Query 009668
Match_columns 529
No_of_seqs 382 out of 3101
Neff 7.2
Searched_HMMs 46136
Date Thu Mar 28 15:54:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009668.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009668hhsearch_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 2.8E-67 6E-72 554.0 45.0 387 142-528 3-389 (389)
2 COG0793 Prc Periplasmic protea 100.0 2E-58 4.4E-63 486.3 37.6 351 143-523 38-390 (406)
3 PRK11186 carboxy-terminal prot 100.0 2.4E-54 5.2E-59 475.6 39.1 363 137-514 151-544 (667)
4 TIGR00225 prc C-terminal pepti 100.0 2.4E-51 5.3E-56 425.5 37.7 308 183-503 10-319 (334)
5 cd06567 Peptidase_S41 C-termin 100.0 3E-36 6.6E-41 295.4 25.7 221 148-498 1-224 (224)
6 cd07562 Peptidase_S41_TRI Tric 100.0 3.7E-37 8E-42 309.8 18.8 260 144-524 2-264 (266)
7 cd07563 Peptidase_S41_IRBP Int 100.0 4E-35 8.8E-40 292.4 25.0 226 148-501 2-241 (250)
8 smart00245 TSPc tail specific 100.0 5E-35 1.1E-39 280.5 23.4 189 303-498 3-192 (192)
9 cd07560 Peptidase_S41_CPP C-te 100.0 4.7E-33 1E-37 270.4 21.3 162 335-498 50-211 (211)
10 cd07561 Peptidase_S41_CPP_like 100.0 1.7E-31 3.8E-36 266.4 21.2 170 332-501 63-245 (256)
11 PF03572 Peptidase_S41: Peptid 100.0 2.9E-30 6.3E-35 241.1 16.8 162 334-497 1-169 (169)
12 COG3975 Predicted protease wit 99.7 5.1E-16 1.1E-20 163.0 12.4 170 111-310 353-522 (558)
13 PF13180 PDZ_2: PDZ domain; PD 99.3 1.1E-11 2.3E-16 102.4 9.6 79 225-309 2-81 (82)
14 cd00988 PDZ_CTP_protease PDZ d 99.2 2.3E-10 4.9E-15 94.6 11.6 82 223-310 1-83 (85)
15 cd00991 PDZ_archaeal_metallopr 98.9 5.4E-09 1.2E-13 85.6 9.4 68 240-309 9-77 (79)
16 cd00989 PDZ_metalloprotease PD 98.9 5.7E-09 1.2E-13 84.8 8.8 76 226-309 3-78 (79)
17 cd00136 PDZ PDZ domain, also c 98.9 6.9E-09 1.5E-13 82.4 8.2 68 225-297 2-69 (70)
18 cd00990 PDZ_glycyl_aminopeptid 98.9 1.1E-08 2.3E-13 83.6 9.0 67 240-310 11-77 (80)
19 PF14684 Tricorn_C1: Tricorn p 98.8 2.8E-09 6E-14 85.4 2.8 66 142-207 2-68 (70)
20 cd00986 PDZ_LON_protease PDZ d 98.8 3.8E-08 8.2E-13 80.4 9.5 69 241-312 8-77 (79)
21 PF00595 PDZ: PDZ domain (Also 98.7 3.5E-08 7.5E-13 81.0 6.3 71 224-297 10-80 (81)
22 cd00987 PDZ_serine_protease PD 98.6 1.6E-07 3.5E-12 78.1 7.8 65 241-307 24-89 (90)
23 smart00228 PDZ Domain present 98.5 7.5E-07 1.6E-11 72.8 8.6 74 224-301 12-85 (85)
24 cd00992 PDZ_signaling PDZ doma 98.4 7.9E-07 1.7E-11 72.5 8.2 70 224-297 12-81 (82)
25 PF14685 Tricorn_PDZ: Tricorn 98.4 1.5E-06 3.2E-11 72.6 8.8 75 226-308 3-88 (88)
26 TIGR00054 RIP metalloprotease 98.3 1.2E-06 2.6E-11 94.0 8.5 68 242-311 204-271 (420)
27 PRK10139 serine endoprotease; 98.3 1.6E-06 3.6E-11 93.8 9.0 69 240-310 289-358 (455)
28 PRK10898 serine endoprotease; 98.3 2.4E-06 5.2E-11 89.7 9.4 69 241-311 279-348 (353)
29 TIGR02038 protease_degS peripl 98.3 1.9E-06 4E-11 90.5 8.5 69 241-311 278-347 (351)
30 TIGR01713 typeII_sec_gspC gene 98.3 2.1E-06 4.7E-11 86.1 8.4 67 241-309 191-258 (259)
31 PRK10779 zinc metallopeptidase 98.3 2.1E-06 4.5E-11 93.0 8.6 68 242-311 222-289 (449)
32 TIGR02037 degP_htrA_DO peripla 98.2 3.4E-06 7.4E-11 90.8 9.0 69 241-311 257-326 (428)
33 PRK10779 zinc metallopeptidase 98.2 2.5E-06 5.5E-11 92.4 6.1 66 243-310 128-194 (449)
34 PRK10942 serine endoprotease; 98.1 6.6E-06 1.4E-10 89.6 8.9 69 240-310 310-379 (473)
35 TIGR02860 spore_IV_B stage IV 98.0 2.1E-05 4.5E-10 83.0 9.5 59 251-311 123-181 (402)
36 TIGR02037 degP_htrA_DO peripla 98.0 1.5E-05 3.3E-10 85.9 7.9 65 241-307 362-427 (428)
37 PRK10139 serine endoprotease; 98.0 1.8E-05 4E-10 85.8 8.2 65 241-308 390-454 (455)
38 PF04495 GRASP55_65: GRASP55/6 98.0 2.1E-05 4.6E-10 71.4 7.1 86 224-311 26-114 (138)
39 TIGR03279 cyano_FeS_chp putati 97.9 1.9E-05 4.2E-10 83.7 6.5 62 245-311 2-64 (433)
40 PRK10942 serine endoprotease; 97.9 3.7E-05 8.1E-10 83.8 8.2 65 241-308 408-472 (473)
41 KOG3129 26S proteasome regulat 97.7 0.00012 2.5E-09 69.6 7.4 72 242-313 140-212 (231)
42 KOG3209 WW domain-containing p 97.7 7.5E-05 1.6E-09 81.6 6.5 74 223-301 764-838 (984)
43 TIGR00054 RIP metalloprotease 97.6 6.9E-05 1.5E-09 80.6 5.2 64 242-308 129-192 (420)
44 COG0265 DegQ Trypsin-like seri 97.5 0.00032 6.9E-09 73.5 8.8 69 241-311 270-339 (347)
45 KOG3553 Tax interaction protei 97.5 9.7E-05 2.1E-09 62.0 3.6 47 240-286 58-104 (124)
46 KOG3550 Receptor targeting pro 97.5 0.00036 7.9E-09 62.9 7.1 71 224-298 101-172 (207)
47 COG3480 SdrC Predicted secrete 97.3 0.0011 2.4E-08 67.0 8.6 76 224-310 121-198 (342)
48 KOG3209 WW domain-containing p 96.9 0.0023 5E-08 70.4 7.7 74 223-301 908-982 (984)
49 PRK09681 putative type II secr 96.9 0.0049 1.1E-07 62.1 9.4 53 255-309 221-274 (276)
50 KOG1421 Predicted signaling-as 96.7 0.0041 9E-08 68.3 7.5 68 241-311 303-370 (955)
51 KOG3651 Protein kinase C, alph 96.5 0.0078 1.7E-07 60.2 7.2 56 242-298 31-87 (429)
52 KOG3549 Syntrophins (type gamm 96.3 0.0059 1.3E-07 62.2 5.4 73 222-298 64-137 (505)
53 KOG3552 FERM domain protein FR 96.3 0.0059 1.3E-07 69.0 5.6 67 222-299 65-131 (1298)
54 KOG1892 Actin filament-binding 96.1 0.014 3.1E-07 66.1 7.4 77 224-301 943-1020(1629)
55 KOG3580 Tight junction protein 96.0 0.011 2.4E-07 64.0 6.0 57 242-298 430-487 (1027)
56 KOG3542 cAMP-regulated guanine 95.9 0.006 1.3E-07 66.7 3.6 58 240-299 561-618 (1283)
57 KOG3532 Predicted protein kina 95.6 0.024 5.1E-07 62.4 6.3 65 224-295 386-450 (1051)
58 KOG1320 Serine protease [Postt 95.4 0.046 1E-06 59.0 8.0 68 242-311 399-467 (473)
59 cd07021 Clp_protease_NfeD_like 95.0 0.12 2.7E-06 49.0 8.6 69 346-441 13-81 (178)
60 KOG3571 Dishevelled 3 and rela 94.8 0.058 1.3E-06 57.7 6.4 73 226-299 263-338 (626)
61 KOG3580 Tight junction protein 94.7 0.089 1.9E-06 57.3 7.6 79 222-302 18-99 (1027)
62 KOG3605 Beta amyloid precursor 94.7 0.033 7.2E-07 61.1 4.4 72 243-314 675-748 (829)
63 KOG3551 Syntrophins (type beta 94.6 0.041 8.9E-07 57.0 4.6 72 223-298 95-167 (506)
64 COG3031 PulC Type II secretory 94.6 0.058 1.3E-06 52.7 5.3 58 249-308 215-273 (275)
65 KOG0609 Calcium/calmodulin-dep 93.5 0.16 3.4E-06 55.1 6.5 87 226-318 136-226 (542)
66 KOG3606 Cell polarity protein 92.7 0.26 5.6E-06 49.0 6.2 61 241-302 194-255 (358)
67 PF12812 PDZ_1: PDZ-like domai 92.6 0.2 4.4E-06 40.9 4.5 43 243-287 32-74 (78)
68 KOG0606 Microtubule-associated 92.4 0.19 4.1E-06 58.7 5.5 54 243-297 660-713 (1205)
69 cd07020 Clp_protease_NfeD_1 No 91.2 1.4 2.9E-05 42.1 9.3 70 346-442 13-85 (187)
70 COG0750 Predicted membrane-ass 90.8 0.64 1.4E-05 49.0 7.3 58 244-303 132-193 (375)
