l~~~~~g~~w~~i~~~l~krY~~~l~~~~~~~~~d~~~~~i~~m~~~l-DphT~Y 226 (667)
T PRK11186 150 KAPWPKDEA--ELNELWDQRVKYDALNLKLTGKTWPEIKETLTKRYNFAIKRLTQTNSEDVFQLAMNAFAREI-DPHTSY 226 (667)
T ss_pred cCCCcCCHH--HHHHHHHHHHHHHHhhhhhcCCCHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHhCC-CCCccc
Confidence 346776544 4599999 699999999999999988774 3432 123333344777888888888 999999
Q ss_pred cChhhhccccccCcceeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhc-CCCCCCEEEEEC--CE---ecCCCCHHH
Q 015469 84 LEPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRA-GILSGDVILAID--DT---STESMGIYD 157 (406)
Q Consensus 84 ~~~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~a-Gl~~GD~I~~In--g~---~v~~~~~~~ 157 (406)
++|++++.+.....+.+.|+|+.+... ++.++|..|++||||+++ ||++||+|++|| |. ++.++..++
T Consensus 227 ~sp~e~e~f~~~~~~~~~GIGa~l~~~------~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~ 300 (667)
T PRK11186 227 LSPRNAEQFNTEMNLSLEGIGAVLQMD------DDYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDD 300 (667)
T ss_pred cChHHHHHhhhccCCceeEEEEEEEEe------CCeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHH
Confidence 999999888777788899999999765 567999999999999998 999999999999 44 455677789
Q ss_pred HHHHhCCCCCCcEEEEEEe---CCeeEEEEEEeeccccC--ceeeeeeecCCCCCCCCceEEEEcCccccchHHHHHHHH
Q 015469 158 AAERLQGPEGSPVELTVRS---GAEIRHLALTREKVSLN--PVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAI 232 (406)
Q Consensus 158 ~~~~l~~~~g~~v~l~v~r---~g~~~~~~v~~~~~~~~--~v~~~~~~~~~~~~~~~~igyl~i~~f~~~~~~~~~~~~ 232 (406)
+..+++|+.|++|+|+|.| +++..+++++|..+..+ ++...+.. ..+++||||+|++|..+..+++.+++
T Consensus 301 vv~lirG~~Gt~V~LtV~r~~~~~~~~~vtl~R~~i~l~~~~~k~~v~~-----~~~~kIGYI~I~sF~~~~~~d~~~~l 375 (667)
T PRK11186 301 VVALIKGPKGSKVRLEILPAGKGTKTRIVTLTRDKIRLEDRAVKMSVKT-----VGGEKVGVLDIPGFYVGLTDDVKKQL 375 (667)
T ss_pred HHHHhcCCCCCEEEEEEEeCCCCCceEEEEEEeeeecccccceEEEEEe-----cCCCcEEEEEecccccchHHHHHHHH
Confidence 9999999999999999987 35678899999887653 34444443 23568999999999988889999999
Q ss_pred HHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEcCCCccHHHH
Q 015469 233 DTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEI 312 (406)
Q Consensus 233 ~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~ 312 (406)
.+++++++++||||||+|+||++..+..++++|++++++++.+.+.|....+. .......|.+|++||||++||||||+
T Consensus 376 ~~l~~~~v~gLIlDLR~NgGG~l~~a~~la~lFi~~g~vv~~~~~~g~~~~~~-~~~~~~~~~gPlvVLVN~~SASASEI 454 (667)
T PRK11186 376 QKLEKQNVSGIIIDLRGNGGGALTEAVSLSGLFIPSGPVVQVRDNNGRVRVDS-DTDGVVYYKGPLVVLVDRYSASASEI 454 (667)
T ss_pred HHHHHCCCCEEEEEcCCCCCCcHHHHHHHHHHHhcCCceEEEecCCCceeccc-cCCcccccCCCEEEEeCCCCccHHHH
Confidence 99999999999999999999999999999999999998888777666543332 12234578999999999999999999
Q ss_pred HHHHHhcCCCeEEEcccCCCCceeeeEEECCC--------CCeEEEEEeEEEcCCCCccCCCCcccCeecCCCCC
Q 015469 313 LAGALKDNKRAVLFGEPTYGKGKIQSVFQLSD--------GSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFP 379 (406)
Q Consensus 313 ~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~~--------g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~~ 379 (406)
||++||++++|+|||++|+|+|.+|..++|++ +..+.+|++++++|+|..+++.||+|||.||..++
T Consensus 455 fA~alqd~~ra~vVG~~T~GKGtvQ~~~~L~~~~~~~~~~~G~lk~Tiak~y~p~G~s~q~~GV~PDi~vp~~~~ 529 (667)
T PRK11186 455 FAAAMQDYGRALIVGEPTFGKGTVQQHRSLNRIYDQMLRPLGSVQYTIQKFYRINGGSTQRKGVTPDIIFPTGIE 529 (667)
T ss_pred HHHHHHhcCCEEEEeccCCCccccccccccccccccccCCCCeeEEEEeEEECCCCCcccCCCCCCCeEcCCCcC
Confidence 99999999999999999999999998877753 34699999999999999999999999999997655
No 4
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=100.00 E-value=1.2e-54 Score=419.14 Aligned_cols=307 Identities=38% Similarity=0.689 Sum_probs=267.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCcceeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCC
Q 015469 60 NTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSG 139 (406)
Q Consensus 60 ~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~G 139 (406)
++.++++.++.+|+++|+|+|+.|++++++..+.....+...++|+.+... +++++|..|.++|||+++||++|
T Consensus 10 ~~~~~~~~~l~~m~~~l~D~h~~~~~~~~~~~~~~~~~~~~~~lG~~~~~~------~~~~~V~~V~~~spA~~aGL~~G 83 (334)
T TIGR00225 10 DETEEIYGAIKGMLASLNDPYTRYLSPETAKSFSETTSGSLEGIGIQVGMD------DGEIVIVSPFEGSPAEKAGIKPG 83 (334)
T ss_pred ccHHHHHHHHHHHHHhCCCCCccccCHHHHHHHHHhccCceEEEEEEEEEE------CCEEEEEEeCCCChHHHcCCCCC
Confidence 344689999999999999999999999988776655567788999988765 46899999999999999999999
Q ss_pred CEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCee--EEEEEEeeccccCceeeeeeecCCCCCCCCceEEEEc
Q 015469 140 DVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEI--RHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKL 217 (406)
Q Consensus 140 D~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~--~~~~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i 217 (406)
|+|++|||+++.+++..++...+.+..|.++.+++.|+++. .++++.+..+..+++..++.. ..+++||||+|
T Consensus 84 D~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~R~g~~~~~~v~l~~~~~~~~~v~~~~~~-----~~~~~igYi~i 158 (334)
T TIGR00225 84 DKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAGKSKPLTFTLKRDRIELQTVKASVKK-----VGGKSVGYIRI 158 (334)
T ss_pred CEEEEECCEECCCCCHHHHHHhccCCCCCEEEEEEEeCCCCceEEEEEEEEEeeccceEEEEEc-----CCCcEEEEEEE
Confidence 99999999999998777888888888899999999998754 455666666667777765543 33568999999
Q ss_pred CccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCC
Q 015469 218 TSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEP 297 (406)
Q Consensus 218 ~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 297 (406)
++|..+..+++.+++.+++++++++||||||+|+||++..+..++++|++++.+++...+++....+... ....|++|
T Consensus 159 ~~f~~~~~~~~~~~l~~l~~~~~~~lIiDLR~N~GG~~~~a~~~a~~f~~~~~~~~~~~~~g~~~~~~~~--~~~~~~~p 236 (334)
T TIGR00225 159 SSFSEHTTEDVKKALDKLEKKNAKGYILDLRGNPGGLLQSAVDISRLFITKGPIVQTKDRNGSKRHYKAN--GRQPYNLP 236 (334)
T ss_pred EecccchHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCcEEEEEcCCCcceEEecC--CCccCCCC
Confidence 9999888899999999998889999999999999999999999999999999877777666654444332 23468999
Q ss_pred EEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEECCCCCeEEEEEeEEEcCCCCccCCCCcccCeecCCC
Q 015469 298 LAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKT 377 (406)
Q Consensus 298 v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~ 377 (406)
|+||||+.|+||||+|+++||+++++++||++|+|++..+..+.|++|+.+.+|+.++++|+|..+|+.||+|||.|+.+
T Consensus 237 v~vLvn~~TaSaaE~~a~~l~~~~~a~viG~~T~G~~~~~~~~~l~~g~~l~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~ 316 (334)
T TIGR00225 237 LVVLVNRGSASASEIFAGALQDNGRATIVGEKTFGKGTVQQVRPLNDGSGIKVTIAKYYTPNGGSIHKKGIEPDIVIEQP 316 (334)
T ss_pred EEEEECCCCCcHHHHHHHHHHhCCCeEEEeeCCccCceeeeEEEcCCCCEEEEEEEEEECCCCCCccCcCcCCCEEecCc
Confidence 99999999999999999999999999999999999998899999999999999999999999999999999999999876
Q ss_pred CC
Q 015469 378 FP 379 (406)
Q Consensus 378 ~~ 379 (406)
..
T Consensus 317 ~~ 318 (334)
T TIGR00225 317 DD 318 (334)
T ss_pred cc
Confidence 65
No 5
>cd07562 Peptidase_S41_TRI Tricorn protease; serine protease family S41. The tricorn protease (TRI), a member of the S41 peptidase family and named for its tricorn-like shape, exists only in some archaea and eubacteria. It has been shown to act as a carboxypeptidase, involved in the degradation of proteasomal products to preferentially yield di- and tripeptides, with subsequent and final degradations to free amino acid residues by tricorn interacting factors, F1, F2 and F3. Tricorn is a hexameric D3-symmetric protease of 720kD, and can self-associate further into a giant icosahedral capsid structure containing twenty copies of the complex. Each tricorn peptidase monomer consists of five structural domains: a six-bladed beta-propeller and a seven-bladed beta-propeller that limit access to the active site, the two domains (C1 and C2) that carry the active site residues, and a PDZ-like domain (proposed to be important for substrate recognition) between the C1 and C2 domains. The active sit
Probab=100.00 E-value=7e-42 Score=320.22 Aligned_cols=260 Identities=24% Similarity=0.314 Sum_probs=199.7
Q ss_pred hhhHHHHHHHHHHHHhccccccCCcchHHHHHhhhhc-CCCCCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCcc
Q 015469 20 EENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRN-EPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQG 98 (406)
Q Consensus 20 ~~~~~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~-~~~~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~~ 98 (406)
++.++|+++|++++++|++++++++||++++++|++. ..++++.+|+.++.+|+++|+|+|+.+... .+
T Consensus 1 ~~~~~fd~~w~~~~~~y~~~~~~g~dW~~~~~~y~~~~~~~~~~~e~~~~l~~ml~~L~d~H~~~~~~-~~--------- 70 (266)
T cd07562 1 EWLQMFDEAWRLVRDNFYDPDMHGVDWDAVRAEYRPLLPRAATRAELADVLNEMLGELNDSHTGVSGL-RY--------- 70 (266)
T ss_pred CHHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHcCCccchHHH-HH---------
Confidence 3678999999999999999999999999999999865 578899999999999999999999976530 00
Q ss_pred eeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCC
Q 015469 99 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 178 (406)
Q Consensus 99 ~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g 178 (406)
.+....
T Consensus 71 ---------------------------------------------------------~~~~~~----------------- 76 (266)
T cd07562 71 ---------------------------------------------------------RDWVES----------------- 76 (266)
T ss_pred ---------------------------------------------------------HHHHHH-----------------
Confidence 000000
Q ss_pred eeEEEEEEeeccccCceeeeeeecCCCCCCCCceEEEEcCccccchHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHH
Q 015469 179 EIRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPE 257 (406)
Q Consensus 179 ~~~~~~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~~~~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~ 257 (406)
+ ...+. + ..+++||||+|++|... .+.++++++... .+++||||||+|+||++.
T Consensus 77 --------~----~~~~~-~--------~~~~~igYi~i~~~~~~---~~~~~~~~~~~~~~~~glIiDlR~N~GG~~~- 131 (266)
T cd07562 77 --------N----REYVE-E--------LSDGRIGYVHIPDMGDD---GFAEFLRDLLAEVDKDGLIIDVRFNGGGNVA- 131 (266)
T ss_pred --------H----HHHHH-H--------hcCCcEEEEEeCCCChH---HHHHHHHHHHhcCCCceEEEEecCCCCCcHH-
Confidence 0 00000 0 11358999999999654 344444444332 389999999999999954
Q ss_pred HHHHHHhhccCCcEEEEEcCC-CceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCcee
Q 015469 258 GIEIAKIWLDKGVIVYICDSR-GVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKI 336 (406)
Q Consensus 258 ~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~ 336 (406)
..++++|.+. ...+...+. +.... .+ ...|++||+||||+.|+||||+|+.+||+++++++||++|+|++..
T Consensus 132 -~~l~~~~~~~-~~~~~~~r~~~~~~~---~p--~~~~~~pv~vL~~~~t~SaaE~~a~~lk~~~~~~vvG~~T~G~~~~ 204 (266)
T cd07562 132 -DLLLDFLSRR-RYGYDIPRGGGKPVT---YP--SGRWRGPVVVLVNEGSASDAEIFAYGFRALGLGPVVGTRTAGGVII 204 (266)
T ss_pred -HHHHHHhCCC-ceEEEccCCCCCCCC---Cc--ccccCCCEEEEECCCCCchHHHHHHHHHHcCCeeEEeeccCCceee
Confidence 4667777654 334444333 22111 11 1238999999999999999999999999999999999999999998
Q ss_pred eeEEECCCCCeEEEEEeEEEcCCCCccCCCCcccCeecCCCCCCCcchhhhhcccccchhhccc
Q 015469 337 QSVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNG 400 (406)
Q Consensus 337 ~~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 400 (406)
+..+.||+|+.+.+|...+++++|+.+|+.||.|||.|+.+... ..+.+|+.+++|+.-
T Consensus 205 ~~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gi~PDi~v~~~~~~-----~~~g~D~~L~~Al~~ 263 (266)
T cd07562 205 SGRYRLPDGGSLTVPEFGVYLPDGGPLENRGVAPDIEVENTPED-----VAAGRDPQLEAAIEE 263 (266)
T ss_pred cCceecCCCCEEEeeceeEEcCCCCccccCCCCCCEEecCCHhH-----hhcCCCHHHHHHHHH
Confidence 88899999999999999999999999999999999999987752 234778888877753
No 6
>cd06567 Peptidase_S41 C-terminal processing peptidase family S41. Peptidase family S41 (C-terminal processing peptidase or CTPase family) contains very different subfamilies; it includes photosystem II D1 C-terminal processing protease (CTPase), interphotoreceptor retinoid-binding protein IRBP and tricorn protease (TRI). CTPase and TRI both contain the PDZ domain while IRBP, although being very similar to the tail-specific protease domain, lacks the PDZ insertion domain and hydrolytic activity. These serine proteases have distinctly different active sites: in CTPase, the active site consists of a serine/lysine catalytic dyad while in tricorn core protease, it is a tetrad (serine, histidine, serine, glutamate). CPases with different substrate specificities in different species include processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein; and others such as tricorn pr
Probab=100.00 E-value=6.8e-40 Score=299.87 Aligned_cols=221 Identities=43% Similarity=0.713 Sum_probs=194.6
Q ss_pred HHHHHHHHHHhccccccCCcchHHHHHhhhhc-CCCCCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCcceeeee
Q 015469 25 FLEAWRTIDRAYVDKTFNGQSWFRYRENALRN-EPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGV 103 (406)
Q Consensus 25 f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~-~~~~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~~~~~g~ 103 (406)
|+++|+.++++|+++ ++.+|..++.++... ...++..+++.++..|+.+|+|+|+.+.+
T Consensus 1 ~~~~~~~~~~~y~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~D~hs~~~~------------------ 60 (224)
T cd06567 1 FDEAWRLLRENYYDP--HGVDWDALRDRYVDLLDAVDDRELLAGALNGMLGELGDPHSRYLT------------------ 60 (224)
T ss_pred CHHHHHHHHHHhccc--chhHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHhCCCCCceeEE------------------
Confidence 578999999999998 899999999988764 35678899999999999999999997643
Q ss_pred EEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEE
Q 015469 104 GLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHL 183 (406)
Q Consensus 104 g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~ 183 (406)
T Consensus 61 -------------------------------------------------------------------------------- 60 (224)
T cd06567 61 -------------------------------------------------------------------------------- 60 (224)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEeeccccCceeeeeeecCCCCCCCCceEEEEcCccc-cchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHH
Q 015469 184 ALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFN-QNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIA 262 (406)
Q Consensus 184 ~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~-~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~ 262 (406)
||||+|++|. ....+.+.+++..+++ ++++||||||+|+||++..+..++
T Consensus 61 ----------------------------igYi~i~~f~~~~~~~~~~~~~~~~~~-~~~~lIiDLR~N~GG~~~~a~~l~ 111 (224)
T cd06567 61 ----------------------------IGYIRIPSFSAESTAEELREALAELKK-GVKGLILDLRNNPGGLLSAAVELA 111 (224)
T ss_pred ----------------------------eEEEEECccCCcchHHHHHHHHHHHHc-CCCEEEEEcCCCCCccHHHHHHHH
Confidence 6899999998 6677888999998887 899999999999999999999999
Q ss_pred HhhccCCcEEEEEcCCCc-eeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEE
Q 015469 263 KIWLDKGVIVYICDSRGV-RDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQ 341 (406)
Q Consensus 263 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~ 341 (406)
++|++++..+......+. ...+. .......+.+||+||||+.|+||||+|+.+||+++++++||++|+|++..+..+.
T Consensus 112 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~pv~vL~~~~taSaaE~~a~~lk~~~~~~vvG~~T~G~~~~~~~~~ 190 (224)
T cd06567 112 SLFLPKGKIVVTTRRRGGNETEYV-APGGGSLYDGPLVVLVNEGSASASEIFAGALQDLGRATLVGERTFGKGSVQTVFP 190 (224)
T ss_pred HHhcCCCcEEEEEecCCCceeEEe-cCCCCcccCCCEEEEECCCCccHHHHHHHHHHhCCCeEEEeeCCCCCCcceEEEE
Confidence 999999887665543332 11222 2234457999999999999999999999999999999999999999999899999
Q ss_pred CCCCCeEEEEEeEEEcCCCCccCCCCcccCeecC
Q 015469 342 LSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLP 375 (406)
Q Consensus 342 L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~ 375 (406)
||+|+.+.+|..++++|+|+.+|+.||.|||+|+
T Consensus 191 l~~g~~~~~~~~~~~~~~g~~~~~~Gv~PDi~v~ 224 (224)
T cd06567 191 LLDGSALKLTTAKYYTPSGRSIEGKGVEPDIEVP 224 (224)
T ss_pred cCCCCEEEEEEEEEECCCCCCccCCccCCCEECC
Confidence 9999999999999999999999999999999985
No 7
>cd07563 Peptidase_S41_IRBP Interphotoreceptor retinoid-binding protein; serine protease family S41. Interphotoreceptor retinoid-binding protein (IRBP) is a homolog of the S41 protease, C-terminal processing peptidase (CTPase) family. It is thought to facilitate the compartmentalization of the visual cycle that requires poorly soluble and potentially toxic retinoids to cross the aqueous subretinal space between the photoreceptors and the retinal pigment epithelium (RPE). IRBP is secreted by photoreceptors into the interphotoreceptor matrix (IPM) where it is rapidly turned over by a combination of RPE and photoreceptor endocytosis. It is the most abundant soluble protein component of the IPM, consisting of homologous modules, each repeat structure arising through the duplication (as in teleost IRBP) or quadruplication (in tetrapods) of an ancient gene, arisen in the early evolution of the vertebrate eye. IRBP has been shown to promote the release of all-trans retinol from photoreceptors
Probab=100.00 E-value=2.9e-39 Score=300.23 Aligned_cols=234 Identities=27% Similarity=0.337 Sum_probs=196.1
Q ss_pred HHHHHHHHHHHhccccccCCcchHHHHHhhhhcC--CCCCHHHHHHHHHHHHHhCCCCCCCccChhhhccccccCcceee
Q 015469 24 LFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNE--PMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALT 101 (406)
Q Consensus 24 ~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~~--~~~~~~~~~~~i~~~~~~L~D~ht~~~~~~~~~~~~~~~~~~~~ 101 (406)
.|+.+|++++++|+++..++++|.++++++.+.. ...+.++|+..+.+|+..|+|+|+.+..