71 KOG3834 Golgi reassembly stack 90.8 0.59 1.3E-05 49.5 6.7 82 226-310 94-179 (462)
72 KOG3605 Beta amyloid precursor 90.3 0.23 5E-06 54.8 3.3 47 244-290 759-805 (829)
73 cd07015 Clp_protease_NfeD Nodu 86.2 4.1 8.9E-05 38.5 8.5 70 346-442 13-85 (172)
74 KOG1738 Membrane-associated gu 85.9 1.1 2.4E-05 49.5 5.1 60 223-287 212-272 (638)
75 KOG3834 Golgi reassembly stack 83.6 1.9 4.2E-05 45.7 5.4 68 241-310 15-85 (462)
76 cd00394 Clp_protease_like Case 83.3 4.1 8.8E-05 37.4 7.1 69 346-441 11-80 (161)
77 TIGR00706 SppA_dom signal pept 80.9 10 0.00022 36.7 9.2 70 347-441 14-84 (207)
78 cd07016 S14_ClpP_1 Caseinolyti 79.0 4.9 0.00011 37.0 6.0 66 347-441 16-81 (160)
79 COG0616 SppA Periplasmic serin 76.9 16 0.00035 37.9 9.7 82 348-459 82-164 (317)
80 KOG2921 Intramembrane metallop 76.5 3.4 7.4E-05 43.5 4.5 44 240-285 219-263 (484)
81 PF11874 DUF3394: Domain of un 74.0 3.4 7.3E-05 39.3 3.5 38 226-269 113-150 (183)
82 COG1030 NfeD Membrane-bound se 73.6 22 0.00048 38.3 9.7 60 333-393 26-86 (436)
83 KOG3938 RGS-GAIP interacting p 72.8 7 0.00015 39.1 5.4 67 226-297 139-207 (334)
84 PRK14512 ATP-dependent Clp pro 71.9 16 0.00035 35.2 7.7 82 333-442 23-105 (197)
85 cd07014 S49_SppA Signal peptid 70.5 20 0.00043 33.6 7.9 71 347-441 23-94 (177)
86 cd07013 S14_ClpP Caseinolytic 67.9 15 0.00033 34.0 6.4 69 346-441 12-81 (162)
87 cd07023 S49_Sppa_N_C Signal pe 67.5 32 0.00069 33.1 8.8 82 346-456 17-99 (208)
88 PF01972 SDH_sah: Serine dehyd 66.6 31 0.00067 35.0 8.5 72 348-452 77-148 (285)
89 PRK12553 ATP-dependent Clp pro 60.8 24 0.00052 34.2 6.5 70 345-441 46-116 (207)
90 cd07022 S49_Sppa_36K_type Sign 59.6 70 0.0015 31.0 9.6 81 346-456 25-106 (214)
91 PF00574 CLP_protease: Clp pro 58.2 13 0.00028 35.0 4.0 71 346-443 28-99 (182)
92 KOG1421 Predicted signaling-as 58.1 26 0.00056 39.7 6.7 68 240-310 861-930 (955)
93 cd07019 S49_SppA_1 Signal pept 57.7 56 0.0012 31.6 8.6 70 348-441 23-93 (211)
94 cd07017 S14_ClpP_2 Caseinolyti 57.4 33 0.00071 32.1 6.6 68 347-441 22-90 (171)
95 PRK00277 clpP ATP-dependent Cl 41.6 82 0.0018 30.3 6.8 67 346-439 43-110 (200)
96 TIGR00493 clpP ATP-dependent C 40.2 91 0.002 29.8 6.8 67 347-440 39-106 (191)
97 PRK12551 ATP-dependent Clp pro 33.2 1.1E+02 0.0024 29.4 6.2 69 346-441 37-106 (196)
98 PRK07854 enoyl-CoA hydratase; 32.9 2.2E+02 0.0048 28.0 8.5 90 333-440 8-108 (243)
99 PRK11778 putative inner membra 32.9 3.5E+02 0.0076 28.3 10.1 105 333-466 90-197 (330)
100 cd07041 STAS_RsbR_RsbS_like Su 32.8 83 0.0018 26.5 4.8 42 333-374 9-52 (109)
101 cd07043 STAS_anti-anti-sigma_f 31.9 1.8E+02 0.0039 23.4 6.6 49 334-382 8-57 (99)
102 TIGR00705 SppA_67K signal pept 30.5 4.3E+02 0.0094 29.9 11.2 80 348-456 331-411 (584)
103 COG5233 GRH1 Peripheral Golgi 27.1 29 0.00062 35.8 1.0 35 240-274 62-96 (417)
104 TIGR02886 spore_II_AA anti-sig 26.4 1.5E+02 0.0033 24.7 5.3 45 333-377 7-53 (106)
105 PF04343 DUF488: Protein of un 25.1 1.2E+02 0.0026 26.5 4.5 29 351-380 2-34 (122)
106 PF01740 STAS: STAS domain; I 24.5 2E+02 0.0043 24.3 5.8 47 333-379 8-64 (117)
107 PRK10949 protease 4; Provision 24.5 6.8E+02 0.015 28.6 11.3 98 332-458 325-431 (618)
108 COG4100 Cystathionine beta-lya 23.8 1.2E+02 0.0026 31.4 4.7 22 259-282 104-125 (416)
109 TIGR00377 ant_ant_sig anti-ant 23.6 2.4E+02 0.0051 23.4 6.0 46 333-378 11-58 (108)
110 KOG4407 Predicted Rho GTPase-a 22.4 38 0.00082 41.1 0.9 45 241-285 143-187 (1973)
111 cd07042 STAS_SulP_like_sulfate 21.8 2E+02 0.0043 23.5 5.1 45 332-376 7-54 (107)
112 PRK14513 ATP-dependent Clp pro 21.4 2.7E+02 0.0059 26.9 6.5 81 333-441 27-108 (201)
113 cd00059 FH Forkhead (FH), also 21.1 98 0.0021 25.2 2.9 39 123-170 8-46 (78)
114 cd06844 STAS Sulphate Transpor 20.5 2.1E+02 0.0045 23.7 4.9 43 333-375 7-51 (100)
No 1
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=100.00 E-value=2.8e-67 Score=554.01 Aligned_cols=387 Identities=80% Similarity=1.272 Sum_probs=344.6
Q ss_pred chhHHHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhccCCCCCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCC
Q 009668 142 SEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQG 221 (529)
Q Consensus 142 s~~~~~fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~~~~~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~ 221 (529)
++.+++|+++|++++++|+++.++|++|+++++.+.....+++.++++.++++|+++|+|||+.|++++++..+.....+
T Consensus 3 ~~~~~~f~e~w~~v~~~~~d~~~~g~dW~~~~e~y~~~~~~~~~~~~~~~i~~ml~~L~D~hs~y~~~~~~~~~~~~~~~ 82 (389)
T PLN00049 3 TEENLLFLEAWRTVDRAYVDKTFNGQSWFRYRENALKNEPMNTREETYAAIRKMLATLDDPFTRFLEPEKFKSLRSGTKG 82 (389)
T ss_pred ccHHHHHHHHHHHHHHHHcCccccccCHHHHHHHHhhccCCCcHHHHHHHHHHHHhhCCCCcccCcCHHHHHHHHHhccC
Confidence 57889999999999999999999999999999999887777788899999999999999999999999998877666678
Q ss_pred cceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCC
Q 009668 222 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 301 (529)
Q Consensus 222 ~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g 301 (529)
.+.|+|+.+...........+++|..|.++|||+++||++||+|++|||+++.++...++..++++..|+.+.+++.|++
T Consensus 83 ~~~GiG~~~~~~~~~~~~~~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~r~g 162 (389)
T PLN00049 83 AVTGVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRRGP 162 (389)
T ss_pred CceEEEEEEEEccCCCCccCcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEEECC
Confidence 89999999876422111112789999999999999999999999999999999887777888888889999999999999
Q ss_pred eeEEEEEeeeccccccccceeeecCCCCCCCCceEEEEecccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHH
Q 009668 302 EIRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEG 381 (529)
Q Consensus 302 ~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~ 381 (529)
+.++++++|..+..+|+....+........+++||||+|++|...+.+++.+++++++++++++||||||+|+||.+..+
T Consensus 163 ~~~~~~l~r~~v~~~~v~~~~~~~~~~~~~~~~IgYi~i~~F~~~~~~~~~~~l~~l~~~~~~glIlDLR~N~GG~~~~a 242 (389)
T PLN00049 163 ETRLVTLTREKVSLNPVKSRLCEVPGPGAGSPKIGYIKLTTFNQNASSAVKEAIETLRANGVDAFVLDLRDNSGGLFPAG 242 (389)
T ss_pred EEEEEEEEeeeEeccceeeEEEeeccccCCCCCEEEEEeccccchhHHHHHHHHHHHHHCCCCEEEEEcCCCCCCCHHHH
Confidence 99999999999888888776543211112346899999999999889999999999999999999999999999999999
Q ss_pred HHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeee
Q 009668 382 IEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQS 461 (529)
Q Consensus 382 ~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~ 461 (529)
..++++|++++.+++...+++..+.+...+.....+.+|++||||++||||||+|+.+||+++++++||++|+|++..|.