T Consensus 1 ~~~~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~l~D~H~~~~~---------------- 64 (250)
T cd07563 1 VFEALAKLLEENYAFPEAKGIDWDALAARLRAQVYLDITSPEELAAVLTADLQELGDGHLNVSY---------------- 64 (250)
T ss_pred CHHHHHHHHHHhCCChHHcccHHHHHHHHHhccccccCCCHHHHHHHHHHhhhccCCCcEEEEE----------------
Confidence 3889999999999999999999999999998653 5788899999999999999999996421
Q ss_pred eeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeE
Q 015469 102 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIR 181 (406)
Q Consensus 102 g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~ 181 (406)
T Consensus 65 -------------------------------------------------------------------------------- 64 (250)
T cd07563 65 -------------------------------------------------------------------------------- 64 (250)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEEEeeccccCceeeeeeecCCCCCCCCceEEEEcCcccc----chHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHH
Q 015469 182 HLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQ----NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPE 257 (406)
Q Consensus 182 ~~~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~~----~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~ 257 (406)
||||+|++|.. ...+.++++++.++ +.++||||||+|+||+...
T Consensus 65 ------------------------------IgYl~i~~f~~~~~~~~~~~~~~~~~~l~--~~~~LIIDLR~N~GG~~~~ 112 (250)
T cd07563 65 ------------------------------IGYLRIDSFGGFEIAAAEALLDEALDKLA--DTDALIIDLRYNGGGSDSL 112 (250)
T ss_pred ------------------------------eEEEEEcccCChhhhhhHHHHHHHHHHhc--CCCeEEEEECCCCCCCHHH
Confidence 68999999986 34567888888887 4599999999999999999
Q ss_pred HHHHHHhhccCCc--EEEEE-cCCCceee----eecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccC
Q 015469 258 GIEIAKIWLDKGV--IVYIC-DSRGVRDI----YDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPT 330 (406)
Q Consensus 258 ~~~l~~~~~~~~~--~~~~~-~~~~~~~~----~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T 330 (406)
+..++++|++++. .++.. .+.+.... ....+.....+++||+||||+.|+||||.|+.+||+++++++||++|
T Consensus 113 ~~~l~s~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~T~SaaE~~a~~lk~~~~~~viGe~T 192 (250)
T cd07563 113 VAYLASYFTDEDKPVHLYTIYKRPGNTTTELWTLPVVPGGRYGYTKPVYVLTSPVTFSAAEEFAYALKQLKRATVVGETT 192 (250)
T ss_pred HHHHHHHcCCCCCcEEEEEEEECCCCCCcccceeeecCCCcccCCCCEEEEeCCCcCcHHHHHHHHHHhCCCcEEEeecC
Confidence 9999999996443 33322 22222110 11122334579999999999999999999999999999999999999
Q ss_pred CCCceeeeEEECCCCCeEEEEEeEEEcCC-CCccCCCCcccCeecCCCCCCCcchhh
Q 015469 331 YGKGKIQSVFQLSDGSGLAVTVARYETPA-HTDIDKVGVIPDHPLPKTFPKDEDGFC 386 (406)
Q Consensus 331 ~G~~~~~~~~~L~~g~~~~~~~~~~~~~~-g~~~e~~Gv~PDi~v~~~~~~~~~~~~ 386 (406)
+|++..+..+.||+|+.+.+|+.++++|+ |..+|+.||.|||+|+.+. ..++.++
T Consensus 193 ~G~~~~~~~~~Lp~g~~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~-~~d~al~ 248 (250)
T cd07563 193 AGGASPVLPFPLPNGLYLTVPTSRSVDPITGTNWEGVGVPPDIEVPATP-GYDDALE 248 (250)
T ss_pred CCCCCCceEEEcCCCeEEEEecceeEeCCCCCcccccCcCCCeeecCCC-ChhhHhh
Confidence 99999889999999999999999999998 9999999999999999887 3344333
No 8
>smart00245 TSPc tail specific protease. tail specific protease
Probab=100.00 E-value=5e-37 Score=273.45 Aligned_cols=189 Identities=44% Similarity=0.724 Sum_probs=162.9
Q ss_pred eEEEEEEeeccccCceeeeeeecCCCCCCCCceEEEEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHH
Q 015469 180 IRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGI 259 (406)
Q Consensus 180 ~~~~~v~~~~~~~~~v~~~~~~~~~~~~~~~~igyl~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~ 259 (406)
..++.++|..+..+++.+.+... ..++||||+|++|.....++++++++++++.++++||||||+|+||++..+.
T Consensus 3 ~~~~~~~r~~~~~~~~~~~~~~~-----~~~~igYi~i~~f~~~~~~~~~~~~~~l~~~~~~~lIiDLR~N~GG~~~~~~ 77 (192)
T smart00245 3 ERTIALIRAKIKIETLEGNVGYL-----RFGNIGYIRIPEFSEHTSNLVEKAWKKLEKTNVEGLILDLRNNPGGLLSAAI 77 (192)
T ss_pred cEEEEEEEeEEEeeEEeEEEeec-----CCCcEEEEEEeEEChhhHHHHHHHHHHHHhCCCcEEEEEecCCCCCCHHHHH
Confidence 35666777777777777665442 2368999999999987788999999999988999999999999999999999
Q ss_pred HHHHhhccCCcEEEEEcCC-CceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeee
Q 015469 260 EIAKIWLDKGVIVYICDSR-GVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQS 338 (406)
Q Consensus 260 ~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~ 338 (406)
.++++|++++..++...++ +....+.... ...+.+|++||||+.|+||||+|+.+||+++++++||++|+|++..+.
T Consensus 78 ~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~pv~vL~~~~TaSaaE~~a~~lk~~~~a~viG~~T~G~~~~~~ 155 (192)
T smart00245 78 DVSSLFLDKGVIVYTIYRRTGELETYPANL--GRKYSKPLVVLVNEGTASASEIFAGALKDLGRALIVGERTFGKGLVQQ 155 (192)
T ss_pred HHHHHhcCCCcEEEEEecCCCceEEEecCC--CcccCCCEEEEECCCCeeHHHHHHHHHhhCCCEEEEecCCcCCcceee
Confidence 9999999988766665544 4433333322 235689999999999999999999999999999999999999999999
Q ss_pred EEECCCCCeEEEEEeEEEcCCCCccCCCCcccCeecC
Q 015469 339 VFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLP 375 (406)
Q Consensus 339 ~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~ 375 (406)
.+.|++|+.+.+|+..+++|+|+.+|+.||+||++||
T Consensus 156 ~~~l~~g~~l~it~~~~~~~~g~~~e~~Gv~PDi~v~ 192 (192)
T smart00245 156 TVPLGDGSGLKLTVAKYYTPSGKSIEKKGVEPDIQVP 192 (192)
T ss_pred EEEeCCCCEEEEEEEEEECCCCCEecCCCcCCCEECc
Confidence 9999999999999999999999999999999999986
No 9
>cd07560 Peptidase_S41_CPP C-terminal processing peptidase; serine protease family S41. The C-terminal processing peptidase (CPP, EC 3.4.21.102) also known as tail-specific protease (tsp), the photosystem II D1 C-terminal processing protease (D1P), and other related S41 protease family members are present in this CD. CPP is synthesized as a precursor form with a carboxyl-terminal extension. It specifically recognizes a C-terminal tripeptide, Xaa-Yaa-Zaa, in which Xaa is preferably Ala or Leu, Yaa is preferably Ala or Tyr and Zaa is preferably Ala, but then cleaves at a variable distance from the C-terminus. The C-terminal carboxylate group is essential, and proteins where this group is amidated are not substrates. This family of proteases contains the PDZ domain that promotes protein-protein interactions and is important for substrate recognition. The active site consists of a serine/lysine catalytic dyad. The bacterial CCP-1 is believed to be important for the degradation of incorrectl
Probab=100.00 E-value=1.6e-35 Score=266.69 Aligned_cols=162 Identities=49% Similarity=0.812 Sum_probs=147.4
Q ss_pred eEEEEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCc
Q 015469 212 IGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDA 291 (406)
Q Consensus 212 igyl~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (406)
||||++++|.....+++.++|++++++++++||||||+|+||++..+..++++|++++..++...+.+....+... ..
T Consensus 50 igYi~i~sf~~~~~~~~~~~l~~~~~~~~~~lIlDLR~N~GG~~~~~~~i~~~f~~~~~~~~~~~~~g~~~~~~~~--~~ 127 (211)
T cd07560 50 IGYIRITSFSENTAEELKKALKELKKQGMKGLILDLRNNPGGLLDEAVEIADLFLPGGPIVSTKGRNGKREAYASD--DG 127 (211)
T ss_pred eEEEEEcccCchhHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCeEEEEEecCCceEEEecC--CC
Confidence 7899999999888889999999999888999999999999999999999999999988777776666655444332 23
Q ss_pred cCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEECCCCCeEEEEEeEEEcCCCCccCCCCcccC
Q 015469 292 LAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPD 371 (406)
Q Consensus 292 ~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PD 371 (406)
..+.+|++||||+.|+||||+|+.+||.++++++||++|+|++..+..+.||+|+.+++|+.++++|+|+.+|+.||+||
T Consensus 128 ~~~~~pvvVLvn~~TaSaaE~~a~~lk~~~~~~vIG~~T~G~~~~~~~~~L~~g~~l~i~~~~~~~~~G~~~e~~GV~PD 207 (211)
T cd07560 128 GLYDGPLVVLVNGGSASASEIVAGALQDNGRAVLVGERTFGKGSVQTVFPLSDGSALKLTTAKYYTPSGRSIQKKGIEPD 207 (211)
T ss_pred ccCCCCEEEEeCCCcccHHHHHHHHHhhcCCEEEEecCCCCCCeeeEEEEcCCCCEEEEEEEEEECCCCCCccCCCcCCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecC
Q 015469 372 HPLP 375 (406)
Q Consensus 372 i~v~ 375 (406)
|+||
T Consensus 208 i~V~ 211 (211)
T cd07560 208 IEVP 211 (211)
T ss_pred EECC
Confidence 9986
No 10
>cd07561 Peptidase_S41_CPP_like C-terminal processing peptidase-like; serine protease family S41. Bacterial protease homologs of the S41 family related to C-terminal processing peptidase (CPP). CPP-1 is believed to be important for the degradation of incorrectly synthesized proteins as well as protection from thermal and osmotic stresses. CPP is synthesized with an extension on its carboxyl-terminus and specifically recognizes a C-terminal tripeptide, but cleaves at variable distance from the C-terminus. The CPP active site consists of a serine/lysine catalytic dyad. Conservation of these residues is seen in the CPP-like proteins of this group. CPP proteins contain a PDZ domain that promotes protein-protein interactions and is important for substrate recognition however, most of CPP-like proteins only have an internal fragment or lack the PDZ domain.
Probab=100.00 E-value=1.9e-33 Score=259.92 Aligned_cols=170 Identities=24% Similarity=0.320 Sum_probs=144.9
Q ss_pred CCceEEEEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccC---CcEEE-EEcCCCc----
Q 015469 209 SPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDK---GVIVY-ICDSRGV---- 280 (406)
Q Consensus 209 ~~~igyl~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~---~~~~~-~~~~~~~---- 280 (406)
+++||||+|++|..+..+++.+++++++++++++||||||+|+||.+..+..++++|+++ +.++. ...+.+.
T Consensus 63 ~~~IGYi~i~~F~~~~~~~l~~a~~~l~~~~~~~LIlDLR~N~GG~~~~a~~las~f~~~~~~~~~~~~~~~~~~~~~~~ 142 (256)
T cd07561 63 GKKVGYLVYNSFTSGYDDELNQAFAEFKAQGVTELVLDLRYNGGGLVSSANLLASLLAPAVALGQVFATLEYNDKRSANN 142 (256)
T ss_pred CCcEEEEEECccccchHHHHHHHHHHHHHcCCCeEEEEeCCCCCccHHHHHHHHHHhcCcccCCCeEEEEEecCCccCCC
Confidence 469999999999988889999999999999999999999999999999999999999984 44443 3333321
Q ss_pred -eeeeecCC--CCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEECC--CCCeEEEEEeEE
Q 015469 281 -RDIYDTDG--TDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLS--DGSGLAVTVARY 355 (406)
Q Consensus 281 -~~~~~~~~--~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~--~g~~~~~~~~~~ 355 (406)
...+.... .......+||+||||+.||||||+|+.+||+++++++||++|+|++..+..+.++ +|+.+.+++.++
T Consensus 143 ~~~~~~~~~~~~~~~~~~~pv~VL~~~~TASAaE~~a~~Lk~~~~a~vIGe~T~Gk~~~~~~~~l~~~~g~~l~~t~~~~ 222 (256)
T cd07561 143 EDLLFSSKTLAGGNSLNLSKVYVLTSGSTASASELVINSLKPYMDVVLIGETTYGKNVGSLTFEDDRKHKWALQPVVFKV 222 (256)
T ss_pred ceeecccccccccCcCCcccEEEEECCCcccHHHHHHHHhhccCCEEEEeCCCCCCCccceEEEccCCCCeEEEEEEEEE
Confidence 12222211 1223456899999999999999999999999999999999999999999999998 899999999999
Q ss_pred EcCCCCccCCCCcccCeecCCCC
Q 015469 356 ETPAHTDIDKVGVIPDHPLPKTF 378 (406)
Q Consensus 356 ~~~~g~~~e~~Gv~PDi~v~~~~ 378 (406)
++|+|+.+++.||+||++|+.+.
T Consensus 223 ~~~~G~~~~~~Gi~PDi~v~~~~ 245 (256)
T cd07561 223 VNADGQGDYSNGLTPDIEVNEDS 245 (256)
T ss_pred ECCCCCCccCCCcCCceEeCccc
Confidence 99999999999999999998664
No 11
>PF03572 Peptidase_S41: Peptidase family S41; InterPro: IPR005151 This group of putative serine peptidases belong to the MEROPS peptidase family S41 (C-terminal processing peptidase family, clan SM). The members of this group include: the tricorn protease of bacteria and archaea, C-terminal peptidases with different substrates specificities in different species including processing of D1 protein of the photosystem II reaction centre in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein; and some appear to be responsible for degrading oligopeptides, probably derived from the proteasome. ; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A 3K50_A 3DJA_B 3DPM_B 3DPN_A 3DOR_B 1J7X_A ....
Probab=100.00 E-value=2.1e-32 Score=239.21 Aligned_cols=164 Identities=36% Similarity=0.564 Sum_probs=126.6
Q ss_pred ceEEEEcCcccc--chHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceee--eec
Q 015469 211 RIGYIKLTSFNQ--NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDI--YDT 286 (406)
Q Consensus 211 ~igyl~i~~f~~--~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~--~~~ 286 (406)
+||||+|++|.. ...+.+.+++++++++++++||||||+|+||+...+..++++|++++...+.....+.... ...
T Consensus 1 ~i~yl~i~sf~~~~~~~~~~~~~~~~~~~~~~~~lIIDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (169)
T PF03572_consen 1 NIGYLRIPSFSENKSFDEELDEFLDKLKSKDTDGLIIDLRGNGGGSDEYAIELLSYLIPKPIIFYYRDRIGSNKKWVSTI 80 (169)
T ss_dssp EEEEEEES-BCCGHHHHHHHHHHHHHHHHTTSSEEEEE-TTB--BSHHHHHHHHHCHSSSSEEEEEEEEEEEETTCCHEE
T ss_pred CEEEEEeCcccCccccHHHHHHHHHHHHHCCCCEEEEEcccCCCcchHHHHHHHhcccCCCcEEEEecccccccccccCC
Confidence 589999999954 5778899999999888999999999999999999999999999998766544322111110 000
Q ss_pred CCC-CccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCceeeeEEECCCCCeEEEEEeEEEcCCCCccCC
Q 015469 287 DGT-DALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDIDK 365 (406)
Q Consensus 287 ~~~-~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~~~~~~L~~g~~~~~~~~~~~~~~g~~~e~ 365 (406)
... ....+++|++||+|+.|+|+||.|+.++|+++++++||++|+|....+..+.|++|+.+.+|...++.++|..+|+
T Consensus 81 ~~~~~~~~~~~~v~vL~~~~t~Saae~fa~~lk~~~~~~ivGe~T~G~~~~~~~~~l~~g~~~~i~~~~~~~~~g~~~~~ 160 (169)
T PF03572_consen 81 KWSTPKNRFNGPVYVLTDENTASAAEIFASALKDNKRATIVGEPTAGAGGGQTGFSLPSGSILSIPTSRYYNPDGQKIEG 160 (169)
T ss_dssp EECSSTT-SSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES--SB-EEEEEEEE-TTSEEEEEEEEEEEETTSBBTTT
T ss_pred CCccccccCCCCEEEEeCCCCCChhHHHHHHHHhcCCCeEEeecCCCCCEEeeEEEECCCcEEEeEeEEEEeCCCCEEcC
Confidence 000 1457999999999999999999999999999999999999999999888999999999999999999999999999
Q ss_pred CCcccCeec
Q 015469 366 VGVIPDHPL 374 (406)
Q Consensus 366 ~Gv~PDi~v 374 (406)
.||.|||+|
T Consensus 161 ~Gi~PDi~V 169 (169)
T PF03572_consen 161 IGIEPDIEV 169 (169)
T ss_dssp TS---SEE-
T ss_pred CcEEccEEC
Confidence 999999987
No 12
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=99.45 E-value=5.8e-14 Score=103.20 Aligned_cols=67 Identities=27% Similarity=0.464 Sum_probs=53.9
Q ss_pred chhhHHHHHHHHHHHHhccccccCCcchHHHHHhhhhc-CCCCCHHHHHHHHHHHHHhCCCCCCCccC
Q 015469 19 SEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRN-EPMNTREETYMAIRKMLATLDDPFTRFLE 85 (406)
Q Consensus 19 ~~~~~~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~-~~~~~~~~~~~~i~~~~~~L~D~ht~~~~ 85 (406)
.+++++|+++|++++++|++++++|+||++++++|.+. ..+.++.+|+.++.+|+++|+|+|+.+.+
T Consensus 2 ~E~~~~F~~~W~~~~~~f~d~~~~gvDW~~~~~~Y~p~v~~~~~~~el~~vl~eMl~eL~~~H~~~~~ 69 (70)
T PF14684_consen 2 AEWRQMFDEAWRLVRENFYDPDMHGVDWDAVYDRYRPLVPAAKTRDELYDVLNEMLGELNDSHTYVYG 69 (70)
T ss_dssp HHHHHHHHHHHHHHHHHSS-HHHHHHHHHHHHHHHHGGGGG--SHHHHHHHHHHHHHTT--S---EE-
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCChHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHCCCccCccC
Confidence 47889999999999999999999999999999999876 46788999999999999999999998753
No 13
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=99.36 E-value=1.1e-11 Score=94.65 Aligned_cols=79 Identities=37% Similarity=0.618 Sum_probs=64.8
Q ss_pred eeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHh-CCCCCCcEEEEEEeCCee
Q 015469 102 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL-QGPEGSPVELTVRSGAEI 180 (406)
Q Consensus 102 g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l-~~~~g~~v~l~v~r~g~~ 180 (406)
++|+.+..... .+++.|..|.++|||+++||++||+|++|||+++.++ .++...+ ...+|+++++++.|+++.
T Consensus 2 ~lGv~~~~~~~----~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~--~~~~~~l~~~~~g~~v~l~v~R~g~~ 75 (82)
T PF13180_consen 2 GLGVTVQNLSD----TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSS--EDLVNILSKGKPGDTVTLTVLRDGEE 75 (82)
T ss_dssp E-SEEEEECSC----SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSH--HHHHHHHHCSSTTSEEEEEEEETTEE
T ss_pred EECeEEEEccC----CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCH--HHHHHHHHhCCCCCEEEEEEEECCEE
Confidence 46666655421 3589999999999999999999999999999999874 7777666 677899999999999999
Q ss_pred EEEEEE
Q 015469 181 RHLALT 186 (406)
Q Consensus 181 ~~~~v~ 186 (406)
.+++++
T Consensus 76 ~~~~v~ 81 (82)
T PF13180_consen 76 LTVEVT 81 (82)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 988774
No 14
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.26 E-value=1.1e-10 Score=89.63 Aligned_cols=81 Identities=42% Similarity=0.786 Sum_probs=69.5
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC-Ce
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG-AE 179 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~-g~ 179 (406)
.++|+.+... ..+++|..+.++|||+++||++||+|++|||+++.+++..++...+....++.+.+++.|+ ++
T Consensus 2 ~~lG~~~~~~------~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~~~~ 75 (85)
T cd00988 2 GGIGLELKYD------DGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGDGE 75 (85)
T ss_pred eEEEEEEEEc------CCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcCCCC
Confidence 5778887654 4679999999999999999999999999999999998667888888777788999999998 88
Q ss_pred eEEEEEEe
Q 015469 180 IRHLALTR 187 (406)
Q Consensus 180 ~~~~~v~~ 187 (406)
..++++.+
T Consensus 76 ~~~~~~~~ 83 (85)
T cd00988 76 PREVTLTR 83 (85)
T ss_pred EEEEEEEE
Confidence 88777764
No 15
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.03 E-value=2.4e-09 Score=81.02 Aligned_cols=68 Identities=29% Similarity=0.418 Sum_probs=58.9
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCC-CCCcEEEEEEeCCeeEEEEEE
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLALT 186 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~-~g~~v~l~v~r~g~~~~~~v~ 186 (406)
..++.|..|.++|||+++||++||+|++|||+++.++ .++...+... .|+++.+++.|+++..+++++
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~--~d~~~~l~~~~~g~~v~l~v~r~g~~~~~~~~ 77 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTL--EDFMEALKPTKPGEVITVTVLPSTTKLTNVST 77 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCH--HHHHHHHhcCCCCCEEEEEEEECCEEEEEEEE
Confidence 4579999999999999999999999999999999985 6777777654 588999999999988877664
No 16
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.03 E-value=2e-09 Score=81.27 Aligned_cols=76 Identities=37% Similarity=0.552 Sum_probs=61.1
Q ss_pred eEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEE
Q 015469 103 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRH 182 (406)
Q Consensus 103 ~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~ 182 (406)
+|+..+.. ...++|..+.++|||+++||++||+|++|||+++.++ .++...+....++.+.+++.|+++..+
T Consensus 3 ~~~~~g~~------~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~--~~~~~~l~~~~~~~~~l~v~r~~~~~~ 74 (79)
T cd00989 3 LGFVPGGP------PIEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSW--EDLVDAVQENPGKPLTLTVERNGETIT 74 (79)
T ss_pred eeEeccCC------ccCcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHHCCCceEEEEEEECCEEEE
Confidence 45555543 3358899999999999999999999999999999985 677777765557789999999887766
Q ss_pred EEEE
Q 015469 183 LALT 186 (406)
Q Consensus 183 ~~v~ 186 (406)
+.+.
T Consensus 75 ~~l~ 78 (79)
T cd00989 75 LTLT 78 (79)
T ss_pred EEec
Confidence 6553
No 17
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=98.98 E-value=3.2e-09 Score=78.13 Aligned_cols=68 Identities=47% Similarity=0.715 Sum_probs=57.4
Q ss_pred eeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEE
Q 015469 102 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 174 (406)
Q Consensus 102 g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 174 (406)
++|+.+.... +.+++|..+.++|||+.+||++||+|++|||+++.++...++.++++...|+++++++
T Consensus 2 ~~G~~~~~~~-----~~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 69 (70)
T cd00136 2 GLGFSIRGGT-----EGGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69 (70)
T ss_pred CccEEEecCC-----CCCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEE
Confidence 3566665431 2379999999999999999999999999999999998888999999887788888876
No 18
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.95 E-value=7.8e-09 Score=78.25 Aligned_cols=67 Identities=27% Similarity=0.398 Sum_probs=54.9
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEe
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTR 187 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~ 187 (406)
++++.|..|.++|||+.+||++||+|++|||+++.++ .++...+ ..++.+.+++.|+++..++.++.
T Consensus 11 ~~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~--~~~l~~~--~~~~~v~l~v~r~g~~~~~~v~~ 77 (80)
T cd00990 11 EGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDAL--QDRLKEY--QAGDPVELTVFRDDRLIEVPLTL 77 (80)
T ss_pred CCcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHH--HHHHHhc--CCCCEEEEEEEECCEEEEEEEEe
Confidence 4579999999999999999999999999999999873 3443333 36778999999999887776653
No 19
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.88 E-value=1.8e-08 Score=76.14 Aligned_cols=69 Identities=26% Similarity=0.354 Sum_probs=58.1
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEeec
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTREK 189 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~~~ 189 (406)
.+++|..|.++|||+. ||++||+|++|||.++.++ .++...+.. ..+..+.+++.|+|+..+++++...
T Consensus 8 ~Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~~~~~v~l~v~r~g~~~~~~v~l~~ 77 (79)
T cd00986 8 HGVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEA--EELIDYIQSKKEGDTVKLKVKREEKELPEDLILKT 77 (79)
T ss_pred cCEEEEEECCCCchhh-CCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCCEEEEEEEECCEEEEEEEEEec
Confidence 4689999999999986 7999999999999999985 667777764 5678899999999998887776543
No 20
>PF00595 PDZ: PDZ domain (Also known as DHR or GLGF) Coordinates are not yet available; InterPro: IPR001478 PDZ domains are found in diverse signalling proteins in bacteria, yeasts, plants, insects and vertebrates [, ]. PDZ domains can occur in one or multiple copies and are nearly always found in cytoplasmic proteins. They bind either the carboxyl-terminal sequences of proteins or internal peptide sequences []. In most cases, interaction between a PDZ domain and its target is constitutive, with a binding affinity of 1 to 10 microns. However, agonist-dependent activation of cell surface receptors is sometimes required to promote interaction with a PDZ protein. PDZ domain proteins are frequently associated with the plasma membrane, a compartment where high concentrations of phosphatidylinositol 4,5-bisphosphate (PIP2) are found. Direct interaction between PIP2 and a subset of class II PDZ domains (syntenin, CASK, Tiam-1) has been demonstrated. PDZ domains consist of 80 to 90 amino acids comprising six beta-strands (beta-A to beta-F) and two alpha-helices, A and B, compactly arranged in a globular structure. Peptide binding of the ligand takes place in an elongated surface groove as an anti-parallel beta-strand interacts with the beta-B strand and the B helix. The structure of PDZ domains allows binding to a free carboxylate group at the end of a peptide through a carboxylate-binding loop between the beta-A and beta-B strands.; GO: 0005515 protein binding; PDB: 3AXA_A 1WF8_A 1QAV_B 1QAU_A 1B8Q_A 1MC7_A 2KAW_A 1I16_A 1VB7_A 1WI4_A ....
Probab=98.82 E-value=1.3e-08 Score=77.24 Aligned_cols=72 Identities=35% Similarity=0.564 Sum_probs=57.8
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 175 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 175 (406)
.++|+.+....... ..+++|..+.++|||+++||++||+|++|||+++.+++..++..+++...+ +++|+|+
T Consensus 10 ~~lG~~l~~~~~~~--~~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~~~-~v~L~V~ 81 (81)
T PF00595_consen 10 GPLGFTLRGGSDND--EKGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSASN-PVTLTVQ 81 (81)
T ss_dssp SBSSEEEEEESTSS--SEEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHSTS-EEEEEEE
T ss_pred CCcCEEEEecCCCC--cCCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCCCC-cEEEEEC
Confidence 35677776542100 148999999999999999999999999999999999998999988886554 7777763
No 21
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.72 E-value=7e-08 Score=74.63 Aligned_cols=66 Identities=36% Similarity=0.550 Sum_probs=54.6
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCC-CCCcEEEEEEeCCeeEEEE
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLA 184 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~-~g~~v~l~v~r~g~~~~~~ 184 (406)
.++++|..|.++|||+++||++||+|++|||+++.++ .++...+... .+..+.+++.|+|+..++.
T Consensus 23 ~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~--~~~~~~l~~~~~~~~i~l~v~r~g~~~~~~ 89 (90)
T cd00987 23 TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSV--ADLRRALAELKPGDKVTLTVLRGGKELTVT 89 (90)
T ss_pred CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEee
Confidence 3578999999999999999999999999999999985 5666666543 4788999999998765543
No 22
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=98.63 E-value=8.2e-08 Score=94.14 Aligned_cols=159 Identities=14% Similarity=0.155 Sum_probs=106.7
Q ss_pred EeeeccCCCCcccchhhHHHHHHHHHHHHhccccccCCcchHHHHHhhhhcCCCCCHHHHHHHHHHHHHhCCCC-CCCcc
Q 015469 6 TTIALSETPSLALSEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDP-FTRFL 84 (406)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~D~-ht~~~ 84 (406)
+.++++|+.++..+.+++.+|.+++.|...+-. ..+++..+.++..+...... +..+|++ +.+.+-.++ ...++
T Consensus 362 lv~L~lDl~iR~r~~~~~SLDdvmram~~~~~~-~~~~~t~e~v~av~~~~tg~-dl~~f~~---~~i~~~~~~~l~~~l 436 (558)
T COG3975 362 LVALLLDLLIRERGGGQKSLDDVMRALWKEFGR-AERGYTPEDVQAVLENVTGL-DLATFFD---EYIEGTEPPPLNPLL 436 (558)
T ss_pred HHHHHHHHHHHhcCCCcccHHHHHHHHHHHhCc-CccCCCHHHHHHHHHhhccc-cHHHHHH---HHhhcCCCCChhhhh
Confidence 345677888899999999999999999998866 44677777777666554442 3344443 444333322 22222
Q ss_pred ChhhhccccccCcceeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC
Q 015469 85 EPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG 164 (406)
Q Consensus 85 ~~~~~~~~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~ 164 (406)
.+....- . ....+...+|+.+... .++.+|+.|.++|||+.|||.+||+|++|||.+- ++.+.
T Consensus 437 ~~~gL~~-~-~~~~~~~~LGl~v~~~------~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~s~---------~l~~~ 499 (558)
T COG3975 437 ERFGLTF-T-PKPREAYYLGLKVKSE------GGHEKITFVFPGGPAYKAGLSPGDKIVAINGISD---------QLDRY 499 (558)
T ss_pred hhcceEE-E-ecCCCCcccceEeccc------CCeeEEEecCCCChhHhccCCCccEEEEEcCccc---------ccccc
Confidence 2211110 0 1112234677777654 6788999999999999999999999999999821 22234
Q ss_pred CCCCcEEEEEEeCCeeEEEEEE
Q 015469 165 PEGSPVELTVRSGAEIRHLALT 186 (406)
Q Consensus 165 ~~g~~v~l~v~r~g~~~~~~v~ 186 (406)
+.+..+.+++.|.+..+++.++
T Consensus 500 ~~~d~i~v~~~~~~~L~e~~v~ 521 (558)
T COG3975 500 KVNDKIQVHVFREGRLREFLVK 521 (558)
T ss_pred ccccceEEEEccCCceEEeecc
Confidence 5788999999999888877664
No 23
>smart00228 PDZ Domain present in PSD-95, Dlg, and ZO-1/2. Also called DHR (Dlg homologous region) or GLGF (relatively well conserved tetrapeptide in these domains). Some PDZs have been shown to bind C-terminal polypeptides; others appear to bind internal (non-C-terminal) polypeptides. Different PDZs possess different binding specificities.
Probab=98.58 E-value=4.7e-07 Score=68.95 Aligned_cols=74 Identities=39% Similarity=0.612 Sum_probs=56.1
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCC
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 178 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g 178 (406)
..+|+.+..... ...+++|..+.++|||+.+||++||+|++|||+++.++...+....+... +.++.+++.|++
T Consensus 12 ~~~G~~~~~~~~---~~~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~~ 85 (85)
T smart00228 12 GGLGFSLVGGKD---EGGGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRGG 85 (85)
T ss_pred CcccEEEECCCC---CCCCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeCC
Confidence 346666653210 01579999999999999999999999999999999988666666666543 458888887653
No 24
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.57 E-value=4.1e-07 Score=69.40 Aligned_cols=74 Identities=28% Similarity=0.482 Sum_probs=52.9
Q ss_pred eEEEEeeccCCCCCCCcEEEEEeCCC--------ChhhhcC--CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEE
Q 015469 103 VGLSIGYPTASDGSSAGLVVISSMPG--------GPANRAG--ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVEL 172 (406)
Q Consensus 103 ~g~~~~~~~~~~~~~~~~~V~~v~~~--------spA~~aG--l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l 172 (406)
+|..+.+. ++++.|.+++++ ||-.+.| +++||.|++|||+++..- .++..+|.++.|+++.|
T Consensus 3 LGAd~~~~------~~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~--~~~~~lL~~~agk~V~L 74 (88)
T PF14685_consen 3 LGADFSYD------NGGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTAD--ANPYRLLEGKAGKQVLL 74 (88)
T ss_dssp -SEEEEEE------TTEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTT--B-HHHHHHTTTTSEEEE
T ss_pred cceEEEEc------CCEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCC--CCHHHHhcccCCCEEEE
Confidence 56666655 578999999986 7888887 569999999999999873 57888999999999999
Q ss_pred EEEeCC-eeEEEE
Q 015469 173 TVRSGA-EIRHLA 184 (406)
Q Consensus 173 ~v~r~g-~~~~~~ 184 (406)
+|.+.+ +.+++.
T Consensus 75 tv~~~~~~~R~v~ 87 (88)
T PF14685_consen 75 TVNRKPGGARTVV 87 (88)
T ss_dssp EEE-STT-EEEEE
T ss_pred EEecCCCCceEEE
Confidence 998755 555554
No 25
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=98.54 E-value=4.2e-07 Score=68.89 Aligned_cols=70 Identities=37% Similarity=0.566 Sum_probs=53.4
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEE
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 174 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 174 (406)
.++|+.+..... ...+++|..+.++|||+++||++||+|++|||+++.+++..++...++...+ ++++++
T Consensus 12 ~~~G~~~~~~~~---~~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 12 GGLGFSLRGGKD---SGGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCcCEEEeCccc---CCCCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 346666643210 0247999999999999999999999999999999997777888888875443 555554
No 26
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.50 E-value=4.3e-07 Score=90.60 Aligned_cols=68 Identities=26% Similarity=0.419 Sum_probs=61.1
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEee
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
+.+|..|.++|||+++||++||+|++|||+++.++ +++...+....++++.++++|+|+..++++++.
T Consensus 204 g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g~~~~~~v~~~ 271 (420)
T TIGR00054 204 EPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSW--TDFVSAVKENPGKSMDIKVERNGETLSISLTPE 271 (420)
T ss_pred CcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCceEEEEEECCEEEEEEEEEc
Confidence 57899999999999999999999999999999985 778888877778889999999999888888764
No 27
>PRK10139 serine endoprotease; Provisional
Probab=98.45 E-value=7.3e-07 Score=89.64 Aligned_cols=69 Identities=20% Similarity=0.375 Sum_probs=60.3
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEe
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTR 187 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~ 187 (406)
..+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+++.|+|+..+++++.
T Consensus 289 ~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l~V~R~G~~~~l~v~~ 358 (455)
T PRK10139 289 QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSF--AELRSRIATTEPGTKVKLGLLRNGKPLEVEVTL 358 (455)
T ss_pred CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEEEEEE
Confidence 3578999999999999999999999999999999996 677666654 57889999999999988887764
No 28
>PRK10898 serine endoprotease; Provisional
Probab=98.43 E-value=1.2e-06 Score=85.47 Aligned_cols=69 Identities=26% Similarity=0.452 Sum_probs=59.0
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEee
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+++.|+++..++.++..
T Consensus 279 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~~l~~~l~~~~~g~~v~l~v~R~g~~~~~~v~l~ 348 (353)
T PRK10898 279 QGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISA--LETMDQVAEIRPGSVIPVVVMRDDKQLTLQVTIQ 348 (353)
T ss_pred CeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEEEEEec
Confidence 589999999999999999999999999999999885 555555543 578899999999998888777654
No 29
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=98.42 E-value=9.5e-07 Score=86.09 Aligned_cols=69 Identities=35% Similarity=0.480 Sum_probs=59.6
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEee
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+++.|+|+..+++++..
T Consensus 278 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~dl~~~l~~~~~g~~v~l~v~R~g~~~~~~v~l~ 347 (351)
T TIGR02038 278 RGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGA--EELMDRIAETRPGSKVMVTVLRQGKQLELPVTID 347 (351)
T ss_pred ccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEEEEEec
Confidence 479999999999999999999999999999999985 666666654 578899999999999888877643
No 30
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=98.41 E-value=1.2e-06 Score=81.34 Aligned_cols=68 Identities=18% Similarity=0.218 Sum_probs=57.9
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEE
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALT 186 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~ 186 (406)
..++.|..+.++|||+++||++||+|++|||+++.++ .++.+.+.. ..++.++++|.|+|+..++.+.
T Consensus 190 ~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~--~~~~~~l~~~~~~~~v~l~V~R~G~~~~i~v~ 258 (259)
T TIGR01713 190 LEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP--EQAFQALQMLREETNLTLTVERDGQREDIYVR 258 (259)
T ss_pred eeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCeEEEEEEECCEEEEEEEE
Confidence 3589999999999999999999999999999999985 666666654 3668899999999998877653
No 31
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.41 E-value=9.6e-07 Score=88.98 Aligned_cols=68 Identities=22% Similarity=0.359 Sum_probs=60.3
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEee
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
+.+|..|.++|||+++||++||+|++|||+++.++ +++.+.+....++++.+++.|+|+..++++++.
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g~~~~~~v~~~ 289 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQW--QTFVTLVRDNPGKPLALEIERQGSPLSLTLTPD 289 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhCCCCEEEEEEEECCEEEEEEEEee
Confidence 47899999999999999999999999999999985 677777776678899999999999888887764
No 32
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=98.33 E-value=2.1e-06 Score=86.21 Aligned_cols=69 Identities=28% Similarity=0.491 Sum_probs=59.1
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEee
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++++++.|+++..+++++..
T Consensus 257 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~--~~~~~~l~~~~~g~~v~l~v~R~g~~~~~~v~l~ 326 (428)
T TIGR02037 257 RGALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSF--ADLRRAIGTLKPGKKVTLGILRKGKEKTITVTLG 326 (428)
T ss_pred CceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEEEEEEC
Confidence 578999999999999999999999999999999985 566655543 568899999999999888877643
No 33
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.27 E-value=1.7e-06 Score=87.16 Aligned_cols=67 Identities=21% Similarity=0.096 Sum_probs=54.8
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHh-CCCCCCcEEEEEEeCCeeEEEEEEe
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL-QGPEGSPVELTVRSGAEIRHLALTR 187 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l-~~~~g~~v~l~v~r~g~~~~~~v~~ 187 (406)
...|..|.++|||++|||++||+|++|||+++.++ +++...+ ....++++++++.|+|+.++++++.
T Consensus 127 ~~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~--~~l~~~v~~~~~g~~v~v~v~R~gk~~~~~v~l 194 (449)
T PRK10779 127 RPVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDW--DAVRLALVSKIGDESTTITVAPFGSDQRRDKTL 194 (449)
T ss_pred CccccccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhccCCceEEEEEeCCccceEEEEe
Confidence 34789999999999999999999999999999996 5554444 3346788999999999877666543
No 34
>PRK10942 serine endoprotease; Provisional
Probab=98.27 E-value=3.4e-06 Score=85.25 Aligned_cols=69 Identities=23% Similarity=0.368 Sum_probs=58.9
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEEe
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTR 187 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~~ 187 (406)
..+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+++.|+|+.+++.++.
T Consensus 310 ~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l~v~R~G~~~~v~v~l 379 (473)
T PRK10942 310 QRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSF--AALRAQVGTMPVGSKLTLGLLRDGKPVNVNVEL 379 (473)
T ss_pred CCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECCeEEEEEEEe
Confidence 3578999999999999999999999999999999995 666655543 46889999999999888877754
No 35
>TIGR02860 spore_IV_B stage IV sporulation protein B. SpoIVB, the stage IV sporulation protein B of endospore-forming bacteria such as Bacillus subtilis, is a serine proteinase, expressed in the spore (rather than mother cell) compartment, that participates in a proteolytic activation cascade for Sigma-K. It appears to be universal among endospore-forming bacteria and occurs nowhere else.
Probab=98.21 E-value=9.7e-06 Score=78.91 Aligned_cols=69 Identities=28% Similarity=0.424 Sum_probs=56.7
Q ss_pred CcEEEEEeC--------CCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEee
Q 015469 118 AGLVVISSM--------PGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 118 ~~~~V~~v~--------~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.++.|.... .+|||+++||++||+|++|||+++.++ +++.+.+....++++.+++.|+++..++++.+.
T Consensus 105 ~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~--~DL~~iL~~~~g~~V~LtV~R~Ge~~tv~V~Pv 181 (402)
T TIGR02860 105 KGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNM--DDLANLINKAGGEKLTLTIERGGKIIETVIKPV 181 (402)
T ss_pred CEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCeEEEEEEECCEEEEEEEEEe
Confidence 466665542 258999999999999999999999996 778788876668899999999999888887643
No 36
>PRK10139 serine endoprotease; Provisional
Probab=98.19 E-value=5.4e-06 Score=83.46 Aligned_cols=65 Identities=25% Similarity=0.409 Sum_probs=56.1
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEE
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLAL 185 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v 185 (406)
.+++|..|.++|||+++||++||+|++|||+++.+| +++.+.+.... +++.+++.|+|+...+.+
T Consensus 390 ~Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~-~~v~l~v~R~g~~~~~~~ 454 (455)
T PRK10139 390 KGIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSI--AEMRKVLAAKP-AIIALQIVRGNESIYLLL 454 (455)
T ss_pred CceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhCC-CeEEEEEEECCEEEEEEe
Confidence 468999999999999999999999999999999996 77777776544 688999999998776654
No 37
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=98.15 E-value=7e-06 Score=82.40 Aligned_cols=65 Identities=31% Similarity=0.531 Sum_probs=56.5
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEE
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLA 184 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~ 184 (406)
.+++|..|.++|||+++||++||+|++|||+++.++ .++.+.+.. +.++.+.+++.|+++...+.