T Consensus 243 ~~ia~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~PvvVLvn~~TaSasEi~a~alk~~~~~~vvG~~T~Gkg~~q~ 322 (389)
T PLN00049 243 IEIAKLWLDKGVIVYIADSRGVRDIYDADGSSAIATSEPLAVLVNKGTASASEILAGALKDNKRAVVLGEPTFGKGLIQS 322 (389)
T ss_pred HHHHHHhcCCCcEEEEecCCCceeEEecCCCccccCCCCEEEEECCCCccHHHHHHHHHhhCCCeEEEecCCcCCcccce
Confidence 99999999999888776666655555554433345789999999999999999999999999999999999999999999
Q ss_pred EEECCCCceEEEEeeEEEcCCCcccCCCCcccceEcCCCCCCChhhHhhhccCccccccccCCcccc
Q 009668 462 VFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNGGQLFA 528 (529)
Q Consensus 462 ~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~~~~~~~~~~l~~~l~d~~~~~~~~~~~~~~ 528 (529)
.++|++|+.+++|+++|++|+|..+|+.||+||++||..++.++++|++|+.||..+|+.++-|||+
T Consensus 323 ~~~L~dG~~l~lt~~~~~~p~G~~ie~~Gi~PDi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 389 (389)
T PLN00049 323 VFELSDGSGLAVTVARYQTPAGTDIDKVGITPDHPLPESLPKDEEAFCGCLADPAAACYLNAPQLFS 389 (389)
T ss_pred eEEeCCCCEEEEEEEEEECCCCCCcCCCCcCCCeECCCCCCcchHHHHHHhhcchhhcccchhhhcC
Confidence 9999999999999999999999999999999999999999999999999999999999999999985
No 2
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=2e-58 Score=486.27 Aligned_cols=351 Identities=34% Similarity=0.575 Sum_probs=304.6
Q ss_pred hhHHHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhccCCCCCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCCc
Q 009668 143 EENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGA 222 (529)
Q Consensus 143 ~~~~~fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~~~~~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~ 222 (529)
...+.|++.++.+.++|+.+ .+....++.++.+|++.|.|||+.|+.++++..+.....++
T Consensus 38 ~~~~~~~~~~~~i~~~y~~~-------------------~~~~~l~~~ai~g~ls~l~Dp~s~y~~~e~~~~~~~~~~~~ 98 (406)
T COG0793 38 VALDKLDDKYEGIREEYVTR-------------------VDSDKLFEGAIEGMLSSLGDPHSTYLDPEDAAEFRTDTSGE 98 (406)
T ss_pred HHHHHHHHHHHhhHHHHccC-------------------ccHHHHHHHHHHHHHHhcCCCcccccCHHHHHHhhhhcccc
Confidence 33445566666666666543 34557788999999999999999999999999998889999
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeC--
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG-- 300 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~-- 300 (529)
+.|+|+.+...+ .+.+.|.++++|+||+++||++||.|++|||+++.+...++++..++|++|++|+|++.|.
T Consensus 99 ~~GiG~~i~~~~-----~~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~~~av~~irG~~Gt~V~L~i~r~~~ 173 (406)
T COG0793 99 FGGIGIELQMED-----IGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRAGG 173 (406)
T ss_pred ccceeEEEEEec-----CCCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCHHHHHHHhCCCCCCeEEEEEEEcCC
Confidence 999999998762 1688999999999999999999999999999999999888999999999999999999996
Q ss_pred CeeEEEEEeeeccccccccceeeecCCCCCCCCceEEEEecccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHH
Q 009668 301 AEIRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPE 380 (529)
Q Consensus 301 g~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~ 380 (529)
+++++++++|+.+.+.++.++.... ...++.||||||++|.....++++.++.+|+++++++||||||+|+||.+++
T Consensus 174 ~k~~~v~l~Re~i~l~~v~~~~~~~---~~~~~~IGyI~I~~F~~~~~~~~~~al~~L~~~~~~GlIlDLR~N~GG~L~~ 250 (406)
T COG0793 174 GKPFTVTLTREEIELEDVAAKEKVE---EGGKGRIGYIRIPSFGEGTYEDLEKALDELKKQGAKGLILDLRNNPGGLLSQ 250 (406)
T ss_pred CceeEEEEEEEEEeccceeeeeeee---cCCCceEEEEEecccccchHHHHHHHHHHHHhcCCcEEEEEeCCCCCccHHH
Confidence 6789999999999999988763221 1223459999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceee
Q 009668 381 GIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQ 460 (529)
Q Consensus 381 ~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~ 460 (529)
+..++.+|++++.+++++.+.+....+...... ..+++|++||||++||||+|+||++||+++|++|||++|+|++++|
T Consensus 251 av~i~~~f~~~g~iv~~~~r~g~~~~~~~~~~~-~~~~~PlvvLvn~~SASAsEI~agalqd~~ra~lVG~~TfGkg~vQ 329 (406)
T COG0793 251 AVKLAGLFLPSGPIVSTRGRNGKVNVYFSASGE-ALYDGPLVVLVNEGSASASEIFAGALQDYGRATLVGETTFGKGTVQ 329 (406)
T ss_pred HHHHHHcccCCCcEEEEecCCCceeeccccccc-cCCCCCEEEEECCCCccHHHHHHHHHHHcCCcEEEecccccceEEE
Confidence 999999999999999999998876655443222 2689999999999999999999999999999999999999999999
Q ss_pred eEEECCCCceEEEEeeEEEcCCCcccCCCCcccceEcCCCCCCChhhHhhhccCccccccccC
Q 009668 461 SVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNG 523 (529)
Q Consensus 461 ~~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~~~~~~~~~~l~~~l~d~~~~~~~~~ 523 (529)
..++|++|+.+++|+++|++|+|+.+|++||.|||+|+.... ...-....+|+..+|++..
T Consensus 330 ~~~~L~dg~~lklT~a~yytp~G~~i~~~GI~PDI~v~~~~~--~~~e~~~~~~~~~~~~~~~ 390 (406)
T COG0793 330 TLRPLSDGSALKLTIAKYYTPSGRSIEGKGITPDIEVPQADD--EPGEYAAGRDPQLEAALEA 390 (406)
T ss_pred eeEEcCCCCeEEEEEEEEECCCCccccccCcCCCEeccCCcc--cchhhhcccchHhhhhhhh
Confidence 999999999999999999999999999999999999988754 1222234677777777654
No 3
>PRK11186 carboxy-terminal protease; Provisional
Probab=100.00 E-value=2.4e-54 Score=475.59 Aligned_cols=363 Identities=25% Similarity=0.439 Sum_probs=301.5
Q ss_pred CccccchhHHHHHHHHH-HHHHHcCCCCCCCCChHHHHHHHh--------ccCCCCCHHHHHHHHHHHHHhcCCCCcccc
Q 009668 137 PSLALSEENRLFLEAWR-TIDRAYVDKTFNGQSWFRYRENAL--------RNEPMNTREETYMAIRKMLATLDDPFTRFL 207 (529)
Q Consensus 137 ~~~~~s~~~~~fd~v~~-~l~~~Y~~~~~~g~~w~~~~~~~~--------~~~~~~~~~~f~~~i~~~l~~L~Dpht~~l 207 (529)
.+|+.+ ...++++|+ .++..|.+..+.|.+|+++++.+. +....+..+.|..++..|+..+ |||+.|+
T Consensus 151 ~~w~~~--~~el~~~W~k~vk~~~l~~~~~g~~w~~i~~~l~krY~~~l~~~~~~~~~d~~~~~i~~m~~~l-DphT~Y~ 227 (667)
T PRK11186 151 APWPKD--EAELNELWDQRVKYDALNLKLTGKTWPEIKETLTKRYNFAIKRLTQTNSEDVFQLAMNAFAREI-DPHTSYL 227 (667)
T ss_pred CCCcCC--HHHHHHHHHHHHHHHHhhhhhcCCCHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHhCC-CCCcccc
Confidence 357654 455799999 699999999999999998874332 1222334455788888988888 9999999
Q ss_pred ChhhhhhhccccCCcceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCC-CCCCCCEEEEEC--CE---ecCCCCHHHH
Q 009668 208 EPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRA-GILSGDVILAID--DT---STESMGIYDA 281 (529)
Q Consensus 208 ~~~~~~~~~~~~~~~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~a-GL~~GD~IlaIn--G~---~v~~~~~~~~ 281 (529)
+|.+++.+.....+.+.|+|+.+... ++.++|.+|++||||+++ ||++||+|++|| |. ++.++..+++
T Consensus 228 sp~e~e~f~~~~~~~~~GIGa~l~~~------~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~v 301 (667)
T PRK11186 228 SPRNAEQFNTEMNLSLEGIGAVLQMD------DDYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDV 301 (667)
T ss_pred ChHHHHHhhhccCCceeEEEEEEEEe------CCeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHH
Confidence 99999888777778899999999865 467899999999999998 999999999999 44 4556778899
Q ss_pred HHHhcCCCCCcEEEEEee---CCeeEEEEEeeeccccc--cccceeeecCCCCCCCCceEEEEecccccchhHHHHHHHH
Q 009668 282 AERLQGPEGSPVELTVRS---GAEIRHLALTREKVSLN--PVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAID 356 (529)
Q Consensus 282 ~~~l~g~~G~~v~ltv~r---~g~~~~v~l~r~~~~~~--~v~~~~~~~~~~~~~~~~igYl~i~sF~~~~~~~l~~~l~ 356 (529)
..+++|+.|++|+|+|.| +++.++++++|..+..+ ++...+.+ ..+++||||+|++|..++.+++.+++.