T Consensus 362 ~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~--~d~~~~l~~~~~g~~v~l~v~R~g~~~~~~ 427 (428)
T TIGR02037 362 KGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSV--AELRKVLDRAKKGGRVALLILRGGATIFVT 427 (428)
T ss_pred CceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEEE
Confidence 579999999999999999999999999999999984 777777765 36889999999999876543
No 38
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=98.13 E-value=1.2e-05 Score=67.09 Aligned_cols=86 Identities=24% Similarity=0.391 Sum_probs=57.9
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCC-CCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEe--C
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILS-GDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS--G 177 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~-GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r--~ 177 (406)
..+|+.+++..........+.|..|.|+|||+.|||++ .|.|+.+|+..+.+ .+++.+++....+.++.|.|.. .
T Consensus 26 g~LG~sv~~~~~~~~~~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~--~~~l~~~v~~~~~~~l~L~Vyns~~ 103 (138)
T PF04495_consen 26 GLLGISVRFESFEGAEEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDD--EDDLFELVEANENKPLQLYVYNSKT 103 (138)
T ss_dssp SSS-EEEEEEE-TTGCCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--S--TCHHHHHHHHTTTS-EEEEEEETTT
T ss_pred CCCcEEEEEecccccccceEEEeEecCCCHHHHCCccccccEEEEccceecCC--HHHHHHHHHHcCCCcEEEEEEECCC
Confidence 34566666543332335578999999999999999998 69999999988886 4678888888888999999975 4
Q ss_pred CeeEEEEEEee
Q 015469 178 AEIRHLALTRE 188 (406)
Q Consensus 178 g~~~~~~v~~~ 188 (406)
...+.+++++.
T Consensus 104 ~~vR~V~i~P~ 114 (138)
T PF04495_consen 104 DSVREVTITPS 114 (138)
T ss_dssp TCEEEEEE---
T ss_pred CeEEEEEEEcC
Confidence 45566776553
No 39
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=98.12 E-value=6.3e-06 Score=80.75 Aligned_cols=62 Identities=19% Similarity=0.393 Sum_probs=51.2
Q ss_pred EEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE-eCCeeEEEEEEee
Q 015469 122 VISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR-SGAEIRHLALTRE 188 (406)
Q Consensus 122 V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~-r~g~~~~~~v~~~ 188 (406)
|..|.|+|||+++||++||+|++|||+++.+| .++...+. ++.+.+++. |+|+..++++.+.
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw--~D~~~~l~---~e~l~L~V~~rdGe~~~l~Ie~~ 64 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDL--IDYQFLCA---DEELELEVLDANGESHQIEIEKD 64 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHhc---CCcEEEEEEcCCCeEEEEEEecC
Confidence 56789999999999999999999999999997 56555553 357888886 7888888888754
No 40
>PRK10942 serine endoprotease; Provisional
Probab=98.07 E-value=1.3e-05 Score=81.11 Aligned_cols=65 Identities=26% Similarity=0.448 Sum_probs=55.9
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEE
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLAL 185 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v 185 (406)
.+++|..|.++|||+++||++||+|++|||+++.++ +++.+.+... +..+.++|+|+|....+.+
T Consensus 408 ~gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s~--~dl~~~l~~~-~~~v~l~V~R~g~~~~v~~ 472 (473)
T PRK10942 408 KGVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKNI--AELRKILDSK-PSVLALNIQRGDSSIYLLM 472 (473)
T ss_pred CCeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhC-CCeEEEEEEECCEEEEEEe
Confidence 468999999999999999999999999999999995 7777777653 3789999999998766543
No 41
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=2.8e-05 Score=67.60 Aligned_cols=73 Identities=32% Similarity=0.365 Sum_probs=60.0
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCC-HHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEeeccc
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMG-IYDAAERLQGPEGSPVELTVRSGAEIRHLALTREKVS 191 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~-~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~~~~~ 191 (406)
..+|..|.|+|||+.+||+.||+|+++....-.+.. +..+....+...+..+.+++.|.|....+.+++..+.
T Consensus 140 Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~e~~~v~v~v~R~g~~v~L~ltP~~W~ 213 (231)
T KOG3129|consen 140 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQKVVLSLTPKKWQ 213 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCCCEEEEEeCccccc
Confidence 578999999999999999999999999987766543 3445555566778999999999999998888876553
No 42
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.86 E-value=2.8e-05 Score=78.59 Aligned_cols=73 Identities=26% Similarity=0.352 Sum_probs=59.0
Q ss_pred eeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC
Q 015469 100 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG 177 (406)
Q Consensus 100 ~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~ 177 (406)
-.||||.+-....+ ..--|..+++||||++.| |++||.|++|||++|.+++..+++++++ ..|-+|+|+|...
T Consensus 764 NeGFGFVi~sS~~k----p~sgiGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIK-daGlsVtLtIip~ 837 (984)
T KOG3209|consen 764 NEGFGFVIMSSQNK----PESGIGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIK-DAGLSVTLTIIPP 837 (984)
T ss_pred CCceeEEEEecccC----CCCCccccccCChhHhhccccccceEEEecCeeeeccCchhHHHHHH-hcCceEEEEEcCh
Confidence 36788876432211 122389999999999998 9999999999999999999999999997 4788999998653
No 43
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.79 E-value=2e-05 Score=59.95 Aligned_cols=47 Identities=26% Similarity=0.336 Sum_probs=40.4
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhC
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ 163 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~ 163 (406)
+.+++|++|.+||||+.|||+.+|.|+.|||....-...+.+++.+.
T Consensus 58 D~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i~ 104 (124)
T KOG3553|consen 58 DKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRIT 104 (124)
T ss_pred CccEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHhh
Confidence 55899999999999999999999999999998876665666666665
No 44
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=97.78 E-value=3.3e-05 Score=77.13 Aligned_cols=63 Identities=19% Similarity=0.208 Sum_probs=51.9
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEE
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLA 184 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~ 184 (406)
+..|..|.++|||+++|+++||+|++|||+++.++ .++...+.... .++.+++.|+++..++.
T Consensus 129 g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~--~dl~~~ia~~~-~~v~~~I~r~g~~~~l~ 191 (420)
T TIGR00054 129 GPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGF--KDVRQQIADIA-GEPMVEILAERENWTFE 191 (420)
T ss_pred CceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhc-ccceEEEEEecCceEec
Confidence 56899999999999999999999999999999985 66666555444 67889998877665543
No 45
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=0.00026 Score=69.12 Aligned_cols=70 Identities=36% Similarity=0.590 Sum_probs=59.0
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhC-CCCCCcEEEEEEeCCeeEEEEEEee
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ-GPEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~-~~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
..+.+|..+.+++||.++|+++||+|+++||+++.+. .++...+. ...|+++.+++.|+|+..++.++..
T Consensus 269 ~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~--~~l~~~v~~~~~g~~v~~~~~r~g~~~~~~v~l~ 339 (347)
T COG0265 269 AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASL--SDLVAAVASNRPGDEVALKLLRGGKERELAVTLG 339 (347)
T ss_pred CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCH--HHHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Confidence 3468999999999999999999999999999999984 55555544 3468999999999999888877643
No 46
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=97.55 E-value=0.00024 Score=58.38 Aligned_cols=71 Identities=30% Similarity=0.488 Sum_probs=54.0
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhc-CCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRA-GILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 175 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~a-Gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 175 (406)
.|+||.+--- +..+..++|+.++||+-|++- ||+.||.+++|||.++..-..+..+.++....| ++.+.|+
T Consensus 101 eglgfnvmgg---keqnspiyisriipggvadrhgglkrgdqllsvngvsvege~hekavellkaa~g-svklvvr 172 (207)
T KOG3550|consen 101 EGLGFNVMGG---KEQNSPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEHHEKAVELLKAAVG-SVKLVVR 172 (207)
T ss_pred cccceeeccC---cccCCceEEEeecCCccccccCcccccceeEeecceeecchhhHHHHHHHHHhcC-cEEEEEe
Confidence 4677765321 112557999999999999987 599999999999999998777888888875444 5566554
No 47
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=97.20 E-value=0.0021 Score=59.86 Aligned_cols=66 Identities=20% Similarity=0.321 Sum_probs=54.5
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEe-CCeeEEEEEEe
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRS-GAEIRHLALTR 187 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r-~g~~~~~~v~~ 187 (406)
++++..+..+||+... |+.||.|++|||+++.+ .+++..++.+ +.|++++++++| ++++...+++-
T Consensus 131 gvyv~~v~~~~~~~gk-l~~gD~i~avdg~~f~s--~~e~i~~v~~~k~Gd~VtI~~~r~~~~~~~~~~tl 198 (342)
T COG3480 131 GVYVLSVIDNSPFKGK-LEAGDTIIAVDGEPFTS--SDELIDYVSSKKPGDEVTIDYERHNETPEIVTITL 198 (342)
T ss_pred eEEEEEccCCcchhce-eccCCeEEeeCCeecCC--HHHHHHHHhccCCCCeEEEEEEeccCCCceEEEEE
Confidence 7899999999998654 99999999999999998 4788887765 479999999986 66666555543
No 48
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.13 E-value=0.0015 Score=66.46 Aligned_cols=77 Identities=27% Similarity=0.380 Sum_probs=63.2
Q ss_pred eeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEe
Q 015469 99 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRS 176 (406)
Q Consensus 99 ~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r 176 (406)
.+.||||.+.--++ -..+..+.|.+|++++||++.| |+.||+|+.|||..+-.....++++.++. +.|..|.|++.|
T Consensus 353 g~~GFGfTliGGdd-~~gDefLqVKsvl~DGPAa~dGkle~GDviV~INg~cvlGhTHAqaV~~fqaiPvg~~V~L~lcR 431 (984)
T KOG3209|consen 353 GYMGFGFTLIGGDD-VRGDEFLQVKSVLKDGPAAQDGKLETGDVIVHINGECVLGHTHAQAVKRFQAIPVGQSVDLVLCR 431 (984)
T ss_pred cccccceEEecCCc-CCCCceeeeeecccCCchhhcCccccCcEEEEECCceeccccHHHHHHHhhccccCCeeeEEEec
Confidence 45789998754321 1124468899999999999998 99999999999999999888899988874 568999999977
No 49
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=97.03 E-value=0.005 Score=57.19 Aligned_cols=54 Identities=15% Similarity=0.294 Sum_probs=41.9
Q ss_pred hhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEEEeCCeeEEEEEE
Q 015469 131 ANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALT 186 (406)
Q Consensus 131 A~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v~r~g~~~~~~v~ 186 (406)
-..+||++||++++|||.++.+. .+..+++.. ...+.++|+|+|+|+..++.+.
T Consensus 220 F~~~GLq~GDva~sING~dL~D~--~qa~~l~~~L~~~tei~ltVeRdGq~~~i~i~ 274 (276)
T PRK09681 220 FDASGFKEGDIAIALNQQDFTDP--RAMIALMRQLPSMDSIQLTVLRKGARHDISIA 274 (276)
T ss_pred HHHcCCCCCCEEEEeCCeeCCCH--HHHHHHHHHhccCCeEEEEEEECCEEEEEEEE
Confidence 46779999999999999999874 444443332 2567899999999998887663
No 50
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=96.99 E-value=0.0025 Score=64.73 Aligned_cols=69 Identities=29% Similarity=0.490 Sum_probs=58.5
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeCCeeEEEEEEee
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.+-++|..|.++|||++. |++||.+++||+.-+.++ ..+.+.+....|+.++|+|.|.|+..+++++-.
T Consensus 302 tgmLvV~~vL~~gpa~k~-Le~GDillavN~t~l~df--~~l~~iLDegvgk~l~LtI~Rggqelel~vtvq 370 (955)
T KOG1421|consen 302 TGMLVVETVLPEGPAEKK-LEPGDILLAVNSTCLNDF--EALEQILDEGVGKNLELTIQRGGQELELTVTVQ 370 (955)
T ss_pred ceeEEEEEeccCCchhhc-cCCCcEEEEEcceehHHH--HHHHHHHhhccCceEEEEEEeCCEEEEEEEEec
Confidence 345789999999999987 999999999998888773 566677777789999999999999888887643
No 51
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=96.72 E-value=0.0026 Score=63.56 Aligned_cols=57 Identities=26% Similarity=0.446 Sum_probs=48.4
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHH-hCCCCCCcEEEEEE
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAER-LQGPEGSPVELTVR 175 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~-l~~~~g~~v~l~v~ 175 (406)
+++|..|.++|||+..||+.||.|++||.++..++..++++.+ |.-++|+.++|.-.
T Consensus 430 GIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtilaQ 487 (1027)
T KOG3580|consen 430 GIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILAQ 487 (1027)
T ss_pred eEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehhh
Confidence 7999999999999999999999999999999999866666554 44567888887653
No 52
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=96.36 E-value=0.0063 Score=57.05 Aligned_cols=73 Identities=25% Similarity=0.358 Sum_probs=60.3
Q ss_pred eeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE
Q 015469 99 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 175 (406)
Q Consensus 99 ~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 175 (406)
...|+|+.+.--.. .+=.++|+.+.++-.|+..| |=.||.|++|||+.+.....++++++|+ +.|+.|+++|.
T Consensus 64 ~vGGlGLSIKGGaE---Hn~PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLR-NAGdeVtlTV~ 137 (505)
T KOG3549|consen 64 KVGGLGLSIKGGAE---HNLPVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILR-NAGDEVTLTVK 137 (505)
T ss_pred ecCcceeeeccccc---cCccEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHH-hcCCEEEEEeH
Confidence 45788888753211 12368899999999999998 7899999999999999999999999998 58899999984
No 53
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=96.28 E-value=0.0042 Score=62.94 Aligned_cols=57 Identities=32% Similarity=0.522 Sum_probs=48.8
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 175 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 175 (406)
..+++|..|.|++.|+++||+.||+|++|||+..+.+....+..+|+++ ..+++++.
T Consensus 561 GfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrnn--thLtltvK 617 (1283)
T KOG3542|consen 561 GFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRNN--THLTLTVK 617 (1283)
T ss_pred cceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcCC--ceEEEEEe
Confidence 4479999999999999999999999999999999998878888888853 45566654
No 54
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=96.26 E-value=0.0058 Score=64.05 Aligned_cols=67 Identities=27% Similarity=0.355 Sum_probs=53.8
Q ss_pred eeeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEe
Q 015469 99 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS 176 (406)
Q Consensus 99 ~~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r 176 (406)
...||||.-+ ..++|..|.+|+|+.- .|++||.|++|||.++.....+.+..+++. -.+++.|+|-+
T Consensus 65 ~~lGFgfvag---------rPviVr~VT~GGps~G-KL~PGDQIl~vN~Epv~daprervIdlvRa-ce~sv~ltV~q 131 (1298)
T KOG3552|consen 65 ASLGFGFVAG---------RPVIVRFVTEGGPSIG-KLQPGDQILAVNGEPVKDAPRERVIDLVRA-CESSVNLTVCQ 131 (1298)
T ss_pred ccccceeecC---------CceEEEEecCCCCccc-cccCCCeEEEecCcccccccHHHHHHHHHH-HhhhcceEEec
Confidence 4567777653 3688999999999864 399999999999999999888888888874 34677888755
No 55
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=96.14 E-value=0.011 Score=54.50 Aligned_cols=56 Identities=23% Similarity=0.342 Sum_probs=46.7
Q ss_pred cEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEE
Q 015469 119 GLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 175 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 175 (406)
.++|..|..++||++.| ++.||+|++|||+++.+...-++.++++... ..|.+.+.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~-~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSL-NEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhc-cceEEEeh
Confidence 58999999999999998 9999999999999999987677778887433 45666663
No 56
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=95.87 E-value=0.02 Score=60.41 Aligned_cols=58 Identities=31% Similarity=0.461 Sum_probs=50.1
Q ss_pred cEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC
Q 015469 119 GLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG 177 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~ 177 (406)
+++|..|++|++|+..| |+.||.+++|||+.+-+++.+++..++. ..|..|.+.|...
T Consensus 961 GIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmt-rtg~vV~leVaKq 1019 (1629)
T KOG1892|consen 961 GIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMT-RTGNVVHLEVAKQ 1019 (1629)
T ss_pred ceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHh-ccCCeEEEehhhh
Confidence 79999999999999888 9999999999999999998777777775 4677888888643
No 57
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.031 Score=55.73 Aligned_cols=68 Identities=19% Similarity=0.275 Sum_probs=55.5
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCC-CCCcEEEEEEeCCeeEEEEEEee
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~-~g~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.+.|..|.+++++...++.+||+|++|||+++.+. .++..+++.. .++++.+..+|..+..++.+..+
T Consensus 399 ~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~--~~l~~~i~~~~~~~~v~vl~~~~~e~~tl~Il~~ 467 (473)
T KOG1320|consen 399 LVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNL--KHLYELIEECSTEDKVAVLDRRSAEDATLEILPE 467 (473)
T ss_pred EEEEEEeccCCCcccccccCCCEEEEECCEEeech--HHHHHHHHhcCcCceEEEEEecCccceeEEeccc
Confidence 47789999999999999999999999999999994 7777777653 24577777777777777776543
No 58
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=95.81 E-value=0.058 Score=47.23 Aligned_cols=69 Identities=29% Similarity=0.437 Sum_probs=57.6
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 223 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
.....+.+.|++..+.+++.|||++ +.|||.+..+..+...+.. .+.|++..+
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~ivl~i-nspGG~v~~~~~I~~~l~~--------------------------~~~pvva~V 65 (178)
T cd07021 13 GLAAFVERALKEAKEEGADAVVLDI-DTPGGRVDSALEIVDLILN--------------------------SPIPTIAYV 65 (178)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEE-ECcCCCHHHHHHHHHHHHh--------------------------CCCCEEEEE
Confidence 3456788889888877899999999 8899999998888877642 226899999
Q ss_pred cCCCccHHHHHHHHHh
Q 015469 303 NKGTASASEILAGALK 318 (406)
Q Consensus 303 d~~t~SaaE~~a~~lk 318 (406)
++.++|++-+++.+..
T Consensus 66 ~g~AaSaG~~ia~a~d 81 (178)
T cd07021 66 NDRAASAGALIALAAD 81 (178)
T ss_pred CCchHHHHHHHHHhCC
Confidence 9999999999999775
No 59
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=95.79 E-value=0.027 Score=57.44 Aligned_cols=65 Identities=26% Similarity=0.340 Sum_probs=48.4
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEE
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVEL 172 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l 172 (406)
..+|+.+.... ..-+.|-.|.+++||.++.+++||++++|||+||.+. .++.+.++...|+-..|
T Consensus 386 ~~ig~vf~~~~-----~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~--~q~~~~~~s~~~~~~~l 450 (1051)
T KOG3532|consen 386 SPIGLVFDKNT-----NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSE--RQATRFLQSTTGDLTVL 450 (1051)
T ss_pred CceeEEEecCC-----ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhH--HHHHHHHHhcccceEEE
Confidence 45677665431 3356799999999999999999999999999999984 66666666544443333
No 60
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=95.74 E-value=0.025 Score=56.76 Aligned_cols=57 Identities=25% Similarity=0.432 Sum_probs=46.5
Q ss_pred cEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC
Q 015469 119 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG 177 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~ 177 (406)
.++|..|+||+||+-. |+.||.|+.|||.++.+....-+++.|+ +.|+...|+|+|.
T Consensus 41 SiViSDVlpGGPAeG~-LQenDrvvMVNGvsMenv~haFAvQqLr-ksgK~A~ItvkRp 97 (1027)
T KOG3580|consen 41 SIVISDVLPGGPAEGL-LQENDRVVMVNGVSMENVLHAFAVQQLR-KSGKVAAITVKRP 97 (1027)
T ss_pred eEEEeeccCCCCcccc-cccCCeEEEEcCcchhhhHHHHHHHHHH-hhccceeEEeccc
Confidence 5899999999999744 9999999999999998875555666676 4667778888765
No 61
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=95.66 E-value=0.027 Score=50.47 Aligned_cols=59 Identities=20% Similarity=0.246 Sum_probs=45.0
Q ss_pred eCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCC-CCCcEEEEEEeCCeeEEEEE
Q 015469 125 SMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLAL 185 (406)
Q Consensus 125 v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~-~g~~v~l~v~r~g~~~~~~v 185 (406)
.-+++.-...||++||+.++||+..+.+ .+++..+++.- .-..+.+||+|+|+...+.+
T Consensus 214 gkd~slF~~sglq~GDIavaiNnldltd--p~~m~~llq~l~~m~s~qlTv~R~G~rhdInV 273 (275)
T COG3031 214 GKDGSLFYKSGLQRGDIAVAINNLDLTD--PEDMFRLLQMLRNMPSLQLTVIRRGKRHDINV 273 (275)
T ss_pred CCCcchhhhhcCCCcceEEEecCcccCC--HHHHHHHHHhhhcCcceEEEEEecCccceeee
Confidence 3345677788999999999999999988 46665555432 33578999999998877654
No 62
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=95.34 E-value=0.036 Score=54.69 Aligned_cols=62 Identities=34% Similarity=0.474 Sum_probs=51.1
Q ss_pred CCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCC--CCcEEEEEEe
Q 015469 115 GSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPE--GSPVELTVRS 176 (406)
Q Consensus 115 ~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~--g~~v~l~v~r 176 (406)
..+++++|..+.++++.+..| |.+||.|+.||.....+++.++++..|+... ..+++++|-.
T Consensus 274 rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvAk 338 (626)
T KOG3571|consen 274 RGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVAK 338 (626)
T ss_pred CCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEee
Confidence 357899999999999887777 9999999999999999998888888887532 2357777743
No 63
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=94.97 E-value=0.025 Score=53.92 Aligned_cols=71 Identities=24% Similarity=0.383 Sum_probs=55.8
Q ss_pred eeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEE
Q 015469 100 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 174 (406)
Q Consensus 100 ~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 174 (406)
..|+|+.+.--.. ..=.+.|+.+.+|-.|++.+ |-.||.|++|||..+.+.+.+++++.|+ ..|+.|.+.|
T Consensus 95 ~gGLGISIKGGre---NkMPIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLK-raGkeV~lev 166 (506)
T KOG3551|consen 95 AGGLGISIKGGRE---NKMPILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALK-RAGKEVLLEV 166 (506)
T ss_pred CCcceEEeecCcc---cCCceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHH-hhCceeeeee
Confidence 4678887753210 12258899999999999987 9999999999999999988899888886 4677777666
No 64
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=94.62 E-value=0.041 Score=55.91 Aligned_cols=70 Identities=27% Similarity=0.480 Sum_probs=56.5
Q ss_pred cEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCC-CcEEEEEEeCCeeEEEEEEee
Q 015469 119 GLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEG-SPVELTVRSGAEIRHLALTRE 188 (406)
Q Consensus 119 ~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g-~~v~l~v~r~g~~~~~~v~~~ 188 (406)
.++|.+...++||++.| |-.||.|++|||.++-.+.+.....++++.++ +.|+++|.+=.-..++.|.|.
T Consensus 674 TVViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~cpPV~~V~I~RP 745 (829)
T KOG3605|consen 674 TVVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSCPPVTTVLIRRP 745 (829)
T ss_pred HHHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecCCCceEEEeecc
Confidence 46678888999999998 99999999999999999988888888887654 567888876555566666554
No 65
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=94.25 E-value=0.1 Score=52.30 Aligned_cols=69 Identities=25% Similarity=0.384 Sum_probs=55.3
Q ss_pred eeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEe
Q 015469 102 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS 176 (406)
Q Consensus 102 g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r 176 (406)
.+|+.++... ...++|..+..|+.+.+.| |..||+|.+|||+++.+....++..+++... .++++.+..
T Consensus 135 plG~Tik~~e-----~~~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~-G~itfkiiP 204 (542)
T KOG0609|consen 135 PLGATIRVEE-----DTKVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR-GSITFKIIP 204 (542)
T ss_pred ccceEEEecc-----CCccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC-CcEEEEEcc
Confidence 3566665531 2368999999999999999 7999999999999999988888888888666 466776643
No 66
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=94.23 E-value=0.11 Score=47.37 Aligned_cols=59 Identities=17% Similarity=0.381 Sum_probs=48.9
Q ss_pred CcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEeC
Q 015469 118 AGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG 177 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r~ 177 (406)
.+++|...+||+-|+..| |.+.|+|++|||+.|...+++++..++-.+ ...+-+||+..
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN-shNLIiTVkPA 253 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN-SHNLIITVKPA 253 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc-ccceEEEeccc
Confidence 479999999999999999 699999999999999998888888877643 34566666543
No 67
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.21 E-value=0.16 Score=49.45 Aligned_cols=82 Identities=27% Similarity=0.374 Sum_probs=59.0
Q ss_pred eEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCC-CCCEEEEE-CCEecCCCCHHHHHHHhCCCCCCcEEEEEEe--CC
Q 015469 103 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGIL-SGDVILAI-DDTSTESMGIYDAAERLQGPEGSPVELTVRS--GA 178 (406)
Q Consensus 103 ~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~-~GD~I~~I-ng~~v~~~~~~~~~~~l~~~~g~~v~l~v~r--~g 178 (406)
||+.+++-...--...-+.|.+|.++|||+.|||+ -+|.|+-+ |.+--. .+++..++..+.++.+.+.|.. ..
T Consensus 94 lGvsvrFcsf~~A~~~vwHvl~V~p~SPaalAgl~~~~DYivG~~~~~~~~---~eDl~~lIeshe~kpLklyVYN~D~d 170 (462)
T KOG3834|consen 94 LGVSVRFCSFDGAVESVWHVLSVEPNSPAALAGLRPYTDYIVGIWDAVMHE---EEDLFTLIESHEGKPLKLYVYNHDTD 170 (462)
T ss_pred cceEEEeccCccchhheeeeeecCCCCHHHhcccccccceEecchhhhccc---hHHHHHHHHhccCCCcceeEeecCCC
Confidence 66666654321111235779999999999999998 88999988 654433 3788899998999999998864 33
Q ss_pred eeEEEEEEe
Q 015469 179 EIRHLALTR 187 (406)
Q Consensus 179 ~~~~~~v~~ 187 (406)
..+.+++++
T Consensus 171 ~~ReVti~p 179 (462)
T KOG3834|consen 171 SCREVTITP 179 (462)
T ss_pred ccceEEeec
Confidence 456666664
No 68
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=94.05 E-value=0.071 Score=57.65 Aligned_cols=54 Identities=28% Similarity=0.345 Sum_probs=45.1
Q ss_pred EEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEE
Q 015469 120 LVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 174 (406)
Q Consensus 120 ~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 174 (406)
-.|..|.++|||..+|+++||.|+.|||+++..+...++.+++.. .|..+.+.+
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll~-~gn~v~~~t 713 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLLK-SGNKVTLRT 713 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHHh-cCCeeEEEe
Confidence 457889999999999999999999999999999988999988873 344444433
No 69
>PF12812 PDZ_1: PDZ-like domain
Probab=93.05 E-value=0.22 Score=37.19 Aligned_cols=42 Identities=21% Similarity=0.256 Sum_probs=34.2
Q ss_pred EEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhC
Q 015469 120 LVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ 163 (406)
Q Consensus 120 ~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~ 163 (406)
.++.....++++...|+..|..|.+|||+++.++ +++.+.++
T Consensus 32 gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~L--d~f~~vvk 73 (78)
T PF12812_consen 32 GVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDL--DDFIKVVK 73 (78)
T ss_pred EEEEEecCCChhhhCCCCCCeEEEeECCcCCcCH--HHHHHHHH
Confidence 5566667888888777999999999999999994 67666655
No 70
>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c
Probab=92.90 E-value=0.81 Score=40.35 Aligned_cols=70 Identities=29% Similarity=0.391 Sum_probs=53.7
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 223 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
.....+.+.|..+.+.+++.++|++ +.|||+...+..+...+. ..++|++..+
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~vvl~I-nSpGG~v~~~~~i~~~l~--------------------------~~~kPvia~v 65 (187)
T cd07020 13 ATADYLERAIDQAEEGGADALIIEL-DTPGGLLDSTREIVQAIL--------------------------ASPVPVVVYV 65 (187)
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEEE-ECCCCCHHHHHHHHHHHH--------------------------hCCCCEEEEE
Confidence 3456788888888777789999866 467789888887766552 1347899999
Q ss_pred c---CCCccHHHHHHHHHhc
Q 015469 303 N---KGTASASEILAGALKD 319 (406)
Q Consensus 303 d---~~t~SaaE~~a~~lk~ 319 (406)
+ +.++|++-.++.+-..
T Consensus 66 ~~~~G~AasgG~~iala~D~ 85 (187)
T cd07020 66 YPSGARAASAGTYILLAAHI 85 (187)
T ss_pred ecCCCCchhHHHHHHHhCCc
Confidence 8 8999999998887654
No 71
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=92.68 E-value=0.44 Score=46.84 Aligned_cols=58 Identities=29% Similarity=0.347 Sum_probs=45.1
Q ss_pred EEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCc---EEEEEEe-CCee
Q 015469 121 VVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSP---VELTVRS-GAEI 180 (406)
Q Consensus 121 ~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~---v~l~v~r-~g~~ 180 (406)
.+..+..+|+|..+|+++||+|+++|+.++.++ .++...+....+.. +.+.+.| ++..
T Consensus 132 ~~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~i~~~~~~~~~ 193 (375)
T COG0750 132 VVGEVAPKSAAALAGLRPGDRIVAVDGEKVASW--DDVRRLLVAAAGDVFNLLTILVIRLDGEA 193 (375)
T ss_pred eeeecCCCCHHHHcCCCCCCEEEeECCEEccCH--HHHHHHHHhccCCcccceEEEEEecccee
Confidence 344788999999999999999999999999996 55555555445555 7778877 5554
No 72
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=90.46 E-value=0.22 Score=50.90 Aligned_cols=48 Identities=25% Similarity=0.378 Sum_probs=42.1
Q ss_pred EEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCCCC
Q 015469 121 VVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGS 168 (406)
Q Consensus 121 ~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~ 168 (406)
+|-+...|+-|++.|+++|-+|++|||++|-....+.++++|....|+
T Consensus 759 iICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVGE 806 (829)
T KOG3605|consen 759 IICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVGE 806 (829)
T ss_pred EeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhhh
Confidence 577888999999999999999999999999888788899888765553
No 73
>cd07015 Clp_protease_NfeD Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially cle
Probab=89.12 E-value=2.9 Score=36.37 Aligned_cols=70 Identities=17% Similarity=0.185 Sum_probs=54.4
Q ss_pred chHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 223 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
.....+.+.+++..+.+++.|+|++- -|||.+..+..+...+. ..+.||++.+
T Consensus 13 ~~~~~l~~~l~~A~~~~~~~i~l~in-SPGG~v~~~~~I~~~i~--------------------------~~~~pvv~~v 65 (172)
T cd07015 13 YTYDQFDRYITIAEQDNAEAIIIELD-TPGGRADAAGNIVQRIQ--------------------------QSKIPVIIYV 65 (172)
T ss_pred hHHHHHHHHHHHHhcCCCCeEEEEEE-CCCCCHHHHHHHHHHHH--------------------------hcCcCEEEEE
Confidence 34567888888877778999999995 56788888877766552 1246799999
Q ss_pred c---CCCccHHHHHHHHHhc
Q 015469 303 N---KGTASASEILAGALKD 319 (406)
Q Consensus 303 d---~~t~SaaE~~a~~lk~ 319 (406)
+ +..+|++-+++.+-..
T Consensus 66 ~p~g~~AaSag~~I~~a~~~ 85 (172)
T cd07015 66 YPPGASAASAGTYIALGSHL 85 (172)
T ss_pred ecCCCeehhHHHHHHHhcCc
Confidence 8 8899999999888665
No 74
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=88.80 E-value=0.68 Score=47.35 Aligned_cols=60 Identities=23% Similarity=0.329 Sum_probs=48.2
Q ss_pred eeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCC
Q 015469 101 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGP 165 (406)
Q Consensus 101 ~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~ 165 (406)
.|+|+.+.... ++..+|+.+.++|||...+ |..||+|+.||+..+-+|.+..++..++..
T Consensus 213 eglg~~I~Ssy-----dg~h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwqlk~vV~sL~~~ 273 (638)
T KOG1738|consen 213 EGLGLYIDSSY-----DGPHVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQLKVVVSSLRET 273 (638)
T ss_pred cCCceEEeeec-----CCceeccccccCChHHHhhcccCccceeeecccccccchhHhHHhhcccC
Confidence 45666664432 5677899999999999886 999999999999999999888777777643
No 75
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=88.39 E-value=2.1 Score=36.50 Aligned_cols=69 Identities=26% Similarity=0.365 Sum_probs=50.4
Q ss_pred chHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEE
Q 015469 223 NASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 301 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vL 301 (406)
...+++.+.|+.+.+. .+++++|++. .+||....+..+...+. .+++|++..
T Consensus 11 ~~~~~l~~~l~~a~~d~~~~~ivl~~~-s~Gg~~~~~~~i~~~l~--------------------------~~~kpvva~ 63 (161)
T cd00394 11 VSADQLAAQIRFAEADNSVKAIVLEVN-TPGGRVDAGMNIVDALQ--------------------------ASRKPVIAY 63 (161)
T ss_pred chHHHHHHHHHHHHhCCCCceEEEEEE-CCCcCHHHHHHHHHHHH--------------------------HhCCCEEEE
Confidence 3456788888877654 4999999996 46777777666665441 133789999
Q ss_pred EcCCCccHHHHHHHHHh
Q 015469 302 VNKGTASASEILAGALK 318 (406)
Q Consensus 302 vd~~t~SaaE~~a~~lk 318 (406)
+++.++|++=.++.+..
T Consensus 64 ~~g~~~s~g~~la~~~d 80 (161)
T cd00394 64 VGGQAASAGYYIATAAN 80 (161)
T ss_pred ECChhHHHHHHHHhCCC
Confidence 99999999977776554
No 76
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.09 E-value=1.3 Score=43.33 Aligned_cols=68 Identities=24% Similarity=0.303 Sum_probs=48.1
Q ss_pred CcEEEEEeCCCChhhhcCCCC-CCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEe--CCeeEEEEEEe
Q 015469 118 AGLVVISSMPGGPANRAGILS-GDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS--GAEIRHLALTR 187 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~-GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r--~g~~~~~~v~~ 187 (406)
.++.|.+|.++|||.++||.+ -|-|++|||..+..- .+.+..+++... +.|++++.. ....+.+.|++
T Consensus 15 eg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~d-nd~Lk~llk~~s-ekVkltv~n~kt~~~R~v~I~p 85 (462)
T KOG3834|consen 15 EGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKD-NDTLKALLKANS-EKVKLTVYNSKTQEVRIVEIVP 85 (462)
T ss_pred eeEEEEEeecCChHHhcCcchhhhhhheeCcccccCc-hHHHHHHHHhcc-cceEEEEEecccceeEEEEecc
Confidence 467899999999999999865 579999999999864 233444555433 448998853 33445555544
No 77
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=84.83 E-value=6.7 Score=35.10 Aligned_cols=70 Identities=20% Similarity=0.274 Sum_probs=49.9
Q ss_pred hHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 224 ASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 224 ~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
...++.+.++++.+ ..++++||++- .+||.+..+..+...+.. + +..+||+..+
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~-s~Gg~~~~~~~l~~~i~~----------------~--------~~~kpvia~v 68 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRIN-SPGGTVVASEEIYEKLKK----------------L--------KAKKPVVASM 68 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEec-CCCCCHHHHHHHHHHHHH----------------h--------cCCCCEEEEE
Confidence 35678888888764 57999999985 567777666555444311 0 0247899999
Q ss_pred cCCCccHHHHHHHHHh
Q 015469 303 NKGTASASEILAGALK 318 (406)
Q Consensus 303 d~~t~SaaE~~a~~lk 318 (406)
++.++|++=.++.+..
T Consensus 69 ~g~a~s~g~~la~aaD 84 (207)
T TIGR00706 69 GGVAASGGYYIAMAAD 84 (207)
T ss_pred CCccchHHHHHHhcCC
Confidence 9999998888877653
No 78
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=83.02 E-value=2.2 Score=39.09 Aligned_cols=68 Identities=26% Similarity=0.346 Sum_probs=50.3
Q ss_pred eeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCC-CCCCcEEEEE
Q 015469 102 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTV 174 (406)
Q Consensus 102 g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~-~~g~~v~l~v 174 (406)
.+|+.+.-. .-+..+|..+.++|--++.. +.+||.|-+|||+.+-.+.++++..+|+. +.|++.++.+
T Consensus 138 alGlTITDN-----G~GyAFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrL 207 (334)
T KOG3938|consen 138 ALGLTITDN-----GAGYAFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRL 207 (334)
T ss_pred ccceEEeeC-----CcceeeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEe
Confidence 356665422 23457788888888776653 89999999999999999999999988875 3455555554
No 79
>cd07016 S14_ClpP_1 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. This subfamily only contains bacterial sequences. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which a
Probab=82.10 E-value=4.4 Score=34.55 Aligned_cols=66 Identities=20% Similarity=0.299 Sum_probs=51.4
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEc
Q 015469 224 ASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 303 (406)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd 303 (406)
..+.+.+.|..+... +.++|.+ +-|||+...+..+...+.. .++|++..++
T Consensus 16 ~~~~~~~~l~~~~~~--~~i~l~i-nspGG~~~~~~~i~~~i~~--------------------------~~~pvi~~v~ 66 (160)
T cd07016 16 TAKEFKDALDALGDD--SDITVRI-NSPGGDVFAGLAIYNALKR--------------------------HKGKVTVKID 66 (160)
T ss_pred CHHHHHHHHHhccCC--CCEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCCCEEEEEc
Confidence 466788888877643 8999999 7789998888777666521 2468999999
Q ss_pred CCCccHHHHHHHHHh
Q 015469 304 KGTASASEILAGALK 318 (406)
Q Consensus 304 ~~t~SaaE~~a~~lk 318 (406)
+.++|++-.++.+-.
T Consensus 67 g~a~s~g~~ia~a~d 81 (160)
T cd07016 67 GLAASAASVIAMAGD 81 (160)
T ss_pred chHHhHHHHHHhcCC
Confidence 999999988887765
No 80
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=81.83 E-value=2 Score=41.61 Aligned_cols=46 Identities=26% Similarity=0.338 Sum_probs=37.4
Q ss_pred CCcEEEEEeCCCChhhhc-CCCCCCEEEEECCEecCCCCHHHHHHHhCC
Q 015469 117 SAGLVVISSMPGGPANRA-GILSGDVILAIDDTSTESMGIYDAAERLQG 164 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~a-Gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~ 164 (406)
+.++.|++|...||+.-- ||.+||.|+++||-|+.. .+++.++++.
T Consensus 219 g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~--v~dW~ecl~t 265 (484)
T KOG2921|consen 219 GEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHK--VSDWLECLAT 265 (484)
T ss_pred CceEEEEeccccCCCcCcccCCccceEEecCCcccCC--HHHHHHHHHh
Confidence 447889999988887544 899999999999999998 4677766653
No 81
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=80.74 E-value=9.8 Score=33.85 Aligned_cols=82 Identities=21% Similarity=0.166 Sum_probs=58.6
Q ss_pred CceEEEEcCccccchHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCC
Q 015469 210 PRIGYIKLTSFNQNASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 288 (406)
Q Consensus 210 ~~igyl~i~~f~~~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 288 (406)
.++-||. ..........+.+.|..+.. .+.+.++|.+- -+||++..+..+...+..
T Consensus 23 ~r~I~i~-g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~IN-SpGG~v~ag~aI~d~i~~--------------------- 79 (197)
T PRK14512 23 SRSIVIA-GEINKDLSELFQEKILLLEALDSKKPIFVYID-SEGGDIDAGFAIFNMIRF--------------------- 79 (197)
T ss_pred CcEEEEC-CEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEE-CCCCCHHHHHHHHHHHHh---------------------
Confidence 3555664 12233456677887777765 45789999997 678899988877776621
Q ss_pred CCccCCCCCEEEEEcCCCccHHHHHHHHHhc
Q 015469 289 TDALAASEPLAVLVNKGTASASEILAGALKD 319 (406)
Q Consensus 289 ~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~ 319 (406)
.+.||+.++++..+|+|-+++.+-..
T Consensus 80 -----~~~~V~t~v~G~AaSaaslIl~ag~~ 105 (197)
T PRK14512 80 -----VKPKVFTIGVGLVASAAALIFLAAKK 105 (197)
T ss_pred -----CCCCEEEEEEeeeHhHHHHHHhcCCc
Confidence 23478999999999999988877654
No 82
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=78.46 E-value=3.4 Score=36.07 Aligned_cols=38 Identities=26% Similarity=0.303 Sum_probs=31.8
Q ss_pred eEEEEeeccCCCCCCCcEEEEEeCCCChhhhcCCCCCCEEEEEC
Q 015469 103 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAID 146 (406)
Q Consensus 103 ~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aGl~~GD~I~~In 146 (406)
.|+.+... ++.+.|..|..||||+++|+.-|++|++|-
T Consensus 113 ~GL~l~~e------~~~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 113 AGLTLMEE------GGKVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred CCCEEEee------CCEEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 45555543 678999999999999999999999998874
No 83
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=76.47 E-value=16 Score=36.28 Aligned_cols=60 Identities=22% Similarity=0.386 Sum_probs=50.2
Q ss_pred CceEEEEcCcc-ccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCc
Q 015469 210 PRIGYIKLTSF-NQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGV 270 (406)
Q Consensus 210 ~~igyl~i~~f-~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~ 270 (406)
+++.++.++.= ++.+.+.+++.++..++.++..+||+| +-|||.+..+.++.+.+...+.