T Consensus 302 v~lirG~~Gt~V~LtV~r~~~~~~~~~vtl~R~~i~l~~~~~k~~v~~-----~~~~kIGYI~I~sF~~~~~~d~~~~l~ 376 (667)
T PRK11186 302 VALIKGPKGSKVRLEILPAGKGTKTRIVTLTRDKIRLEDRAVKMSVKT-----VGGEKVGVLDIPGFYVGLTDDVKKQLQ 376 (667)
T ss_pred HHHhcCCCCCEEEEEEEeCCCCCceEEEEEEeeeecccccceEEEEEe-----cCCCcEEEEEecccccchHHHHHHHHH
Confidence 999999999999999987 35688999999887653 34444443 234689999999999888899999999
Q ss_pred HHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEECCCCCCHHHHH
Q 009668 357 TLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNKGTASASEIL 436 (529)
Q Consensus 357 ~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~f 436 (529)
+++++++++||||||+|+||++..+..++++|++++.+++.+.+.+....+.. ......+.+|++||||++||||||+|
T Consensus 377 ~l~~~~v~gLIlDLR~NgGG~l~~a~~la~lFi~~g~vv~~~~~~g~~~~~~~-~~~~~~~~gPlvVLVN~~SASASEIf 455 (667)
T PRK11186 377 KLEKQNVSGIIIDLRGNGGGALTEAVSLSGLFIPSGPVVQVRDNNGRVRVDSD-TDGVVYYKGPLVVLVDRYSASASEIF 455 (667)
T ss_pred HHHHCCCCEEEEEcCCCCCCcHHHHHHHHHHHhcCCceEEEecCCCceecccc-CCcccccCCCEEEEeCCCCccHHHHH
Confidence 99999999999999999999999999999999999998888776665543322 22334689999999999999999999
Q ss_pred HHHHhcCCCeEEEccCCCCCceeeeEEECCC--------CceEEEEeeEEEcCCCcccCCCCcccceEcCCCCC---CCh
Q 009668 437 AGALKDNKRAVLFGEPTYGKGKIQSVFQLSD--------GSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFP---KDE 505 (529)
Q Consensus 437 a~~lk~~~~a~iVGe~T~G~~~~~~~~~L~~--------G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~~~~~---~~~ 505 (529)
|++||+++||+|||++|+|+|.+|..++|++ +..+++|+++|++|+|.++++.||+|||.||..+. .++
T Consensus 456 A~alqd~~ra~vVG~~T~GKGtvQ~~~~L~~~~~~~~~~~G~lk~Tiak~y~p~G~s~q~~GV~PDi~vp~~~~~~~~GE 535 (667)
T PRK11186 456 AAAMQDYGRALIVGEPTFGKGTVQQHRSLNRIYDQMLRPLGSVQYTIQKFYRINGGSTQRKGVTPDIIFPTGIEPTETGE 535 (667)
T ss_pred HHHHHhcCCEEEEeccCCCccccccccccccccccccCCCCeeEEEEeEEECCCCCcccCCCCCCCeEcCCCcChHhcCC
Confidence 9999999999999999999999998877753 44799999999999999999999999999997654 345
Q ss_pred hhHhhhccC
Q 009668 506 DGFCGCLQD 514 (529)
Q Consensus 506 ~~l~~~l~d 514 (529)
..++++|-=
T Consensus 536 ~~~~~aLpw 544 (667)
T PRK11186 536 SFEDNALPW 544 (667)
T ss_pred CcccCCCCC
Confidence 555555543
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=2.4e-51 Score=425.53 Aligned_cols=308 Identities=39% Similarity=0.692 Sum_probs=269.4
Q ss_pred CCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCCcceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCC
Q 009668 183 NTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSG 262 (529)
Q Consensus 183 ~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~G 262 (529)
++.++++.++.+|+++++|+|+.|++++++..+.....+...++|+.+... +++++|..|.++|||+++||++|
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 344689999999999999999999999988766555567788999998765 46899999999999999999999
Q ss_pred CEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCe--eEEEEEeeeccccccccceeeecCCCCCCCCceEEEEe
Q 009668 263 DVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAE--IRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKL 340 (529)
Q Consensus 263 D~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~--~~~v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i 340 (529)
|+|++|||+++.++...++...+.+..|.++.+++.|+++ ..++++++..+..+++..+++. ..+++||||+|
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 9999999999999877778788888889999999999875 4556677777777777765543 23568999999
Q ss_pred cccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCC
Q 009668 341 TSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEP 420 (529)
Q Consensus 341 ~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gp 420 (529)
++|..+..+++.+++.+++++++++||||||+|+||++..+..++++|++++.+++.+.+++....+...+ ...+++|
T Consensus 159 ~~f~~~~~~~~~~~l~~l~~~~~~~lIiDLR~N~GG~~~~a~~~a~~f~~~~~~~~~~~~~g~~~~~~~~~--~~~~~~p 236 (334)
T TIGR00225 159 SSFSEHTTEDVKKALDKLEKKNAKGYILDLRGNPGGLLQSAVDISRLFITKGPIVQTKDRNGSKRHYKANG--RQPYNLP 236 (334)
T ss_pred EecccchHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCcEEEEEcCCCcceEEecCC--CccCCCC
Confidence 99999888999999999988899999999999999999999999999999998888777666544444432 2368999
Q ss_pred EEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEECCCCceEEEEeeEEEcCCCcccCCCCcccceEcCCC
Q 009668 421 LAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKT 500 (529)
Q Consensus 421 v~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~~~ 500 (529)
++||||+.|+||||+||++||+++++++||++|+|++..+..++|++|+.+.+|+.++++|+|..+|+.||+|||.|+.+
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 99999999999999999999999999999999999999999999999999999999999999999999999999999877
Q ss_pred CCC
Q 009668 501 FPK 503 (529)
Q Consensus 501 ~~~ 503 (529)
...
T Consensus 317 ~~~ 319 (334)
T TIGR00225 317 DDP 319 (334)
T ss_pred cch
Confidence 654
No 5
>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=3e-36 Score=295.40 Aligned_cols=221 Identities=43% Similarity=0.714 Sum_probs=193.5
Q ss_pred HHHHHHHHHHHcCCCCCCCCChHHHHHHHhcc-CCCCCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCCcceee
Q 009668 148 FLEAWRTIDRAYVDKTFNGQSWFRYRENALRN-EPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGV 226 (529)
Q Consensus 148 fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~-~~~~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~~~gl 226 (529)
|+++|+.+.+.|+++ ++.+|..+++.+... ...++..++...+..|+.+|+|+|+.+..
T Consensus 1 ~~~~~~~~~~~y~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~D~hs~~~~------------------ 60 (224)
T cd06567 1 FDEAWRLLRENYYDP--HGVDWDALRDRYVDLLDAVDDRELLAGALNGMLGELGDPHSRYLT------------------ 60 (224)
T ss_pred CHHHHHHHHHHhccc--chhHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHhCCCCCceeEE------------------
Confidence 578999999999987 799999998888754 24577799999999999999999997654
Q ss_pred eEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEE
Q 009668 227 GLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHL 306 (529)
Q Consensus 227 G~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v 306 (529)
T Consensus 61 -------------------------------------------------------------------------------- 60 (224)
T cd06567 61 -------------------------------------------------------------------------------- 60 (224)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEeeeccccccccceeeecCCCCCCCCceEEEEecccc-cchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHH
Q 009668 307 ALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFN-QNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIA 385 (529)
Q Consensus 307 ~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~-~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~ 385 (529)
||||+|++|. ....+.+.+++..+++ ++++||||||+|+||++..+..++
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 5899999998 6678889999998887 899999999999999999999999
Q ss_pred HhhcCCCcEEEEEcCCCc-eeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEE
Q 009668 386 KIWLDKGVIVYICDSRGV-RDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQ 464 (529)
Q Consensus 386 ~~f~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~ 464 (529)
++|++++.........+. ...+.. ......+.+||+||||+.|+||||+|+.+||+++++++||++|+|++..+..+.
T Consensus 112 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~pv~vL~~~~taSaaE~~a~~lk~~~~~~vvG~~T~G~~~~~~~~~ 190 (224)
T cd06567 112 SLFLPKGKIVVTTRRRGGNETEYVA-PGGGSLYDGPLVVLVNEGSASASEIFAGALQDLGRATLVGERTFGKGSVQTVFP 190 (224)
T ss_pred HHhcCCCcEEEEEecCCCceeEEec-CCCCcccCCCEEEEECCCCccHHHHHHHHHHhCCCeEEEeeCCCCCCcceEEEE
Confidence 999999987766543332 122222 223457899999999999999999999999999999999999999999899999
Q ss_pred CCCCceEEEEeeEEEcCCCcccCCCCcccceEcC
Q 009668 465 LSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLP 498 (529)
Q Consensus 465 L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~ 498 (529)
||+|+.+.+|+.++++|+|..+++.||.|||+|+
T Consensus 191 l~~g~~~~~~~~~~~~~~g~~~~~~Gv~PDi~v~ 224 (224)
T cd06567 191 LLDGSALKLTTAKYYTPSGRSIEGKGVEPDIEVP 224 (224)
T ss_pred cCCCCEEEEEEEEEECCCCCCccCCccCCCEECC
Confidence 9999999999999999999999999999999985
No 6
>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=3.7e-37 Score=309.80 Aligned_cols=260 Identities=24% Similarity=0.301 Sum_probs=199.5
Q ss_pred hHHHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhc-cCCCCCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCCc
Q 009668 144 ENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALR-NEPMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGA 222 (529)
Q Consensus 144 ~~~~fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~-~~~~~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~ 222 (529)
..+.|+++|++++++|++++++|+||+++++++.+ +..+.+..+++..+.+|+++|+|+|+.+... .
T Consensus 2 ~~~~fd~~w~~~~~~y~~~~~~g~dW~~~~~~y~~~~~~~~~~~e~~~~l~~ml~~L~d~H~~~~~~-~----------- 69 (266)
T cd07562 2 WLQMFDEAWRLVRDNFYDPDMHGVDWDAVRAEYRPLLPRAATRAELADVLNEMLGELNDSHTGVSGL-R----------- 69 (266)
T ss_pred HHHHHHHHHHHHHhhccCCCCCCCCHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHcCCccchHHH-H-----------
Confidence 46789999999999999999999999999998875 4467888999999999999999999876430 0
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCe
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAE 302 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~ 302 (529)
..++...
T Consensus 70 -------------------------------------------------------~~~~~~~------------------ 76 (266)
T cd07562 70 -------------------------------------------------------YRDWVES------------------ 76 (266)
T ss_pred -------------------------------------------------------HHHHHHH------------------
Confidence 0000000
Q ss_pred eEEEEEeeeccccccccceeeecCCCCCCCCceEEEEecccccchhHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHH
Q 009668 303 IRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEG 381 (529)
Q Consensus 303 ~~~v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~~~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~ 381 (529)
....+. + ..+++||||+|++|... .+.++++++... .+++||||||+|+||++.