T Consensus 26 ~~v~vi~i~g~I~~~s~~~l~r~l~~A~~~~a~~vvl~l-dTPGGl~~sm~~iv~~i~~s~v 86 (436)
T COG1030 26 KKVYVIEIDGAIDPASADYLQRALQSAEEENAAAVVLEL-DTPGGLLDSMRQIVRAILNSPV 86 (436)
T ss_pred CeEEEEEecCccCHHHHHHHHHHHHHHHhCCCcEEEEEe-cCCCchHHHHHHHHHHHHcCCC
Confidence 46778888764 455778899999999888999999999 5789999999999999987654
No 84
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=76.10 E-value=16 Score=31.69 Aligned_cols=71 Identities=20% Similarity=0.190 Sum_probs=48.4
Q ss_pred hHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 224 ASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 224 ~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
...++.++++.+.+ .+++++||++. .+||+......+...+ .. + ....+||+..+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~-~~gg~~~~~~~~~~~i-~~---------------~-------~~~~kpVia~v 78 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAEL-AA---------------A-------RAAGKPVVASG 78 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEee-CCCcCHHHHHHHHHHH-HH---------------H-------HhCCCCEEEEE
Confidence 45688888887765 46999999995 5677665433222211 00 0 12468999999
Q ss_pred cCCCccHHHHHHHHHh
Q 015469 303 NKGTASASEILAGALK 318 (406)
Q Consensus 303 d~~t~SaaE~~a~~lk 318 (406)
++.++|++=.++.+.-
T Consensus 79 ~G~a~g~g~~la~a~D 94 (177)
T cd07014 79 GGNAASGGYWISTPAN 94 (177)
T ss_pred CCchhHHHHHHHHhCC
Confidence 9999999988887753
No 85
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=75.65 E-value=14 Score=35.57 Aligned_cols=80 Identities=28% Similarity=0.347 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEc
Q 015469 225 SGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 303 (406)
Q Consensus 225 ~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd 303 (406)
.+.+.+.++.+.. .++++++|.+ +-|||....+..+++.+-. ...++||+|.++
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~i-nSPGG~v~as~~i~~~l~~------------------------l~~~~PV~v~v~ 136 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRI-NSPGGSVVASELIARALKR------------------------LRAKKPVVVSVG 136 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEE-ECcCCchhHHHHHHHHHHH------------------------HhhcCCEEEEEC
Confidence 4556666766654 4699999988 4689998888777776632 012239999999
Q ss_pred CCCccHHHHHHHHHhcCCCeEEEcccCCCCc
Q 015469 304 KGTASASEILAGALKDNKRAVLFGEPTYGKG 334 (406)
Q Consensus 304 ~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~ 334 (406)
..++|++=++|.+-.. |+=.|++-.|
T Consensus 137 ~~AASGGY~IA~aAd~-----I~a~p~si~G 162 (317)
T COG0616 137 GYAASGGYYIALAADK-----IVADPSSITG 162 (317)
T ss_pred CeecchhhhhhccCCE-----EEecCCceee
Confidence 9999999998887654 4555554444
No 86
>PF01972 SDH_sah: Serine dehydrogenase proteinase; InterPro: IPR002825 This family of archaebacterial proteins, formerly known as DUF114, has been found to be a serine dehydrogenase proteinase distantly related to ClpP proteinases that belong to the serine proteinase superfamily. The family belong to MEROPS peptidase family S49; they are mostly unassigned peptidases but include the archaean signal peptide peptidase 1 []. The family has a catalytic triad of Ser, Asp, His residues, which shows an altered residue ordering compared with the ClpP proteinases but similar to that of the carboxypeptidase clan []. ; GO: 0016021 integral to membrane
Probab=74.90 E-value=15 Score=34.21 Aligned_cols=72 Identities=24% Similarity=0.279 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEEcC
Q 015469 225 SGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNK 304 (406)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLvd~ 304 (406)
.+++.++++...+ .+++.|.+ +-+||....+..++..+.. +..|+.|+|..
T Consensus 77 se~v~raI~~~~~--~~~IdLii-~TpGG~v~AA~~I~~~l~~--------------------------~~~~v~v~VP~ 127 (285)
T PF01972_consen 77 SEFVLRAIREAPK--DKPIDLII-HTPGGLVDAAEQIARALRE--------------------------HPAKVTVIVPH 127 (285)
T ss_pred HHHHHHHHHhcCC--CCceEEEE-ECCCCcHHHHHHHHHHHHh--------------------------CCCCEEEEECc
Confidence 4566677766543 34555555 5889999999999987632 23568888899
Q ss_pred CCccHHHHHHHHHhcCCCeEEEccc
Q 015469 305 GTASASEILAGALKDNKRAVLFGEP 329 (406)
Q Consensus 305 ~t~SaaE~~a~~lk~~~~~~ivG~~ 329 (406)
.+.||+-++|.+... .++|..
T Consensus 128 ~A~SAGTlIALaADe----IvM~p~ 148 (285)
T PF01972_consen 128 YAMSAGTLIALAADE----IVMGPG 148 (285)
T ss_pred ccccHHHHHHHhCCe----EEECCC
Confidence 999999998887644 455554
No 87
>cd07013 S14_ClpP Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. Additionally, they are implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of proteas
Probab=73.50 E-value=14 Score=31.67 Aligned_cols=70 Identities=14% Similarity=0.113 Sum_probs=51.4
Q ss_pred cchHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEE
Q 015469 222 QNASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAV 300 (406)
Q Consensus 222 ~~~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v 300 (406)
+...+.+.+.|..+... +.+.++|-+ +-|||++..+..+...+-. .+.|++.
T Consensus 11 ~~~~~~~~~~L~~l~~~~~~~~i~l~I-nSpGG~v~~~~~i~~~i~~--------------------------~~~~v~~ 63 (162)
T cd07013 11 DISANQFAAQLLFLGAVNPEKDIYLYI-NSPGGDVFAGMAIYDTIKF--------------------------IKADVVT 63 (162)
T ss_pred cHHHHHHHHHHHHHhcCCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh--------------------------cCCCceE
Confidence 34567788888877754 578999999 6778888888777766531 1235777
Q ss_pred EEcCCCccHHHHHHHHHh
Q 015469 301 LVNKGTASASEILAGALK 318 (406)
Q Consensus 301 Lvd~~t~SaaE~~a~~lk 318 (406)
.+.+.++|+|-+++.+-.
T Consensus 64 ~~~g~aaS~~~~i~~a~~ 81 (162)
T cd07013 64 IIDGLAASMGSVIAMAGA 81 (162)
T ss_pred EEEeehhhHHHHHHHcCC
Confidence 888999999988877654
No 88
>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad
Probab=73.30 E-value=22 Score=31.68 Aligned_cols=80 Identities=24% Similarity=0.287 Sum_probs=53.6
Q ss_pred chHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEE
Q 015469 223 NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 301 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vL 301 (406)
....++.++|..+.+ .+++++||++- .+||++..+..+...+.. + ....+|++..
T Consensus 17 ~~~~~l~~~l~~a~~d~~i~~ivl~~~-s~Gg~~~~~~~i~~~i~~----------------~-------~~~~kpvia~ 72 (208)
T cd07023 17 IGADSLIEQLRKAREDDSVKAVVLRIN-SPGGSVVASEEIYREIRR----------------L-------RKAKKPVVAS 72 (208)
T ss_pred CCHHHHHHHHHHHHhCCCCcEEEEEEE-CCCCCHHHHHHHHHHHHH----------------H-------HhcCCcEEEE
Confidence 356678888888754 46999999994 578887654433222100 0 1135799999
Q ss_pred EcCCCccHHHHHHHHHhcCCCeEEEcccCC
Q 015469 302 VNKGTASASEILAGALKDNKRAVLFGEPTY 331 (406)
Q Consensus 302 vd~~t~SaaE~~a~~lk~~~~~~ivG~~T~ 331 (406)
+++.++|++=.++.+.. .++-.+++
T Consensus 73 v~g~~~s~g~~lA~aaD-----~i~a~~~s 97 (208)
T cd07023 73 MGDVAASGGYYIAAAAD-----KIVANPTT 97 (208)
T ss_pred ECCcchhHHHHHHhhCC-----EEEECCCC
Confidence 99999998888877653 25555554
No 89
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=68.00 E-value=20 Score=32.07 Aligned_cols=70 Identities=19% Similarity=0.160 Sum_probs=52.5
Q ss_pred cchHHHHHHHHHHHhcCC-CCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEE
Q 015469 222 QNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAV 300 (406)
Q Consensus 222 ~~~~~~~~~~~~~~~~~~-~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v 300 (406)
.....++.+.|..+...+ .+.+.|-+ +-+||++..+..+...+-. .+.|++.
T Consensus 46 ~~~~~~i~~~L~~l~~~~~~~~I~l~I-NSpGG~v~~g~~I~d~i~~--------------------------~~~~v~t 98 (207)
T PRK12553 46 DASANDVMAQLLVLESIDPDRDITLYI-NSPGGSVTAGDAIYDTIQF--------------------------IRPDVQT 98 (207)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCEEEEE-eCCCCcHHHHHHHHHHHHh--------------------------cCCCcEE
Confidence 445677888887777654 78899988 6778898888877766521 1236888
Q ss_pred EEcCCCccHHHHHHHHHh
Q 015469 301 LVNKGTASASEILAGALK 318 (406)
Q Consensus 301 Lvd~~t~SaaE~~a~~lk 318 (406)
++++.++|+|-+++.+-.
T Consensus 99 ~~~G~aaSaa~lI~~ag~ 116 (207)
T PRK12553 99 VCTGQAASAGAVLLAAGT 116 (207)
T ss_pred EEEeehhhHHHHHHHcCC
Confidence 889999999998888764
No 90
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=67.61 E-value=54 Score=29.40 Aligned_cols=80 Identities=29% Similarity=0.326 Sum_probs=53.9
Q ss_pred chHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEE
Q 015469 223 NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 301 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vL 301 (406)
....++.++|+.+.+ ..++++||++.. +||....+..+...+.. + .. .+||+..
T Consensus 25 ~~~~~l~~~l~~a~~d~~i~~Vvl~~~s-~gg~~~~~~~l~~~l~~----------------~-------~~-~KpViA~ 79 (214)
T cd07022 25 TSYEGIAAAIRAALADPDVRAIVLDIDS-PGGEVAGVFELADAIRA----------------A-------RA-GKPIVAF 79 (214)
T ss_pred ccHHHHHHHHHHHhhCCCCcEEEEEEeC-CCCcHHHHHHHHHHHHH----------------H-------hc-CCCEEEE
Confidence 456788888888764 469999999954 67776554444433310 0 01 4799999
Q ss_pred EcCCCccHHHHHHHHHhcCCCeEEEcccCCC
Q 015469 302 VNKGTASASEILAGALKDNKRAVLFGEPTYG 332 (406)
Q Consensus 302 vd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G 332 (406)
+++.++|++=.++.+.. .++-.+++-
T Consensus 80 v~g~a~s~gy~lA~~aD-----~i~a~~~a~ 105 (214)
T cd07022 80 VNGLAASAAYWIASAAD-----RIVVTPTAG 105 (214)
T ss_pred ECCchhhHHHHHHhcCC-----EEEEcCCCe
Confidence 99999998888877663 355555543
No 91
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=67.33 E-value=20 Score=37.62 Aligned_cols=69 Identities=19% Similarity=0.167 Sum_probs=52.6
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhCCCC-CCcEEEEE-EeCCeeEEEEEEee
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPE-GSPVELTV-RSGAEIRHLALTRE 188 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~-g~~v~l~v-~r~g~~~~~~v~~~ 188 (406)
+.+++|+..-.+|||.+ +|++--.|++|||..+.+ ++++...+...+ ++-+++.. .+++-+..+++++.
T Consensus 861 p~gvyvt~rg~gspalq-~l~aa~fitavng~~t~~--lddf~~~~~~ipdnsyv~v~~mtfd~vp~~~s~k~n 931 (955)
T KOG1421|consen 861 PEGVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNT--LDDFYHMLLEIPDNSYVQVKQMTFDGVPSIVSVKPN 931 (955)
T ss_pred CCceEEeecccCChhHh-hcchheeEEEecccccCc--HHHHHHHHhhCCCCceEEEEEeccCCCceEEEeccC
Confidence 56899999999999998 899999999999999988 488888777544 44455543 35666666665543
No 92
>cd07017 S14_ClpP_2 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease. Clp protease (caseinolytic protease; ClpP; Peptidase S14) is a highly conserved serine protease present throughout in bacteria and eukaryota, but seems to be absent in archaea, mollicutes and some fungi. Clp proteases are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. ClpP has also been linked to the tight regulation of virulence genes in the pathogens Listeria monocytogenes and Salmonella typhimurium. This enzyme belong to the family of ATP-dependent proteases; the functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activ
Probab=65.81 E-value=27 Score=30.16 Aligned_cols=68 Identities=18% Similarity=0.213 Sum_probs=48.9
Q ss_pred chHHHHHHHHHHHhcCC-CCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEE
Q 015469 223 NASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 301 (406)
Q Consensus 223 ~~~~~~~~~~~~~~~~~-~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vL 301 (406)
....++...+..+...+ .+.++|-+ +-|||+...+..+...+-. .+.|++..
T Consensus 21 ~~~~~i~~~l~~~~~~~~~~~i~l~i-nSpGG~v~~~~~i~~~l~~--------------------------~~~~v~t~ 73 (171)
T cd07017 21 EVANLIIAQLLYLESEDPKKPIYLYI-NSPGGSVTAGLAIYDTMQY--------------------------IKPPVSTI 73 (171)
T ss_pred HHHHHHHHHHHHHHccCCCCceEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCCCEEEE
Confidence 34566777776666544 58999999 6778888888877776521 12568888
Q ss_pred EcCCCccHHHHHHHHH
Q 015469 302 VNKGTASASEILAGAL 317 (406)
Q Consensus 302 vd~~t~SaaE~~a~~l 317 (406)
+.+.++|+|-+++.+-
T Consensus 74 ~~g~aaS~~~~i~~~g 89 (171)
T cd07017 74 CLGLAASMGALLLAAG 89 (171)
T ss_pred EEeEehhHHHHHHHcC
Confidence 8888899988777665
No 93
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=64.69 E-value=44 Score=29.89 Aligned_cols=70 Identities=21% Similarity=0.227 Sum_probs=50.1
Q ss_pred hHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 224 ASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 224 ~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
...++.++++.+.+. +++++||++- ++||++..+..+...+. .+ ....+||+..+
T Consensus 22 ~~~~l~~~l~~a~~d~~v~~ivL~~~-s~Gg~~~~~~~~~~~l~----------------~~-------~~~~kpVia~v 77 (211)
T cd07019 22 GGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELA----------------AA-------RAAGKPVVVSA 77 (211)
T ss_pred CHHHHHHHHHHHhhCCCceEEEEEEc-CCCcCHHHHHHHHHHHH----------------HH-------HhCCCCEEEEE
Confidence 356788888887654 7999999955 58888876554433210 01 12358999999
Q ss_pred cCCCccHHHHHHHHH
Q 015469 303 NKGTASASEILAGAL 317 (406)
Q Consensus 303 d~~t~SaaE~~a~~l 317 (406)
++.++|++=.++.+.
T Consensus 78 ~g~a~s~gy~la~~a 92 (211)
T cd07019 78 GGAAASGGYWISTPA 92 (211)
T ss_pred CCeehhHHHHHHHhC
Confidence 999999998888875
No 94
>PF00574 CLP_protease: Clp protease; InterPro: IPR001907 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to the MEROPS peptidase family S14 (ClpP endopeptidase family, clan SK). ClpP is an ATP-dependent protease that cleaves a number of proteins, such as casein and albumin []. It exists as a heterodimer of ATP-binding regulatory A and catalytic P subunits, both of which are required for effective levels of protease activity in the presence of ATP [], although the P subunit alone does possess some catalytic activity. This family of sequences represent the P subunit. Proteases highly similar to ClpP have been found to be encoded in the genome of bacteria, metazoa, some viruses and in the chloroplast of plants. A number of the proteins in this family are classified as non-peptidase homologues as they have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for catalytic activity. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 2ZL3_L 2ZL0_F 2ZL2_M 2ZL4_C 1TG6_D 2F6I_D 3V5I_b 3V5E_M 3QWD_D 2DEO_A ....
Probab=59.55 E-value=17 Score=31.61 Aligned_cols=82 Identities=16% Similarity=0.223 Sum_probs=55.2
Q ss_pred ceEEEEcCccccchHHHHHHHHHHHh-cCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCC
Q 015469 211 RIGYIKLTSFNQNASGAVREAIDTLR-SNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGT 289 (406)
Q Consensus 211 ~igyl~i~~f~~~~~~~~~~~~~~~~-~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (406)
++-+|.-+ -+......+.+.|..+. +...+.+.|-+ +.+||++..+..+...+-.
T Consensus 17 r~i~l~g~-I~~~~~~~~~~~L~~l~~~~~~~~i~i~I-NSpGG~v~~g~~i~~~i~~---------------------- 72 (182)
T PF00574_consen 17 RIIFLNGP-IDEESANRLISQLLYLENEDKNKPINIYI-NSPGGDVDAGLAIYDAIRS---------------------- 72 (182)
T ss_dssp TEEEEESS-BSHHHHHHHHHHHHHHHHHTSSSEEEEEE-EECEBCHHHHHHHHHHHHH----------------------
T ss_pred eEEEECCc-cCHHHHHHHHHHHHHHhccCCCceEEEEE-cCCCCccHHHHHHHHHHHh----------------------
Confidence 45455422 23344566666666563 34678888888 6789999999888887642
Q ss_pred CccCCCCCEEEEEcCCCccHHHHHHHHHhcC
Q 015469 290 DALAASEPLAVLVNKGTASASEILAGALKDN 320 (406)
Q Consensus 290 ~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~ 320 (406)
.+.|+...+.+.++|+|-+++.+-+..
T Consensus 73 ----~~~~v~t~~~G~aaSaa~~i~~ag~~~ 99 (182)
T PF00574_consen 73 ----SKAPVTTVVLGLAASAATLIFLAGDKG 99 (182)
T ss_dssp ----SSSEEEEEEEEEEETHHHHHHHTSSTT
T ss_pred ----cCCCeEEEEeCccccceehhhhcCCcC
Confidence 124577777788889988887766553
No 95
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=47.76 E-value=2e+02 Score=30.25 Aligned_cols=96 Identities=21% Similarity=0.243 Sum_probs=62.5
Q ss_pred CCceEEEEcCcccc--------chHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCC
Q 015469 209 SPRIGYIKLTSFNQ--------NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRG 279 (406)
Q Consensus 209 ~~~igyl~i~~f~~--------~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~ 279 (406)
.++|+.|.+..--. ...+.+.+.++.+.+ .+++++||.+- .|||+...+..+...+..
T Consensus 307 ~~~vavI~~~G~I~~~~~~~~~~~~~~~~~~l~~a~~D~~VkaIVLrin-SpGGs~~ase~i~~~i~~------------ 373 (584)
T TIGR00705 307 QDKIGIVHLEGPIADGRDTEGNTGGDTVAALLRVARSDPDIKAVVLRIN-SPGGSVFASEIIRRELAR------------ 373 (584)
T ss_pred CCeEEEEEEEEEEcCCCCcccccCHHHHHHHHHHHhhCCCceEEEEEec-CCCCCHHHHHHHHHHHHH------------
Confidence 46788888765311 123566777776654 47899999886 466776665545433211
Q ss_pred ceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCC
Q 015469 280 VRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGK 333 (406)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~ 333 (406)
+. ...+||++.+++.++|++=.++.+.. .++-+++.-.
T Consensus 374 ----~~-------~~gKPVva~~~g~aaSggY~iA~aaD-----~I~a~p~t~~ 411 (584)
T TIGR00705 374 ----AQ-------ARGKPVIVSMGAMAASGGYWIASAAD-----YIVASPNTIT 411 (584)
T ss_pred ----HH-------hCCCcEEEEECCccccHHHHHHHhCC-----EEEECCCCee
Confidence 00 12389999999999999999888774 3666666533
No 96
>TIGR00493 clpP ATP-dependent Clp protease, proteolytic subunit ClpP. This model for the proteolytic subunit ClpP has been rebuilt to a higher stringency. In every bacterial genome with the ClpXP machine, a ClpP protein will be found that scores with this model. In general, this ClpP member will be encoded adjacent to the clpX gene, as were all examples used in the seed alignment. A large fraction of genomes have one or more additional ClpP paralogs, sometimes encoded nearby and sometimes elsewhere. The stringency of the trusted cutoff used here excludes the more divergent ClpP paralogs from being called authentic ClpP by this model.
Probab=47.40 E-value=86 Score=27.63 Aligned_cols=67 Identities=15% Similarity=0.166 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEEEE
Q 015469 224 ASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 302 (406)
Q Consensus 224 ~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vLv 302 (406)
..+.+...|..+... ..+.+.|.+ +-+||++..+..+...+-. .+.|+..++
T Consensus 39 ~~~~ii~~L~~l~~~~~~~~i~l~I-nSpGG~v~~g~~I~d~l~~--------------------------~~~~v~t~~ 91 (191)
T TIGR00493 39 VANLIVAQLLFLEAEDPEKDIYLYI-NSPGGSITAGLAIYDTMQF--------------------------IKPDVSTIC 91 (191)
T ss_pred HHHHHHHHHHHhhccCCCCCEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCCCEEEEE
Confidence 445666666556543 356788888 5678898888877776521 124577788
Q ss_pred cCCCccHHHHHHHHH
Q 015469 303 NKGTASASEILAGAL 317 (406)
Q Consensus 303 d~~t~SaaE~~a~~l 317 (406)
++.++|+|-+++++-
T Consensus 92 ~G~AaSaaslI~~aG 106 (191)
T TIGR00493 92 IGQAASMGAFLLSAG 106 (191)
T ss_pred EEeeccHHHHHHhcC
Confidence 899999998877653
No 97
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=46.87 E-value=86 Score=27.84 Aligned_cols=68 Identities=15% Similarity=0.193 Sum_probs=48.5
Q ss_pred cchHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCCCccCCCCCEEE
Q 015469 222 QNASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAV 300 (406)
Q Consensus 222 ~~~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v 300 (406)
....+.+...+..+... ..+.+.|.+ +-+||+...+..+...+- ..+.|++.
T Consensus 42 ~~~~~~i~~~L~~l~~~~~~~~I~l~I-nSpGG~v~~g~~I~d~i~--------------------------~~~~~v~t 94 (200)
T PRK00277 42 DHMANLIVAQLLFLEAEDPDKDIYLYI-NSPGGSVTAGLAIYDTMQ--------------------------FIKPDVST 94 (200)
T ss_pred HHHHHHHHHHHHHhhccCCCCCEEEEE-ECCCCcHHHHHHHHHHHH--------------------------hcCCCEEE
Confidence 33456666677666543 466788888 677889888877777641 12246788
Q ss_pred EEcCCCccHHHHHHHH
Q 015469 301 LVNKGTASASEILAGA 316 (406)
Q Consensus 301 Lvd~~t~SaaE~~a~~ 316 (406)
++++.++|+|-+++.+
T Consensus 95 ~~~G~aaS~a~~I~~a 110 (200)
T PRK00277 95 ICIGQAASMGAFLLAA 110 (200)
T ss_pred EEEeEeccHHHHHHhc
Confidence 8899999999988877
No 98
>cd07041 STAS_RsbR_RsbS_like Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.
Probab=45.00 E-value=46 Score=25.87 Aligned_cols=44 Identities=9% Similarity=0.191 Sum_probs=29.1
Q ss_pred ceEEEEcCc-cccchHHHHHHHH-HHHhcCCCCeEEEEeCCCCCCC
Q 015469 211 RIGYIKLTS-FNQNASGAVREAI-DTLRSNSVNAFVLDLRDNSGGL 254 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~-~~~~~~~~~~lIiDlR~N~GG~ 254 (406)
++..+++.. +.....+.+++.+ ..+.+.+.+.+|||+++=+-=+
T Consensus 10 ~~~v~~l~G~L~~~~a~~~~~~l~~~~~~~~~~~vvlDls~v~~iD 55 (109)
T cd07041 10 GVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVID 55 (109)
T ss_pred CEEEEeeeeeECHHHHHHHHHHHHHHHHHcCCCEEEEECCCCchhc
Confidence 566777765 4445567777755 4454457899999999755333
No 99
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=44.73 E-value=14 Score=34.95 Aligned_cols=35 Identities=34% Similarity=0.592 Sum_probs=30.1
Q ss_pred CCcEEEEEeCCCChhhhcCCCCCCEEEEECCEecC
Q 015469 117 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTE 151 (406)
Q Consensus 117 ~~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~ 151 (406)
+.-+-+..|.+.+||+++|.-.||.|+-+|+-++.
T Consensus 62 n~~l~~lrv~~~~~~e~~~~~~~dyilg~n~Dp~~ 96 (417)
T COG5233 62 NCLLEVLRVNPESPAEKAGMVVGDYILGINEDPLR 96 (417)
T ss_pred hhhhhheeccccChhHhhccccceeEEeecCCcHH
Confidence 34466888999999999999999999999987764
No 100
>PRK10949 protease 4; Provisional
Probab=44.08 E-value=1.2e+02 Score=32.09 Aligned_cols=97 Identities=20% Similarity=0.183 Sum_probs=63.6
Q ss_pred CCceEEEEcCccc-c-------chHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCC
Q 015469 209 SPRIGYIKLTSFN-Q-------NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRG 279 (406)
Q Consensus 209 ~~~igyl~i~~f~-~-------~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~ 279 (406)
.++|+.|.+..-- . -..+.+.+.|++..+ .+++++||.+- .|||+...+..+...+..
T Consensus 325 ~~~Iavi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrIn-SpGGs~~ase~i~~~i~~------------ 391 (618)
T PRK10949 325 GGSIAVIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAA------------ 391 (618)
T ss_pred CCeEEEEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEec-CCCCcHHHHHHHHHHHHH------------
Confidence 4689999886531 1 123456666766543 58999999997 567777666666554421
Q ss_pred ceeeeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCc
Q 015469 280 VRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKG 334 (406)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~ 334 (406)
+. ...+||++-+++..+|++=.++.+.. .|+=+||.-.|
T Consensus 392 ----~r-------~~gKPVvas~~~~aASggY~iA~aad-----~I~a~p~t~tG 430 (618)
T PRK10949 392 ----AR-------AAGKPVVVSMGGMAASGGYWISTPAN-----YIVASPSTLTG 430 (618)
T ss_pred ----HH-------hcCCcEEEEECCCCccHHHHHHHhcC-----EEEECCCCcee
Confidence 00 12478999999999999888887763 35555554433
No 101
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=43.64 E-value=87 Score=27.78 Aligned_cols=80 Identities=15% Similarity=0.168 Sum_probs=53.4
Q ss_pred CceEEEEcCccccchHHHHHHHHHHHhcCC-CCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCC
Q 015469 210 PRIGYIKLTSFNQNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 288 (406)
Q Consensus 210 ~~igyl~i~~f~~~~~~~~~~~~~~~~~~~-~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 288 (406)
++|-||-- ...+...+++-..|..+...+ .+.+.|=+ +-+||++..+..+...+-
T Consensus 25 ~Riifl~~-~i~~~~a~~ii~~Ll~l~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~---------------------- 80 (196)
T PRK12551 25 ERIIFLGE-PVTSDSANRIVAQLLFLEAEDPEKDIYLYI-NSPGGSVYDGLGIFDTMQ---------------------- 80 (196)
T ss_pred CcEEEECC-eecHHHHHHHHHHHHHhhccCCCCCEEEEE-eCCCcchhhHHHHHHHHH----------------------
Confidence 35655531 123345667777776676443 56777766 566889888877766552
Q ss_pred CCccCCCCCEEEEEcCCCccHHHHHHHHH
Q 015469 289 TDALAASEPLAVLVNKGTASASEILAGAL 317 (406)
Q Consensus 289 ~~~~~~~~~v~vLvd~~t~SaaE~~a~~l 317 (406)
..+.||..++++..+|+|-+++.+=
T Consensus 81 ----~~~~~V~t~~~G~AaS~AslIl~aG 105 (196)
T PRK12551 81 ----HVKPDVHTVCVGLAASMGAFLLCAG 105 (196)
T ss_pred ----hcCCCEEEEEEEEehhHHHHHHhCC
Confidence 1335788999999999999888764
No 102
>cd07043 STAS_anti-anti-sigma_factors Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.
Probab=41.23 E-value=1e+02 Score=22.95 Aligned_cols=51 Identities=18% Similarity=0.162 Sum_probs=31.1
Q ss_pred ceEEEEcCc-cccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHH
Q 015469 211 RIGYIKLTS-FNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEI 261 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l 261 (406)
++..+++.. +.....+.+.+.+........+.+|||+++-..=+...+..+
T Consensus 8 ~~~ii~l~G~l~~~~~~~~~~~~~~~~~~~~~~viid~~~v~~iDs~g~~~L 59 (99)
T cd07043 8 GVLVVRLSGELDAATAPELREALEELLAEGPRRLVLDLSGVTFIDSSGLGVL 59 (99)
T ss_pred CEEEEEEeceecccchHHHHHHHHHHHHcCCCEEEEECCCCCEEcchhHHHH
Confidence 455555543 233345567776665544457999999999776655444333
No 103
>PRK11778 putative inner membrane peptidase; Provisional
Probab=37.70 E-value=2.8e+02 Score=26.80 Aligned_cols=98 Identities=22% Similarity=0.248 Sum_probs=54.9
Q ss_pred CceEEEEcCccc-cchHHHHHHHHHHHh--cCCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeec
Q 015469 210 PRIGYIKLTSFN-QNASGAVREAIDTLR--SNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDT 286 (406)
Q Consensus 210 ~~igyl~i~~f~-~~~~~~~~~~~~~~~--~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (406)
+.|+.|.+..-- .+....+++.+..+. ..+-+++||++- .|||....+..++..+.. +.
T Consensus 90 ~~v~VI~~~G~I~~~~~~~l~e~i~a~l~~A~~~~aVvLrid-SpGG~v~~s~~a~~~l~~----------------lr- 151 (330)
T PRK11778 90 PRLFVLDFKGDIDASEVESLREEITAILAVAKPGDEVLLRLE-SPGGVVHGYGLAASQLQR----------------LR- 151 (330)
T ss_pred CeEEEEEEEEEECCCcchhhHHHHHHHHHhccCCCeEEEEEe-CCCCchhHHHHHHHHHHH----------------HH-
Confidence 467777766532 122223333333321 123388999985 467766543222332210 00
Q ss_pred CCCCccCCCCCEEEEEcCCCccHHHHHHHHHhcCCCeEEEcccCCCCcee
Q 015469 287 DGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKI 336 (406)
Q Consensus 287 ~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~lk~~~~~~ivG~~T~G~~~~ 336 (406)
...+||++.++..++|++=++|.+.. .|+=.|++..|+.
T Consensus 152 ------~~~kpVva~v~~~AASggY~iAsaAD-----~I~A~P~a~vGSI 190 (330)
T PRK11778 152 ------DAGIPLTVAVDKVAASGGYMMACVAD-----KIIAAPFAIVGSI 190 (330)
T ss_pred ------hcCCCEEEEECCchhhHHHHHHHhCC-----EEEECCCCeEEee
Confidence 12368999999999999988887663 3555665555443
No 104
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=35.36 E-value=45 Score=26.86 Aligned_cols=29 Identities=24% Similarity=0.391 Sum_probs=21.0
Q ss_pred HHHHHHHHhcCCCCeEEEEeCCCCC----CChHH
Q 015469 228 VREAIDTLRSNSVNAFVLDLRDNSG----GLFPE 257 (406)
Q Consensus 228 ~~~~~~~~~~~~~~~lIiDlR~N~G----G~~~~ 257 (406)
+++++..+++.+++ +++|+|.+|. |.--.
T Consensus 2 ~e~f~~~l~~~~i~-~lVDVR~~P~S~~~~~~k~ 34 (122)
T PF04343_consen 2 IERFYDLLKKNGIR-VLVDVRLWPRSRKPGFNKE 34 (122)
T ss_pred HHHHHHHHHHCCCe-EEEEECCCCCCCCCCCCHH
Confidence 34556656666776 8999999999 86543
No 105
>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=35.13 E-value=2.3e+02 Score=25.26 Aligned_cols=80 Identities=15% Similarity=0.177 Sum_probs=51.6
Q ss_pred CceEEEEcCccccchHHHHHHHHHHHhcCC-CCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCC
Q 015469 210 PRIGYIKLTSFNQNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 288 (406)
Q Consensus 210 ~~igyl~i~~f~~~~~~~~~~~~~~~~~~~-~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 288 (406)
.+|.||-- ...+...+.+-..|-.|...+ .+.+-|=+ +-+||++..+..+...+-
T Consensus 27 ~Riifl~~-~i~~~~a~~ii~~Ll~L~~~~~~~~I~l~I-NSpGG~v~~GlaIyd~m~---------------------- 82 (201)
T PRK14513 27 DRIIFVGT-PIESQMANTIVAQLLLLDSQNPEQEIQMYI-NCPGGEVYAGLAIYDTMR---------------------- 82 (201)
T ss_pred CCEEEECC-EEcHHHHHHHHHHHHHhhccCCCCCEEEEE-ECCCCchhhHHHHHHHHH----------------------
Confidence 46666632 223344566666666666543 45566655 567888888776666542
Q ss_pred CCccCCCCCEEEEEcCCCccHHHHHHHHH
Q 015469 289 TDALAASEPLAVLVNKGTASASEILAGAL 317 (406)
Q Consensus 289 ~~~~~~~~~v~vLvd~~t~SaaE~~a~~l 317 (406)
..+.||..++++.++|+|-+++.+=
T Consensus 83 ----~~~~~V~Ti~~G~AaS~As~il~aG 107 (201)
T PRK14513 83 ----YIKAPVSTICVGIAMSMGSVLLMAG 107 (201)
T ss_pred ----hcCCCEEEEEEeeehhhHHHHHhcC
Confidence 1335799999999999998887554
No 106
>PF01740 STAS: STAS domain; InterPro: IPR002645 The STAS (Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function. The establishment of differential gene expression in sporulating Bacillus subtilis involves four protein components one of which is SpoIIAA (P10727 from SWISSPROT). The four components regulate the sporulation sigma factor F. Early in sporulation, SpoIIAA is in the phosphorylated state (SpoIIAA-P), as a result of the activity of the ATP-dependent protein kinase SpoIIAB (P10728 from SWISSPROT). The site at which this protein is a conserved serine. SpoIIAB is an anti-sigma factor that in its free form inhibits F by binding to it. Competition by SpoIIAA (the anti-anti-sigma factor) for binding to SpoIIAB releases Sigma F activity []. The STAS domain is found in the anti-sigma factor antagonist SpoIIAA.; PDB: 3T6O_B 3LKL_B 1H4Z_A 1H4Y_B 1H4X_B 3NY7_A 3OIZ_A 1T6R_A 1VC1_B 1SBO_A ....
Probab=34.66 E-value=1.2e+02 Score=23.84 Aligned_cols=47 Identities=17% Similarity=0.141 Sum_probs=33.4
Q ss_pred ceEEEEcCc-cccchHHHHHHHHHHHhcCC---------CCeEEEEeCCCCCCChHH
Q 015469 211 RIGYIKLTS-FNQNASGAVREAIDTLRSNS---------VNAFVLDLRDNSGGLFPE 257 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~~~~~~~~---------~~~lIiDlR~N~GG~~~~ 257 (406)
++..+++.. +.....+.+++.+.++...+ .+.+|||+++-..=+...
T Consensus 9 ~v~ii~~~g~l~f~~~~~~~~~i~~~~~~~~~~~~~~~~~~~vIlD~s~v~~iDssg 65 (117)
T PF01740_consen 9 GVLIIRLDGPLFFANAEEFRDRIRKLIDEDPERIKKRQTIKNVILDMSGVSFIDSSG 65 (117)
T ss_dssp TEEEEEEESEESHHHHHHHHHHHHHHHCCSSS--HTSSSSSEEEEEETTESEESHHH
T ss_pred CEEEEEEeeEEEHHHHHHHHHHHHHhhhcccccccccccceEEEEEEEeCCcCCHHH
Confidence 677777765 33345677888877766555 599999999987655443
No 107
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=33.83 E-value=24 Score=39.69 Aligned_cols=46 Identities=15% Similarity=0.357 Sum_probs=38.7
Q ss_pred CcEEEEEeCCCChhhhcCCCCCCEEEEECCEecCCCCHHHHHHHhC
Q 015469 118 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ 163 (406)
Q Consensus 118 ~~~~V~~v~~~spA~~aGl~~GD~I~~Ing~~v~~~~~~~~~~~l~ 163 (406)
+.++|..|.+++||..+.|+-||.++.||..++..+....++..+.
T Consensus 143 eT~~~~eV~~n~~~~~a~LQ~~~~V~~v~~q~~A~i~~s~~~S~~~ 188 (1973)
T KOG4407|consen 143 ETIFIKEVQANGPAHYANLQTGDRVLMVNNQPIAGIAYSTIVSMIK 188 (1973)
T ss_pred hhhhhhhhccCChhHHHhhhccceeEEeecCcccchhhhhhhhhhc
Confidence 3578999999999999999999999999999999875555555443
No 108
>PRK14514 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=32.99 E-value=1.7e+02 Score=26.60 Aligned_cols=80 Identities=18% Similarity=0.202 Sum_probs=51.7
Q ss_pred ceEEEEcCccccchHHHHHHHHHHHhcCC-CCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCCC
Q 015469 211 RIGYIKLTSFNQNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGT 289 (406)
Q Consensus 211 ~igyl~i~~f~~~~~~~~~~~~~~~~~~~-~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (406)
+|-||-- ..++...+.+...|-.|...+ .+.|.|=+ +-+||++..+..+...+-
T Consensus 55 Riifl~~-~Idd~~a~~i~aqLl~L~~~~~~~~I~lyI-NSpGGsv~aGlaIyd~m~----------------------- 109 (221)
T PRK14514 55 RIIFLGT-QIDDYTANTIQAQLLYLDSVDPGKDISIYI-NSPGGSVYAGLGIYDTMQ----------------------- 109 (221)
T ss_pred cEEEECC-EEcHHHHHHHHHHHHHHhccCCCCCEEEEE-ECCCcchhhHHHHHHHHH-----------------------
Confidence 5544431 123345666777666665432 35666655 678899888776666541
Q ss_pred CccCCCCCEEEEEcCCCccHHHHHHHHHh
Q 015469 290 DALAASEPLAVLVNKGTASASEILAGALK 318 (406)
Q Consensus 290 ~~~~~~~~v~vLvd~~t~SaaE~~a~~lk 318 (406)
..+.||..++++..+|+|-+++.+=.
T Consensus 110 ---~~~~~V~tv~~G~AAS~AslIl~aG~ 135 (221)
T PRK14514 110 ---FISSDVATICTGMAASMASVLLVAGT 135 (221)
T ss_pred ---hcCCCEEEEEEEEehhHHHHHHhcCC
Confidence 13357999999999999998887643
No 109
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=32.98 E-value=1.1e+02 Score=23.58 Aligned_cols=46 Identities=15% Similarity=0.273 Sum_probs=30.8
Q ss_pred ceEEEEcCc-cccchHHHHHHHHHHHh-cCCCCeEEEEeCCCCCCChH
Q 015469 211 RIGYIKLTS-FNQNASGAVREAIDTLR-SNSVNAFVLDLRDNSGGLFP 256 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~~~~~-~~~~~~lIiDlR~N~GG~~~ 256 (406)
++..+++.. +.....+.+.+.+.+.- +.+.+.+|||+++-.-=+..
T Consensus 8 ~~~vi~l~G~L~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~iDss 55 (106)
T TIGR02886 8 DVLIVRLSGELDHHTAERVRRKIDDAIERRPIKHLILNLKNVTFMDSS 55 (106)
T ss_pred CEEEEEEecccchhhHHHHHHHHHHHHHhCCCCEEEEECCCCcEecch
Confidence 566777764 23345667777776643 34689999999998755443
No 110
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=32.24 E-value=49 Score=27.93 Aligned_cols=36 Identities=14% Similarity=0.210 Sum_probs=28.9
Q ss_pred EEcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCC
Q 015469 215 IKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDN 250 (406)
Q Consensus 215 l~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N 250 (406)
+.+++|.....-.+-..++....++..+++||++-|
T Consensus 21 l~f~~fd~~dAf~LG~~IR~~a~k~~~piaIDItL~ 56 (168)
T COG4702 21 LQFSSFDYADAFSLGTYIRRAAKKNKLPIAIDITLN 56 (168)
T ss_pred hccccCcHHHHHHHHHHHHHHHHhcCCCEEEEEEEC
Confidence 567888776666777778777666779999999999
No 111
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=30.77 E-value=67 Score=26.80 Aligned_cols=49 Identities=16% Similarity=0.310 Sum_probs=35.3
Q ss_pred EcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCC
Q 015469 216 KLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKG 269 (406)
Q Consensus 216 ~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~ 269 (406)
.+.-|..+...++-+.+.+... +.+++|| |||+....+..+...+..-.