T Consensus 77 -----------~~~~~~-~--------~~~~~igYi~i~~~~~~---~~~~~~~~~~~~~~~~glIiDlR~N~GG~~~-- 131 (266)
T cd07562 77 -----------NREYVE-E--------LSDGRIGYVHIPDMGDD---GFAEFLRDLLAEVDKDGLIIDVRFNGGGNVA-- 131 (266)
T ss_pred -----------HHHHHH-H--------hcCCcEEEEEeCCCChH---HHHHHHHHHHhcCCCceEEEEecCCCCCcHH--
Confidence 000000 0 11259999999999644 355555554432 389999999999999943
Q ss_pred HHHHHhhcCCCcEEEEEcCC-CceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceee
Q 009668 382 IEIAKIWLDKGVIVYICDSR-GVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQ 460 (529)
Q Consensus 382 ~~l~~~f~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~ 460 (529)
..+++.|.+. ...+...+. +... ..+. ..+++||+||||+.|+||||+|+.+||+++++++||++|+|++..+
T Consensus 132 ~~l~~~~~~~-~~~~~~~r~~~~~~---~~p~--~~~~~pv~vL~~~~t~SaaE~~a~~lk~~~~~~vvG~~T~G~~~~~ 205 (266)
T cd07562 132 DLLLDFLSRR-RYGYDIPRGGGKPV---TYPS--GRWRGPVVVLVNEGSASDAEIFAYGFRALGLGPVVGTRTAGGVIIS 205 (266)
T ss_pred HHHHHHhCCC-ceEEEccCCCCCCC---CCcc--cccCCCEEEEECCCCCchHHHHHHHHHHcCCeeEEeeccCCceeec
Confidence 4667777665 334444333 2111 1111 1389999999999999999999999999999999999999999988
Q ss_pred eEEECCCCceEEEEeeEEEcCCCcccCCCCcccceEcCCCCCCChhhHhhhccCccccccccCC
Q 009668 461 SVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLPKTFPKDEDGFCGCLQDSASTCNMNGG 524 (529)
Q Consensus 461 ~~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~~~~~~~~~~l~~~l~d~~~~~~~~~~ 524 (529)
..+.||+|+.+.+|+..+++++|+.+|+.||.|||.|+.+.+ ++ ...+||++++||.-+
T Consensus 206 ~~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gi~PDi~v~~~~~----~~-~~g~D~~L~~Al~~l 264 (266)
T cd07562 206 GRYRLPDGGSLTVPEFGVYLPDGGPLENRGVAPDIEVENTPE----DV-AAGRDPQLEAAIEEL 264 (266)
T ss_pred CceecCCCCEEEeeceeEEcCCCCccccCCCCCCEEecCCHh----Hh-hcCCCHHHHHHHHHH
Confidence 889999999999999999999999999999999999988754 33 358999999887643
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=4e-35 Score=292.41 Aligned_cols=226 Identities=28% Similarity=0.342 Sum_probs=191.6
Q ss_pred HHHHHHHHHHHcCCCCCCCCChHHHHHHHhccC--CCCCHHHHHHHHHHHHHhcCCCCccccChhhhhhhccccCCccee
Q 009668 148 FLEAWRTIDRAYVDKTFNGQSWFRYRENALRNE--PMNTREETYMAIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTG 225 (529)
Q Consensus 148 fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~~--~~~~~~~f~~~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~~~g 225 (529)
|+.+|+++.++|+++..++.+|.++++++.+.. ...+.++++..+..|+..++|+|..+..
T Consensus 2 ~~~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~l~D~H~~~~~----------------- 64 (250)
T cd07563 2 FEALAKLLEENYAFPEAKGIDWDALAARLRAQVYLDITSPEELAAVLTADLQELGDGHLNVSY----------------- 64 (250)
T ss_pred HHHHHHHHHHhCCChHHcccHHHHHHHHHhccccccCCCHHHHHHHHHHhhhccCCCcEEEEE-----------------
Confidence 789999999999999999999999999988654 4677799999999999999999986532
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEE
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRH 305 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~ 305 (529)
T Consensus 65 -------------------------------------------------------------------------------- 64 (250)
T cd07563 65 -------------------------------------------------------------------------------- 64 (250)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEeeeccccccccceeeecCCCCCCCCceEEEEeccccc----chhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHH
Q 009668 306 LALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQ----NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEG 381 (529)
Q Consensus 306 v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~~----~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~ 381 (529)
||||+|++|.. ...+.++++++++++ .++||||||+|+||+...+
T Consensus 65 -----------------------------IgYl~i~~f~~~~~~~~~~~~~~~~~~l~~--~~~LIIDLR~N~GG~~~~~ 113 (250)
T cd07563 65 -----------------------------IGYLRIDSFGGFEIAAAEALLDEALDKLAD--TDALIIDLRYNGGGSDSLV 113 (250)
T ss_pred -----------------------------eEEEEEcccCChhhhhhHHHHHHHHHHhcC--CCeEEEEECCCCCCCHHHH
Confidence 58999999986 356778889988874 4999999999999999999
Q ss_pred HHHHHhhcCCCc--EEEEE-cCCCceee----eecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCC
Q 009668 382 IEIAKIWLDKGV--IVYIC-DSRGVRDI----YDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTY 454 (529)
Q Consensus 382 ~~l~~~f~~~~~--~~~~~-~~~~~~~~----~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~ 454 (529)
..++++|++++. ..+.. .+.+.... ....+.....+++||+||||+.|+||||.|+.+||+++++++||++|+
T Consensus 114 ~~l~s~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~T~SaaE~~a~~lk~~~~~~viGe~T~ 193 (250)
T cd07563 114 AYLASYFTDEDKPVHLYTIYKRPGNTTTELWTLPVVPGGRYGYTKPVYVLTSPVTFSAAEEFAYALKQLKRATVVGETTA 193 (250)
T ss_pred HHHHHHcCCCCCcEEEEEEEECCCCCCcccceeeecCCCcccCCCCEEEEeCCCcCcHHHHHHHHHHhCCCcEEEeecCC
Confidence 999999996543 22222 22222111 111222345689999999999999999999999999999999999999
Q ss_pred CCceeeeEEECCCCceEEEEeeEEEcCC-CcccCCCCcccceEcCCCC
Q 009668 455 GKGKIQSVFQLSDGSGLAVTVARYETPA-HTDIDKVGVIPDHPLPKTF 501 (529)
Q Consensus 455 G~~~~~~~~~L~~G~~l~lt~~~~~~p~-G~~~e~~GV~PDi~V~~~~ 501 (529)
|++..+..+.||+|+.+.+|+.++++|+ |..+|+.||.|||+|+.+.
T Consensus 194 G~~~~~~~~~Lp~g~~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~ 241 (250)
T cd07563 194 GGASPVLPFPLPNGLYLTVPTSRSVDPITGTNWEGVGVPPDIEVPATP 241 (250)
T ss_pred CCCCCceEEEcCCCeEEEEecceeEeCCCCCcccccCcCCCeeecCCC
Confidence 9999889999999999999999999998 9999999999999999877
No 8
>smart00245 TSPc tail specific protease. tail specific protease
Probab=100.00 E-value=5e-35 Score=280.48 Aligned_cols=189 Identities=44% Similarity=0.724 Sum_probs=164.8
Q ss_pred eEEEEEeeeccccccccceeeecCCCCCCCCceEEEEecccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHH
Q 009668 303 IRHLALTREKVSLNPVKSRLCVVPGPGKSSPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGI 382 (529)
Q Consensus 303 ~~~v~l~r~~~~~~~v~~~~~~~~~~~~~~~~igYl~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~ 382 (529)
..++.|+|..+..+++.+.+... ..++||||+|++|...+.++++++++++++.++++||||||+|+||.+..+.
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 45677888888888887765441 2369999999999988889999999999988999999999999999999999
Q ss_pred HHHHhhcCCCcEEEEEcCC-CceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeee
Q 009668 383 EIAKIWLDKGVIVYICDSR-GVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQS 461 (529)
Q Consensus 383 ~l~~~f~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~ 461 (529)
.++++|++++..++...++ +....+.... ...+.+|++||||+.|+||||+||.+||+++++++||++|+|++..+.
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 9999999998776665544 4433343322 235689999999999999999999999999999999999999999999
Q ss_pred EEECCCCceEEEEeeEEEcCCCcccCCCCcccceEcC
Q 009668 462 VFQLSDGSGLAVTVARYETPAHTDIDKVGVIPDHPLP 498 (529)
Q Consensus 462 ~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PDi~V~ 498 (529)
.+.|++|+.+++|+.++++|+|+.+|+.||+|||+||
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=4.7e-33 Score=270.40 Aligned_cols=162 Identities=49% Similarity=0.802 Sum_probs=148.0
Q ss_pred eEEEEecccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCc
Q 009668 335 IGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDA 414 (529)
Q Consensus 335 igYl~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 414 (529)
||||+|++|.....+++.++|.+++++++++||||||+|+||++..+..++++|++++.+++.+.+.+..+.+.... .
T Consensus 50 igYi~i~sf~~~~~~~~~~~l~~~~~~~~~~lIlDLR~N~GG~~~~~~~i~~~f~~~~~~~~~~~~~g~~~~~~~~~--~ 127 (211)
T cd07560 50 IGYIRITSFSENTAEELKKALKELKKQGMKGLILDLRNNPGGLLDEAVEIADLFLPGGPIVSTKGRNGKREAYASDD--G 127 (211)
T ss_pred eEEEEEcccCchhHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCeEEEEEecCCceEEEecCC--C
Confidence 68999999998888899999999998889999999999999999999999999999888777776666555544332 2
Q ss_pred ccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEECCCCceEEEEeeEEEcCCCcccCCCCcccc
Q 009668 415 LAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDIDKVGVIPD 494 (529)
Q Consensus 415 ~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~L~~G~~l~lt~~~~~~p~G~~~e~~GV~PD 494 (529)
..+.+|++||||+.|+||||+||.+||.++++++||++|+|++..+..++||+|+.+++++.++++|+|..+|+.||+||
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 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEcC
Q 009668 495 HPLP 498 (529)
Q Consensus 495 i~V~ 498 (529)
|+||
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=99.98 E-value=1.7e-31 Score=266.40 Aligned_cols=170 Identities=24% Similarity=0.320 Sum_probs=144.8
Q ss_pred CCceEEEEecccccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCC---CcEE-EEEcCCCc----
Q 009668 332 SPRIGYIKLTSFNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDK---GVIV-YICDSRGV---- 403 (529)
Q Consensus 332 ~~~igYl~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~---~~~~-~~~~~~~~---- 403 (529)
+++||||+|++|..++.+++++++++++++++++||||||+|+||.+..+..++++|+++ +.++ ....+.+.
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 469999999999998889999999999999999999999999999999999999999994 4444 33333221
Q ss_pred -eeeeecCC--CCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEECC--CCceEEEEeeEE
Q 009668 404 -RDIYDTDG--TDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLS--DGSGLAVTVARY 478 (529)
Q Consensus 404 -~~~~~~~~--~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~L~--~G~~l~lt~~~~ 478 (529)
...+.... .......+||+||||+.||||||+|+.+||+++++++||++|+|++.++..+.++ +|+.+++++.++
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 12232211 0122356899999999999999999999999999999999999999999999998 889999999999
Q ss_pred EcCCCcccCCCCcccceEcCCCC
Q 009668 479 ETPAHTDIDKVGVIPDHPLPKTF 501 (529)
Q Consensus 479 ~~p~G~~~e~~GV~PDi~V~~~~ 501 (529)
++|+|+.+++.||+|||+|+.+.