T Consensus 43 ~v~~~QSN~Egelid~I~~a~~-~~dgiII----Npga~THtSvAi~DAl~~~~ 91 (140)
T cd00466 43 EVEFFQSNHEGELIDWIHEARD-GADGIII----NPGAYTHTSIALRDALAAVS 91 (140)
T ss_pred EEEEEeeCcHHHHHHHHHHhhc-cCcEEEE----cchHHHHHHHHHHHHHHcCC
Confidence 4445655666677777766543 6899999 99999988888888775533
No 112
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=29.41 E-value=1.6e+02 Score=22.46 Aligned_cols=46 Identities=17% Similarity=0.213 Sum_probs=30.7
Q ss_pred ceEEEEcCc-cccchHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChH
Q 015469 211 RIGYIKLTS-FNQNASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFP 256 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~ 256 (406)
++.++++.. +.......+++.+..+.. .+.+.+|||+.+-..=+..
T Consensus 12 ~~~vi~~~G~l~~~~~~~~~~~l~~~~~~~~~~~vvidls~v~~iDss 59 (108)
T TIGR00377 12 GVVIVRLSGELDAHTAPLLREKVTPAAERTGPRPIVLDLEDLEFMDSS 59 (108)
T ss_pred CEEEEEEecccccccHHHHHHHHHHHHHhcCCCeEEEECCCCeEEccc
Confidence 566666654 333346677777766554 4789999999987765543
No 113
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=28.26 E-value=57 Score=36.07 Aligned_cols=72 Identities=24% Similarity=0.401 Sum_probs=44.1
Q ss_pred eeeeEEEEeeccCCCCCCCcEEEEEeCCCChhhhcC-CCCCCEEEEECCEecCCCCHHHHHHHhCCCCCCcEEEEEEe
Q 015469 100 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS 176 (406)
Q Consensus 100 ~~g~g~~~~~~~~~~~~~~~~~V~~v~~~spA~~aG-l~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~r 176 (406)
..++|+.+.... ..+++++..+..++.|...| ++.||.+++.+|+++...........+. -.-.++.+++.|
T Consensus 1256 ~~~~~~~~~~~~----~s~~~~~~~~~~~~~a~~~~~~r~g~~~~~~~~~~~~~~~p~~~l~~~~-~v~~p~~~~~~~ 1328 (1332)
T KOG4371|consen 1256 MATLGLSLAKRT----MSDGIFIRNIAQDSAASSEGTLRVGDRLVSLDGEPVDGFTPATILEKLK-LVQGPVQITVTR 1328 (1332)
T ss_pred cccccccccccC----cCCceeeecccccccccccccccccceeeccCCccCCCCChHHHHHHhh-hccCchhheehh
Confidence 345555544332 35678887777666665555 9999999999999999875433332222 122344555543
No 114
>cd06844 STAS Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain is found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors, like anti-anti-sigma factors and "stressosome" components. The sigma factor regulators are involved in protein-protein interaction which is regulated by phosphorylation.
Probab=27.97 E-value=1.3e+02 Score=22.94 Aligned_cols=44 Identities=9% Similarity=0.107 Sum_probs=28.3
Q ss_pred ceEEEEcCc-cccchHHHHHHHHHH-HhcCCCCeEEEEeCCCCCCC
Q 015469 211 RIGYIKLTS-FNQNASGAVREAIDT-LRSNSVNAFVLDLRDNSGGL 254 (406)
Q Consensus 211 ~igyl~i~~-f~~~~~~~~~~~~~~-~~~~~~~~lIiDlR~N~GG~ 254 (406)
++.++++.. +.-.+.+.+++.+.. +.+.+.+.+|||+++-.-=+
T Consensus 8 ~v~ii~~~G~l~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~iD 53 (100)
T cd06844 8 DYWVVRLEGELDHHSVEQFKEELLHNITNVAGKTIVIDISALEFMD 53 (100)
T ss_pred CEEEEEEEEEecHhhHHHHHHHHHHHHHhCCCCEEEEECCCCcEEc
Confidence 566777764 333456677776643 33346899999998765433
No 115
>cd07560 Peptidase_S41_CPP C-terminal processing peptidase; serine protease family S41. The C-terminal processing peptidase (CPP, EC 3.4.21.102) also known as tail-specific protease (tsp), the photosystem II D1 C-terminal processing protease (D1P), and other related S41 protease family members are present in this CD. CPP is synthesized as a precursor form with a carboxyl-terminal extension. It specifically recognizes a C-terminal tripeptide, Xaa-Yaa-Zaa, in which Xaa is preferably Ala or Leu, Yaa is preferably Ala or Tyr and Zaa is preferably Ala, but then cleaves at a variable distance from the C-terminus. The C-terminal carboxylate group is essential, and proteins where this group is amidated are not substrates. This family of proteases contains the PDZ domain that promotes protein-protein interactions and is important for substrate recognition. The active site consists of a serine/lysine catalytic dyad. The bacterial CCP-1 is believed to be important for the degradation of incorrectl
Probab=27.79 E-value=1.1e+02 Score=27.47 Aligned_cols=43 Identities=33% Similarity=0.549 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhccccccCCcchHHHHHhhhhcCCCCCHHHHHHHHHHHHHhCCCCCCCccCh
Q 015469 24 LFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDPFTRFLEP 86 (406)
Q Consensus 24 ~f~~~w~~i~~~y~~~~~~~~dW~~~~~~~~~~~~~~~~~~~~~~i~~~~~~L~D~ht~~~~~ 86 (406)
.++++..+++++|.++. ......+..+++|+.. .|||+.|+.+
T Consensus 7 ~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~-~~~~~~~~~~ 49 (211)
T cd07560 7 KLEEVLELIKKNYVDPV-------------------DDEKLIEGAIKGMLSS-LDPYSRYLTP 49 (211)
T ss_pred HHHHHHHHHHHHHhccC-------------------CHHHHHHHHHHHHHHc-CCCcceeeCc
Confidence 45666777888887752 1124456788999999 7999999886
No 116
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=27.50 E-value=86 Score=26.19 Aligned_cols=49 Identities=16% Similarity=0.340 Sum_probs=35.3
Q ss_pred EcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCC
Q 015469 216 KLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKG 269 (406)
Q Consensus 216 ~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~ 269 (406)
.+.-|..+...++-..+.+... +++++|| ||||....+..+...+..-+
T Consensus 43 ~v~~~QSN~EGelId~i~~a~~-~~dgiII----Npga~THtSiAl~DAl~~~~ 91 (141)
T TIGR01088 43 ELEFFQSNSEGQLIDKIHEAEG-QYDGIII----NPGALTHTSVALRDALAAVS 91 (141)
T ss_pred EEEEEeeCcHHHHHHHHHhccc-cCCEEEE----cChHHhhhHHHHHHHHHcCC
Confidence 4445665656677777766532 4899999 99999988888888876544
No 117
>PRK06688 enoyl-CoA hydratase; Provisional
Probab=27.46 E-value=71 Score=29.44 Aligned_cols=99 Identities=17% Similarity=0.133 Sum_probs=55.3
Q ss_pred CceEEEEcCc------cccchHHHHHHHHHHHhc-CCCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCcee
Q 015469 210 PRIGYIKLTS------FNQNASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRD 282 (406)
Q Consensus 210 ~~igyl~i~~------f~~~~~~~~~~~~~~~~~-~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 282 (406)
++|++|.++. |+....+++.++++++.+ .+++.+|| ++++ +.+..+.++-.+.-..... .........
T Consensus 13 ~~v~~i~lnrp~~~Nal~~~~~~~l~~~l~~~~~d~~v~~vVl--~g~g-~~F~aG~Dl~~~~~~~~~~--~~~~~~~~~ 87 (259)
T PRK06688 13 DGVLTITINRPDKKNALTAAMYQALADALEAAATDPAVRVVVL--TGAG-RAFSAGGDIKDFPKAPPKP--PDELAPVNR 87 (259)
T ss_pred CCEEEEEecCcccccCCCHHHHHHHHHHHHHHhcCCCceEEEE--ECCC-CCccCccCHHHHhccCcch--HHHHHHHHH
Confidence 3677776653 444566788888888875 46889997 4443 3444443333221100000 000000000
Q ss_pred eeecCCCCccCCCCCEEEEEcCCCccHHHHHHHHH
Q 015469 283 IYDTDGTDALAASEPLAVLVNKGTASASEILAGAL 317 (406)
Q Consensus 283 ~~~~~~~~~~~~~~~v~vLvd~~t~SaaE~~a~~l 317 (406)
.+. .-...++|++..+++.+...+-.++.+.
T Consensus 88 ~~~----~l~~~~kp~Iaav~G~a~GgG~~lal~c 118 (259)
T PRK06688 88 FLR----AIAALPKPVVAAVNGPAVGVGVSLALAC 118 (259)
T ss_pred HHH----HHHcCCCCEEEEECCeeecHHHHHHHhC
Confidence 111 0124679999999999999988887776
No 118
>cd07042 STAS_SulP_like_sulfate_transporter Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function. The SulP family is a large and diverse family of anion transporters, with members from eubacteria, plants, fungi, and mammals. They contain 10 to 14 transmembrane helices which form the catalytic core of the protein and a C-terminal extension, the STAS (Sulphate Transporter and AntiSigma factor antagonist) domain which plays a role in the function and regulation of the transport activity. The STAS domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.
Probab=26.40 E-value=2.8e+02 Score=20.79 Aligned_cols=47 Identities=11% Similarity=0.090 Sum_probs=29.5
Q ss_pred CCceEEEEcCc-cccchHHHHHHHHHHHhcCC--CCeEEEEeCCCCCCCh
Q 015469 209 SPRIGYIKLTS-FNQNASGAVREAIDTLRSNS--VNAFVLDLRDNSGGLF 255 (406)
Q Consensus 209 ~~~igyl~i~~-f~~~~~~~~~~~~~~~~~~~--~~~lIiDlR~N~GG~~ 255 (406)
.+++.++++.. +.-...+.+.+.+.+..+.. .+.+|||+++-..=+.
T Consensus 7 ~~~~~v~~l~G~l~~~~~~~l~~~~~~~~~~~~~~~~lilD~~~v~~iDs 56 (107)
T cd07042 7 PPGVLIYRIDGPLFFGNAEYFKDRLLRLVDEDPPLKVVILDLSAVNFIDS 56 (107)
T ss_pred CCCEEEEEecCceEeehHHHHHHHHHHHhccCCCceEEEEECCCCchhhH
Confidence 34677777665 22234556666666655433 5899999998764443
No 119
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=25.78 E-value=90 Score=26.26 Aligned_cols=49 Identities=16% Similarity=0.340 Sum_probs=35.0
Q ss_pred EcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCC
Q 015469 216 KLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKG 269 (406)
Q Consensus 216 ~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~ 269 (406)
.+.-|..+...++-..+.+... +++++|| |||+....+..+...+..-+
T Consensus 45 ~v~~~QSN~EGelId~I~~a~~-~~dgiiI----Npga~THtSiAl~DAl~~~~ 93 (146)
T PRK05395 45 ELEFFQSNHEGELIDRIHEARD-GADGIII----NPGAYTHTSVALRDALAAVS 93 (146)
T ss_pred EEEEEeeCcHHHHHHHHHhccc-CCcEEEE----CchHHHHHHHHHHHHHHcCC
Confidence 3444555556677777766543 6899999 99999988888888775543
No 120
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=24.59 E-value=96 Score=26.08 Aligned_cols=49 Identities=18% Similarity=0.240 Sum_probs=34.7
Q ss_pred EcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCC
Q 015469 216 KLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKG 269 (406)
Q Consensus 216 ~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~ 269 (406)
.+.-|..+...++-..+.+.. .+++++|| |||+....+..+...+..-+
T Consensus 45 ~~~~~QSN~EGelId~i~~a~-~~~dgiII----Npga~THtSiAl~DAl~~~~ 93 (146)
T PRK13015 45 EVEFRQSNHEGELIDWIHEAR-GDVAGIVI----NPGAYTHTSVAIRDALAALE 93 (146)
T ss_pred EEEEEeeCcHHHHHHHHHHhh-hcCCEEEE----cchHHhhhHHHHHHHHHcCC
Confidence 444565555666666666543 35899999 99999988888888776544
No 121
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=24.30 E-value=82 Score=26.29 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=32.3
Q ss_pred EcCccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCCChHHHHHHHHhhccCC
Q 015469 216 KLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKG 269 (406)
Q Consensus 216 ~i~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~ 269 (406)
.+.-|..+...++-+.+.+... .++++|| ||||....+..+..-+..-.
T Consensus 44 ~v~~~QSN~EGelid~I~~a~~-~~dgiII----Npga~thtS~Ai~DAl~~~~ 92 (140)
T PF01220_consen 44 EVEFFQSNHEGELIDWIHEARD-DVDGIII----NPGAYTHTSIAIRDALKAIS 92 (140)
T ss_dssp EEEEEE-SSHHHHHHHHHHHTC-TTSEEEE----E-GGGGHT-HHHHHHHHCCT
T ss_pred eEEEEecCCHHHHHHHHHHHHh-hCCEEEE----ccchhccccHHHHHHHHcCC
Confidence 3444555566677777776654 4999999 99999887777777665433
No 122
>PF13200 DUF4015: Putative glycosyl hydrolase domain
Probab=23.44 E-value=1.1e+02 Score=29.36 Aligned_cols=36 Identities=22% Similarity=0.570 Sum_probs=27.8
Q ss_pred CccccchHHHHHHHHHHHhcCCCCeEEEEeCCCCCC
Q 015469 218 TSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGG 253 (406)
Q Consensus 218 ~~f~~~~~~~~~~~~~~~~~~~~~~lIiDlR~N~GG 253 (406)
+.+..+....+++.++.+++.++.++|||+.+-.|-
T Consensus 5 t~~~a~~~~~~~~~~~~i~~t~lNavVIDvKdd~G~ 40 (316)
T PF13200_consen 5 TAYSAGSPERLDKLLDLIKRTELNAVVIDVKDDDGN 40 (316)
T ss_pred chhhcCCHHHHHHHHHHHHhcCCceEEEEEecCCce
Confidence 334334456788999999889999999999977765
No 123
>COG4100 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]
Probab=22.64 E-value=1.4e+02 Score=28.41 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=18.8
Q ss_pred CCCCCCEEEEECCEecCCCCHHHHH
Q 015469 135 GILSGDVILAIDDTSTESMGIYDAA 159 (406)
Q Consensus 135 Gl~~GD~I~~Ing~~v~~~~~~~~~ 159 (406)
-|++||+++.|-|.|..++ .++.
T Consensus 103 ~LRpgDell~i~G~PYDTL--eevI 125 (416)
T COG4100 103 ILRPGDELLYITGSPYDTL--EEVI 125 (416)
T ss_pred ccCCCCeEEEecCCcchhH--HHHh
Confidence 3899999999999998774 5544
No 124
>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit
Probab=22.45 E-value=3e+02 Score=24.45 Aligned_cols=80 Identities=11% Similarity=0.137 Sum_probs=51.2
Q ss_pred CceEEEEcCccccchHHHHHHHHHHHhcC-CCCeEEEEeCCCCCCChHHHHHHHHhhccCCcEEEEEcCCCceeeeecCC
Q 015469 210 PRIGYIKLTSFNQNASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 288 (406)
Q Consensus 210 ~~igyl~i~~f~~~~~~~~~~~~~~~~~~-~~~~lIiDlR~N~GG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 288 (406)
++|-||--+ ..+...+.+-..+-.|... ..+.+.|=+ +-+||++..+..+...+-
T Consensus 30 ~Riifl~~~-i~~~~a~~ii~~ll~L~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~---------------------- 85 (200)
T CHL00028 30 ERLLFLGQE-VDDEIANQLIGLMVYLSIEDDTKDLYLFI-NSPGGSVISGLAIYDTMQ---------------------- 85 (200)
T ss_pred CCEEEECCe-ecHHHHHHHHHHHHHHhccCCCCCEEEEE-eCCCcchhhHHHHHHHHH----------------------
Confidence 466565422 2334456666666666544 366676666 567888888776666542
Q ss_pred CCccCCCCCEEEEEcCCCccHHHHHHHHH
Q 015469 289 TDALAASEPLAVLVNKGTASASEILAGAL 317 (406)
Q Consensus 289 ~~~~~~~~~v~vLvd~~t~SaaE~~a~~l 317 (406)
..+.||...+++.++|+|-+++.+=
T Consensus 86 ----~~~~~V~Tv~~G~AaS~aslIl~aG 110 (200)
T CHL00028 86 ----FVKPDVHTICLGLAASMASFILAGG 110 (200)
T ss_pred ----hcCCCEEEEEEEehHHHHHHHHhCC
Confidence 1234688888899999888877664
No 125
>PF08090 Enterotoxin_HS1: Heat stable E.coli enterotoxin 1; InterPro: IPR012557 Heat-stable toxin 1 of entero-aggregative Escherichia coli (EAST1) is a small toxin. It is not, however, solely associated with entero-aggregative E. coli but also with many other diarrhoeic E. coli families. Some studies have established the role of EAST1 in some human outbreaks of diarrhoea. Isolates from farm animals have been shown to carry the astA gene coding for EAST1. However, the relation between the presence of EAST1 and disease is not conclusive [].
Probab=21.76 E-value=35 Score=20.35 Aligned_cols=12 Identities=33% Similarity=0.863 Sum_probs=10.1
Q ss_pred hhhcccccchhh
Q 015469 386 CGCLQDSASTCN 397 (406)
Q Consensus 386 ~~~~~~~~~~~~ 397 (406)
.+++|.|+|+||
T Consensus 2 ~~~ir~pass~a 13 (36)
T PF08090_consen 2 IQCIRRPASSCA 13 (36)
T ss_pred cceecccccchh
Confidence 368899999997
No 126
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000. Domains described by this model are found, so far, only in the Planctomycetes (Pirellula sp. strain 1 and Gemmata obscuriglobus), in up to six proteins per genome, and may be duplicated within a protein. The function is unknown.
Probab=20.74 E-value=2.3e+02 Score=20.94 Aligned_cols=42 Identities=19% Similarity=0.212 Sum_probs=32.1
Q ss_pred CeEEEcccCCCCceeeeE--EECCCCCeEEEEEeEEEcCCCCcc
Q 015469 322 RAVLFGEPTYGKGKIQSV--FQLSDGSGLAVTVARYETPAHTDI 363 (406)
Q Consensus 322 ~~~ivG~~T~G~~~~~~~--~~L~~g~~~~~~~~~~~~~~g~~~ 363 (406)
+..+=|.+|.|.|..-.. -.|+.|..+.+...--+.++|+.+
T Consensus 14 kl~v~G~~t~~~G~~R~F~T~~L~~G~~y~Y~v~a~~~~dG~~~ 57 (75)
T TIGR03000 14 KLKVDGKETNGTGTVRTFTTPPLEAGKEYEYTVTAEYDRDGRIL 57 (75)
T ss_pred EEEECCeEcccCccEEEEECCCCCCCCEEEEEEEEEEecCCcEE
Confidence 456778999988865433 368889888888888888998654
No 127
>TIGR03121 one_C_dehyd_A formylmethanofuran dehydrogenase subunit A. Members of this largely archaeal protein family are subunit A of the formylmethanofuran dehydrogenase. Nomenclature in some bacteria may reflect inclusion of the formyltransferase described by TIGR03119 as part of the complex, and therefore call this protein formyltransferase/hydrolase complex Fhc subunit A. Note that this model does not distinguish tungsten (FwdA) from molybdenum-containing (FmdA) forms of this enzyme; a single gene from this family is expressed constitutively in Methanobacterium thermoautotrophicum, which has both tungsten and molybdenum forms and may work interchangeably.
Probab=20.26 E-value=99 Score=32.17 Aligned_cols=73 Identities=18% Similarity=0.180 Sum_probs=49.6
Q ss_pred CCccHHHHHHHHHhcCCCeEE-EcccCCCCceeeeE-EECCCCCeEEEEEeEEEcCCCCccCCCCcccCeecCCCC
Q 015469 305 GTASASEILAGALKDNKRAVL-FGEPTYGKGKIQSV-FQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTF 378 (406)
Q Consensus 305 ~t~SaaE~~a~~lk~~~~~~i-vG~~T~G~~~~~~~-~~L~~g~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~ 378 (406)
.-.|.|+.+|..+..++++++ ||+-++|.....+. -+... ....++..+|..-|.+.-.+.||.|=+.-+..+
T Consensus 282 ~f~s~a~~~a~~vn~~~~~t~d~Gqv~fg~t~tmt~d~~~~~-~~~~~~~~kw~~~d~e~e~g~gvvp~~y~~~~~ 356 (556)
T TIGR03121 282 DFESGAEKIADYVNANPNVTIDVGQVTFGETTTMTADGPMEY-DLHKLTGLKWANKDVELETGSGVVPFKYSPKNP 356 (556)
T ss_pred CcchhHHHHHHHHhcCCCEEEEeCceecCCceEEeccchhhh-hcccCCCCceeeeeeecccCCceEEeeecCCCc
Confidence 567999999999999998775 99999998643221 00100 123445567777776666788999987655443
Done!