T Consensus 223 ~~~~G~~~~~~Gi~PDi~v~~~~ 245 (256)
T cd07561 223 VNADGQGDYSNGLTPDIEVNEDS 245 (256)
T ss_pred ECCCCCCccCCCcCCceEeCccc
Confidence 99999999999999999997653
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=99.97 E-value=2.9e-30 Score=241.07 Aligned_cols=162 Identities=37% Similarity=0.581 Sum_probs=126.7
Q ss_pred ceEEEEeccccc--chhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCcee-----e
Q 009668 334 RIGYIKLTSFNQ--NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRD-----I 406 (529)
Q Consensus 334 ~igYl~i~sF~~--~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~-----~ 406 (529)
+||||+|++|.. ...+.+++.+++++++++++||||||+|+||+...+..++++|.+++...+......... .
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 577899999999998899999999999999999999999999999877654432211111 1
Q ss_pred eecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEECCCCceEEEEeeEEEcCCCccc
Q 009668 407 YDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLSDGSGLAVTVARYETPAHTDI 486 (529)
Q Consensus 407 ~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~L~~G~~l~lt~~~~~~p~G~~~ 486 (529)
.... ....+.+|++||||+.|+||||.|+.++|+++++++||++|+|.+..+..+.|++|..+.+|+.+++.++|..+
T Consensus 81 ~~~~--~~~~~~~~v~vL~~~~t~Saae~fa~~lk~~~~~~ivGe~T~G~~~~~~~~~l~~g~~~~i~~~~~~~~~g~~~ 158 (169)
T PF03572_consen 81 KWST--PKNRFNGPVYVLTDENTASAAEIFASALKDNKRATIVGEPTAGAGGGQTGFSLPSGSILSIPTSRYYNPDGQKI 158 (169)
T ss_dssp EECS--STT-SSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES--SB-EEEEEEEE-TTSEEEEEEEEEEEETTSBBT
T ss_pred CCcc--ccccCCCCEEEEeCCCCCChhHHHHHHHHhcCCCeEEeecCCCCCEEeeEEEECCCcEEEeEeEEEEeCCCCEE
Confidence 0000 13568999999999999999999999999999999999999999998889999999999999999999999999
Q ss_pred CCCCcccceEc
Q 009668 487 DKVGVIPDHPL 497 (529)
Q Consensus 487 e~~GV~PDi~V 497 (529)
|+.||.|||+|
T Consensus 159 ~~~Gi~PDi~V 169 (169)
T PF03572_consen 159 EGIGIEPDIEV 169 (169)
T ss_dssp TTTS---SEE-
T ss_pred cCCcEEccEEC
Confidence 99999999987
No 12
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=99.66 E-value=5.1e-16 Score=163.03 Aligned_cols=170 Identities=15% Similarity=0.116 Sum_probs=133.4
Q ss_pred chhHhHHHHHHHHHHHHhhhhccccCCccccchhHHHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhccCCCCCHHHHHH
Q 009668 111 CVSVLFVQLVFTAMLVTSTTIALSETPSLALSEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRNEPMNTREETYM 190 (529)
Q Consensus 111 ~iSyy~~G~l~g~ll~l~i~~~~~~~~~~~~s~~~~~fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~~~~~~~~~f~~ 190 (529)
-+|||.+|++++++||+.|+.. .+++++||+||+.||+.+.. ..++++.+.++..+..+++.+....|..
T Consensus 353 ~~sYY~kG~lv~L~lDl~iR~r---------~~~~~SLDdvmram~~~~~~-~~~~~t~e~v~av~~~~tg~dl~~f~~~ 422 (558)
T COG3975 353 LVSYYQKGALVALLLDLLIRER---------GGGQKSLDDVMRALWKEFGR-AERGYTPEDVQAVLENVTGLDLATFFDE 422 (558)
T ss_pred chhhhhchhHHHHHHHHHHHhc---------CCCcccHHHHHHHHHHHhCc-CccCCCHHHHHHHHHhhccccHHHHHHH
Confidence 6899999999999999999988 78899999999999999866 5689999999999998888776555544
Q ss_pred HHHHHHHhcCCCCccccChhhhhhhccccCCcceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECC
Q 009668 191 AIRKMLATLDDPFTRFLEPEKFNSLRSGTQGALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDD 270 (529)
Q Consensus 191 ~i~~~l~~L~Dpht~~l~~~~~~~~~~~~~~~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG 270 (529)
.+.+ .+.+ +...++.+.++... ....+...+|+.+... ++..+|+.|.++|||++|||.+||.|++|||
T Consensus 423 ~i~~-~~~~--~l~~~l~~~gL~~~--~~~~~~~~LGl~v~~~------~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G 491 (558)
T COG3975 423 YIEG-TEPP--PLNPLLERFGLTFT--PKPREAYYLGLKVKSE------GGHEKITFVFPGGPAYKAGLSPGDKIVAING 491 (558)
T ss_pred Hhhc-CCCC--ChhhhhhhcceEEE--ecCCCCcccceEeccc------CCeeEEEecCCCChhHhccCCCccEEEEEcC
Confidence 4443 4555 55566655444322 2223345688888765 6778999999999999999999999999999
Q ss_pred EecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEee
Q 009668 271 TSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTR 310 (529)
Q Consensus 271 ~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r 310 (529)
.+- ++.+.+.++.+++++.|.|..+++.++.
T Consensus 492 ~s~---------~l~~~~~~d~i~v~~~~~~~L~e~~v~~ 522 (558)
T COG3975 492 ISD---------QLDRYKVNDKIQVHVFREGRLREFLVKL 522 (558)
T ss_pred ccc---------cccccccccceEEEEccCCceEEeeccc
Confidence 921 1223458899999999999999887753
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=99.31 E-value=1.1e-11 Score=102.40 Aligned_cols=79 Identities=37% Similarity=0.618 Sum_probs=65.2
Q ss_pred eeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHh-cCCCCCcEEEEEeeCCee
Q 009668 225 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL-QGPEGSPVELTVRSGAEI 303 (529)
Q Consensus 225 glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l-~g~~G~~v~ltv~r~g~~ 303 (529)
++|+.+..... .++++|.+|.++|||+++||++||+|++|||+++.+. .++...+ +..+|+++++++.|+++.
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 46777765421 3489999999999999999999999999999999766 6666665 678999999999999999
Q ss_pred EEEEEe
Q 009668 304 RHLALT 309 (529)
Q Consensus 304 ~~v~l~ 309 (529)
++++++
T Consensus 76 ~~~~v~ 81 (82)
T PF13180_consen 76 LTVEVT 81 (82)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 988875
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=99.19 E-value=2.3e-10 Score=94.58 Aligned_cols=82 Identities=41% Similarity=0.785 Sum_probs=70.6
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeC-C
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG-A 301 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~-g 301 (529)
+.++|+.+... .++++|..|.++|||+++||++||+|++|||+++.+++..++...+....|+.+.+++.|+ +
T Consensus 1 ~~~lG~~~~~~------~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~~~ 74 (85)
T cd00988 1 FGGIGLELKYD------DGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGDG 74 (85)
T ss_pred CeEEEEEEEEc------CCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcCCC
Confidence 35788888654 4678999999999999999999999999999999998767787788777788999999998 8
Q ss_pred eeEEEEEee
Q 009668 302 EIRHLALTR 310 (529)
Q Consensus 302 ~~~~v~l~r 310 (529)
+.+++++++
T Consensus 75 ~~~~~~~~~ 83 (85)
T cd00988 75 EPREVTLTR 83 (85)
T ss_pred CEEEEEEEE
Confidence 888888765
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=98.94 E-value=5.4e-09 Score=85.63 Aligned_cols=68 Identities=29% Similarity=0.418 Sum_probs=59.2
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCC-CCCcEEEEEeeCCeeEEEEEe
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLALT 309 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~-~G~~v~ltv~r~g~~~~v~l~ 309 (529)
.++++|..|.++|||+++||++||+|++|||+++.++ .++...+... +|+++.+++.|+++..+++++
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 4578999999999999999999999999999999976 6676666643 588999999999998888776
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=98.92 E-value=5.7e-09 Score=84.84 Aligned_cols=76 Identities=37% Similarity=0.552 Sum_probs=61.6
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEE
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRH 305 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~ 305 (529)
+|+..+.. ...++|..|.++|||+++||++||+|++|||+++.++ .++...+....++.+.+++.|+++..+
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 56666544 2357899999999999999999999999999999976 566666655557889999999988777
Q ss_pred EEEe
Q 009668 306 LALT 309 (529)
Q Consensus 306 v~l~ 309 (529)
+.++
T Consensus 75 ~~l~ 78 (79)
T cd00989 75 LTLT 78 (79)
T ss_pred EEec
Confidence 7654
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=98.89 E-value=6.9e-09 Score=82.37 Aligned_cols=68 Identities=47% Similarity=0.715 Sum_probs=58.2
Q ss_pred eeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEE
Q 009668 225 GVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 297 (529)
Q Consensus 225 glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv 297 (529)
++|+.+.... +.+++|..|.++|||+++||++||+|++|||.++.+++..++.+.++...|++++|++
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 4677776431 1379999999999999999999999999999999999888888899887788888876
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=98.87 E-value=1.1e-08 Score=83.57 Aligned_cols=67 Identities=27% Similarity=0.398 Sum_probs=55.6
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEee
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTR 310 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r 310 (529)
+++++|..|.++|||+++||++||+|++|||+++.++ .+++..+ ..++.+.+++.|+++..+++++.
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 4579999999999999999999999999999999763 3443333 36789999999999888877754
No 19
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.79 E-value=2.8e-09 Score=85.41 Aligned_cols=66 Identities=27% Similarity=0.475 Sum_probs=52.5
Q ss_pred chhHHHHHHHHHHHHHHcCCCCCCCCChHHHHHHHhcc-CCCCCHHHHHHHHHHHHHhcCCCCcccc
Q 009668 142 SEENRLFLEAWRTIDRAYVDKTFNGQSWFRYRENALRN-EPMNTREETYMAIRKMLATLDDPFTRFL 207 (529)
Q Consensus 142 s~~~~~fd~v~~~l~~~Y~~~~~~g~~w~~~~~~~~~~-~~~~~~~~f~~~i~~~l~~L~Dpht~~l 207 (529)
.+.+++|+++|++++++|++++++|+||+++++.+... ..+.++.+++..+..|+++|+|+|+.+.
T Consensus 2 ~E~~~~F~~~W~~~~~~f~d~~~~gvDW~~~~~~Y~p~v~~~~~~~el~~vl~eMl~eL~~~H~~~~ 68 (70)
T PF14684_consen 2 AEWRQMFDEAWRLVRENFYDPDMHGVDWDAVYDRYRPLVPAAKTRDELYDVLNEMLGELNDSHTYVY 68 (70)
T ss_dssp HHHHHHHHHHHHHHHHHSS-HHHHHHHHHHHHHHHHGGGGG--SHHHHHHHHHHHHHTT--S---EE
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCChHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHCCCccCcc
Confidence 36788999999999999999999999999999998764 4577889999999999999999999875
No 20
>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=98.79 E-value=3.8e-08 Score=80.40 Aligned_cols=69 Identities=26% Similarity=0.354 Sum_probs=58.1
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEEEeeec
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTREK 312 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~l~r~~ 312 (529)
.+++|..|.++|||+. ||++||+|++|||.++.++ +++...+.. .+|+.+.+++.|+|+..+++++...
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 4688999999999986 8999999999999999876 566666653 5788999999999998888776543
No 21
>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=98.69 E-value=3.5e-08 Score=80.97 Aligned_cols=71 Identities=35% Similarity=0.565 Sum_probs=57.7
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEE
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 297 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv 297 (529)
.++|+.+....... ..+++|.+|.++|||+++||++||+|++|||+++.+++..++...++...+ .++|+|
T Consensus 10 ~~lG~~l~~~~~~~--~~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~~~-~v~L~V 80 (81)
T PF00595_consen 10 GPLGFTLRGGSDND--EKGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSASN-PVTLTV 80 (81)
T ss_dssp SBSSEEEEEESTSS--SEEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHSTS-EEEEEE
T ss_pred CCcCEEEEecCCCC--cCCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCCCC-cEEEEE
Confidence 45788776542100 137899999999999999999999999999999999999999888876554 777776
No 22
>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=98.59 E-value=1.6e-07 Score=78.08 Aligned_cols=65 Identities=37% Similarity=0.550 Sum_probs=53.8
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCC-CCCcEEEEEeeCCeeEEEE
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLA 307 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~-~G~~v~ltv~r~g~~~~v~ 307 (529)
++++|..|.++|||+++||++||+|++|||+++.++ .++...+... .+..+.+++.|+|+..+++
T Consensus 24 ~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~--~~~~~~l~~~~~~~~i~l~v~r~g~~~~~~ 89 (90)
T cd00987 24 KGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSV--ADLRRALAELKPGDKVTLTVLRGGKELTVT 89 (90)
T ss_pred CEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECCEEEEee
Confidence 478999999999999999999999999999999876 4555555433 4789999999998766543
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=98.47 E-value=7.5e-07 Score=72.82 Aligned_cols=74 Identities=39% Similarity=0.611 Sum_probs=56.4
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCC
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 301 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g 301 (529)
..+|+.+..... ...+++|..|.++|||+++||++||+|++|||+++.++...+....+.. .++.+.+++.|++
T Consensus 12 ~~~G~~~~~~~~---~~~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~-~~~~~~l~i~r~~ 85 (85)
T smart00228 12 GGLGFSLVGGKD---EGGGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKK-AGGKVTLTVLRGG 85 (85)
T ss_pred CcccEEEECCCC---CCCCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHh-CCCeEEEEEEeCC
Confidence 356777653210 0157999999999999999999999999999999998876666655554 3568888887753
No 24
>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=98.45 E-value=7.9e-07 Score=72.51 Aligned_cols=70 Identities=37% Similarity=0.568 Sum_probs=53.8
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEE
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 297 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv 297 (529)
.++|+.+.... ....+++|..|.++|||+++||++||+|++|||.++.+++..++...++...+ .+++++
T Consensus 12 ~~~G~~~~~~~---~~~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 12 GGLGFSLRGGK---DSGGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCcCEEEeCcc---cCCCCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 34677665321 00246899999999999999999999999999999998777888888875443 666654
No 25
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.41 E-value=1.5e-06 Score=72.63 Aligned_cols=75 Identities=28% Similarity=0.484 Sum_probs=53.6
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCC--------CcccCCCC--CCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEE
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPG--------GPANRAGI--LSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVEL 295 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~g--------sPA~~aGL--~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~l 295 (529)
+|..+.+. ++++.|..+++| ||-.+.|+ ++||.|++|||+++..- .+...+|.++.|+++.|
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 67777766 578999999987 77777775 69999999999999875 45677889999999999
Q ss_pred EEeeCC-eeEEEEE
Q 009668 296 TVRSGA-EIRHLAL 308 (529)
Q Consensus 296 tv~r~g-~~~~v~l 308 (529)
+|.+.+ +.+++.|
T Consensus 75 tv~~~~~~~R~v~V 88 (88)
T PF14685_consen 75 TVNRKPGGARTVVV 88 (88)
T ss_dssp EEE-STT-EEEEEE
T ss_pred EEecCCCCceEEEC
Confidence 998765 5666543
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=98.33 E-value=1.2e-06 Score=94.02 Aligned_cols=68 Identities=26% Similarity=0.419 Sum_probs=61.0
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
+++|.+|.++|||+++||++||+|++|||+++.++ +++...+...+++++.+++.|+|+..++++++.
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 57899999999999999999999999999999987 677777776778899999999999988888764
No 27
>PRK10139 serine endoprotease; Provisional
Probab=98.32 E-value=1.6e-06 Score=93.85 Aligned_cols=69 Identities=20% Similarity=0.375 Sum_probs=60.2
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEEEee
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTR 310 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~l~r 310 (529)
..+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. .+|+++.+++.|+|+..+++++.
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 3578999999999999999999999999999999987 666666654 67889999999999988888874
No 28
>PRK10898 serine endoprotease; Provisional
Probab=98.29 E-value=2.4e-06 Score=89.70 Aligned_cols=69 Identities=26% Similarity=0.452 Sum_probs=58.7
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEEEeee
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. .+|+++.+++.|+++..+++++..
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 588999999999999999999999999999999876 454444433 688999999999999888877653
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=98.29 E-value=1.9e-06 Score=90.49 Aligned_cols=69 Identities=35% Similarity=0.480 Sum_probs=59.4
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEEEeee
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. .+|+++.+++.|+|+.++++++..
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 478999999999999999999999999999999986 566555543 678899999999999888887643
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=98.28 E-value=2.1e-06 Score=86.08 Aligned_cols=67 Identities=18% Similarity=0.232 Sum_probs=57.0
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEEEe
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLALT 309 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~l~ 309 (529)
.++.|..+.+++||+++||++||+|++|||+++.++ .++.+.+.. .+++.++++|.|+|+..++.+.
T Consensus 191 ~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~--~~~~~~l~~~~~~~~v~l~V~R~G~~~~i~v~ 258 (259)
T TIGR01713 191 EGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP--EQAFQALQMLREETNLTLTVERDGQREDIYVR 258 (259)
T ss_pred eEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCeEEEEEEECCEEEEEEEE
Confidence 478999999999999999999999999999999987 555555543 4678999999999998877663
No 31
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.27 E-value=2.1e-06 Score=93.05 Aligned_cols=68 Identities=22% Similarity=0.359 Sum_probs=60.2
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
+.+|..|.++|||+++||++||+|++|||+++.++ +++.+.+...+|+.+.+++.|+|+..++++++.
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 47899999999999999999999999999999887 677677766678899999999999888888764
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=98.23 E-value=3.4e-06 Score=90.84 Aligned_cols=69 Identities=28% Similarity=0.475 Sum_probs=58.6
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhc-CCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ-GPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~-g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+. ..+|+++++++.|+++..+++++..
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 578999999999999999999999999999999876 45554443 3578999999999999888877643
No 33
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.15 E-value=2.5e-06 Score=92.42 Aligned_cols=66 Identities=21% Similarity=0.102 Sum_probs=54.5
Q ss_pred EEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHh-cCCCCCcEEEEEeeCCeeEEEEEee
Q 009668 243 LVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL-QGPEGSPVELTVRSGAEIRHLALTR 310 (529)
Q Consensus 243 ~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l-~g~~G~~v~ltv~r~g~~~~v~l~r 310 (529)
.+|..|.++|||++|||++||+|++|||+++.++ +++...+ ...+|+++++++.|+|+.++.+++-
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~--~~l~~~v~~~~~g~~v~v~v~R~gk~~~~~v~l 194 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDW--DAVRLALVSKIGDESTTITVAPFGSDQRRDKTL 194 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhccCCceEEEEEeCCccceEEEEe
Confidence 4789999999999999999999999999999987 4543333 3456789999999999877766653
No 34
>PRK10942 serine endoprotease; Provisional
Probab=98.14 E-value=6.6e-06 Score=89.63 Aligned_cols=69 Identities=23% Similarity=0.357 Sum_probs=58.7
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhc-CCCCCcEEEEEeeCCeeEEEEEee
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ-GPEGSPVELTVRSGAEIRHLALTR 310 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~-g~~G~~v~ltv~r~g~~~~v~l~r 310 (529)
..+++|..|.++|||+++||++||+|++|||+++.++ .++...+. ..+|+++++++.|+|+.++++++.
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 3578999999999999999999999999999999987 55555443 357889999999999988887764
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=98.02 E-value=2.1e-05 Score=82.96 Aligned_cols=59 Identities=29% Similarity=0.440 Sum_probs=51.6
Q ss_pred CCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 251 GGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 251 gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
+|||+++||++||+|++|||+++.++ +++.+.+....++.+.+++.|+++..++++++.
T Consensus 123 ~SPAa~AGLq~GDiIvsING~~V~s~--~DL~~iL~~~~g~~V~LtV~R~Ge~~tv~V~Pv 181 (402)
T TIGR02860 123 HSPGEEAGIQIGDRILKINGEKIKNM--DDLANLINKAGGEKLTLTIERGGKIIETVIKPV 181 (402)
T ss_pred CCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCeEEEEEEECCEEEEEEEEEe
Confidence 58999999999999999999999987 677777766668899999999999888888743
No 36
>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=97.98 E-value=1.5e-05 Score=85.90 Aligned_cols=65 Identities=31% Similarity=0.531 Sum_probs=56.1
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEeeCCeeEEEE
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRSGAEIRHLA 307 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r~g~~~~v~ 307 (529)
.+++|..|.++|||+++||++||+|++|||+++.++ .++.+.+.. +.|+.+++++.|+++...+.
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 579999999999999999999999999999999876 667666654 36889999999999876553
No 37
>PRK10139 serine endoprotease; Provisional
Probab=97.96 E-value=1.8e-05 Score=85.77 Aligned_cols=65 Identities=25% Similarity=0.409 Sum_probs=55.7
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEE
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLAL 308 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l 308 (529)
.+++|..|.++|||+++||++||+|++|||+++.++ +++.+.+...+ +.+.+++.|+|+...+.+
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 468899999999999999999999999999999987 67777776543 689999999998766654
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=97.95 E-value=2.1e-05 Score=71.37 Aligned_cols=86 Identities=24% Similarity=0.394 Sum_probs=57.9
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCC-CCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEee--C
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILS-GDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS--G 300 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~-GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r--~ 300 (529)
.-+|+.+.+..........+.|..|.|+|||++|||++ .|.|+.+|+..+.+. +++.+.+....+..+.|.|.. .
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 GLLGISVRFESFEGAEEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDE--DDLFELVEANENKPLQLYVYNSKT 103 (138)
T ss_dssp SSS-EEEEEEE-TTGCCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--ST--CHHHHHHHHTTTS-EEEEEEETTT
T ss_pred CCCcEEEEEecccccccceEEEeEecCCCHHHHCCccccccEEEEccceecCCH--HHHHHHHHHcCCCcEEEEEEECCC
Confidence 34677766654332334578899999999999999998 699999999888865 677777777788999999964 4
Q ss_pred CeeEEEEEeee
Q 009668 301 AEIRHLALTRE 311 (529)
Q Consensus 301 g~~~~v~l~r~ 311 (529)
+..+++++++.
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 56777877653
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=97.89 E-value=1.9e-05 Score=83.70 Aligned_cols=62 Identities=19% Similarity=0.393 Sum_probs=51.4
Q ss_pred EEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe-eCCeeEEEEEeee
Q 009668 245 VISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR-SGAEIRHLALTRE 311 (529)
Q Consensus 245 V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~-r~g~~~~v~l~r~ 311 (529)
|..|.++|||+++||++||+|++|||+++.+| .++...+. ++.+++++. |+|+..++++.+.
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 56789999999999999999999999999987 55544443 467899996 7888888888764
No 40
>PRK10942 serine endoprotease; Provisional
Probab=97.85 E-value=3.7e-05 Score=83.78 Aligned_cols=65 Identities=26% Similarity=0.448 Sum_probs=55.6
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEE
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLAL 308 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l 308 (529)
.+++|.+|.++|||+++||++||+|++|||+++.++ +++.+.+... +..+.|+|.|+|....+.+
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 368999999999999999999999999999999987 6777777653 4789999999998766544
No 41
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=0.00012 Score=69.65 Aligned_cols=72 Identities=32% Similarity=0.369 Sum_probs=58.2
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCC-HHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEeeecc
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMG-IYDAAERLQGPEGSPVELTVRSGAEIRHLALTREKV 313 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~-~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r~~~ 313 (529)
-++|.+|.++|||++|||+.||+|+++....-.+.. +.++....+...+..+.+++.|.|+...+.|++..+
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 212 (231)
T KOG3129|consen 140 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQKVVLSLTPKKW 212 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCCCEEEEEeCcccc
Confidence 357899999999999999999999999877665542 444444555567889999999999999998887654
No 42
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.66 E-value=7.5e-05 Score=81.58 Aligned_cols=74 Identities=26% Similarity=0.347 Sum_probs=59.8
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCC
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 301 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g 301 (529)
.-|+||.+-.... ....-|..+++||||++.| |++||.|++|||++|.+++..+++++++ .+|-+|+|+|...+
T Consensus 764 NeGFGFVi~sS~~----kp~sgiGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIK-daGlsVtLtIip~e 838 (984)
T KOG3209|consen 764 NEGFGFVIMSSQN----KPESGIGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIK-DAGLSVTLTIIPPE 838 (984)
T ss_pred CCceeEEEEeccc----CCCCCccccccCChhHhhccccccceEEEecCeeeeccCchhHHHHHH-hcCceEEEEEcChh
Confidence 4678887643321 1122388999999999998 9999999999999999999999999997 57899999997543
No 43
>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=97.59 E-value=6.9e-05 Score=80.57 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=51.7
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEE
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLAL 308 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l 308 (529)
+.+|..|.++|||++|||++||+|++|||+++.++ .++...+.... .++.+++.|+++..++++
T Consensus 129 g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~--~dl~~~ia~~~-~~v~~~I~r~g~~~~l~v 192 (420)
T TIGR00054 129 GPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGF--KDVRQQIADIA-GEPMVEILAERENWTFEV 192 (420)
T ss_pred CceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhc-ccceEEEEEecCceEecc
Confidence 56899999999999999999999999999999987 56555554444 688899988777655443
No 44
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=0.00032 Score=73.49 Aligned_cols=69 Identities=36% Similarity=0.595 Sum_probs=58.2
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHh-cCCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL-QGPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l-~g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
.+++|..|.++|||+++|+++||+|+++||+++.+. .++...+ ...+|+++.+++.|+|+.++++++..
T Consensus 270 ~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~--~~l~~~v~~~~~g~~v~~~~~r~g~~~~~~v~l~ 339 (347)
T COG0265 270 AGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASL--SDLVAAVASNRPGDEVALKLLRGGKERELAVTLG 339 (347)
T ss_pred CceEEEecCCCChHHHcCCCCCCEEEEECCEEccCH--HHHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Confidence 458999999999999999999999999999999876 4444433 33479999999999999988887654
No 45
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.49 E-value=9.7e-05 Score=61.97 Aligned_cols=47 Identities=26% Similarity=0.336 Sum_probs=42.2
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhc
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQ 286 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~ 286 (529)
+.+++|+.|.+||||+.|||+.+|.|+.|||...+-.+.+++++.++
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 45899999999999999999999999999999988877777777765
No 46
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=97.46 E-value=0.00036 Score=62.86 Aligned_cols=71 Identities=30% Similarity=0.488 Sum_probs=55.0
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCC-CCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRA-GILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 298 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~a-GL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~ 298 (529)
-|+||.+... ++.+..++|..++||+-|++- ||++||.+++|||.++++...+.++.+++...| ++++.|+
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 4678876422 122457899999999999986 699999999999999999887888888875444 6666654
No 47
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=97.25 E-value=0.0011 Score=66.98 Aligned_cols=76 Identities=21% Similarity=0.360 Sum_probs=60.4
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEEee-CC
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTVRS-GA 301 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv~r-~g 301 (529)
++....+.+ .+++|..|..+||+... |++||.|++|||+++.+. ++++.++.. ++|++|+|+++| ++
T Consensus 121 a~~pv~~~y--------~gvyv~~v~~~~~~~gk-l~~gD~i~avdg~~f~s~--~e~i~~v~~~k~Gd~VtI~~~r~~~ 189 (342)
T COG3480 121 AGKPVEVTY--------AGVYVLSVIDNSPFKGK-LEAGDTIIAVDGEPFTSS--DELIDYVSSKKPGDEVTIDYERHNE 189 (342)
T ss_pred cCCceEEEE--------eeEEEEEccCCcchhce-eccCCeEEeeCCeecCCH--HHHHHHHhccCCCCeEEEEEEeccC
Confidence 445555554 38899999999999755 999999999999999876 777777764 689999999996 67
Q ss_pred eeEEEEEee
Q 009668 302 EIRHLALTR 310 (529)
Q Consensus 302 ~~~~v~l~r 310 (529)
++..++++-
T Consensus 190 ~~~~~~~tl 198 (342)
T COG3480 190 TPEIVTITL 198 (342)
T ss_pred CCceEEEEE
Confidence 776666653
No 48
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=96.91 E-value=0.0023 Score=70.36 Aligned_cols=74 Identities=30% Similarity=0.356 Sum_probs=58.1
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCC
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 301 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g 301 (529)
..|+||.++--.. .+-.++|....+++||.+.| +++||.|+.|||++..++...+++++++ .|....+++.|+|
T Consensus 908 ~kGFGFSiRGGre---ynM~LfVLRlAeDGPA~rdGrm~VGDqi~eINGesTkgmtH~rAIelIk--~gg~~vll~Lr~g 982 (984)
T KOG3209|consen 908 AKGFGFSIRGGRE---YNMDLFVLRLAEDGPAIRDGRMRVGDQITEINGESTKGMTHDRAIELIK--QGGRRVLLLLRRG 982 (984)
T ss_pred ccccceEeecccc---cccceEEEEeccCCCccccCceeecceEEEecCcccCCCcHHHHHHHHH--hCCeEEEEEeccC
Confidence 3578888753211 13468999999999999998 9999999999999999999999999987 4555555555443
No 49
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=96.89 E-value=0.0049 Score=62.15 Aligned_cols=53 Identities=15% Similarity=0.309 Sum_probs=41.6
Q ss_pred cCCCCCCCCEEEEECCEecCCCC-HHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEe
Q 009668 255 NRAGILSGDVILAIDDTSTESMG-IYDAAERLQGPEGSPVELTVRSGAEIRHLALT 309 (529)
Q Consensus 255 ~~aGL~~GD~IlaInG~~v~~~~-~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~ 309 (529)
.++||++||++++|||.++.+.. ..++++.++ ..+.++|+|+|+|+..++.+.
T Consensus 221 ~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~--~~tei~ltVeRdGq~~~i~i~ 274 (276)
T PRK09681 221 DASGFKEGDIAIALNQQDFTDPRAMIALMRQLP--SMDSIQLTVLRKGARHDISIA 274 (276)
T ss_pred HHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhc--cCCeEEEEEEECCEEEEEEEE
Confidence 46899999999999999998762 123444454 678999999999998887653
No 50
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=96.69 E-value=0.0041 Score=68.26 Aligned_cols=68 Identities=29% Similarity=0.490 Sum_probs=57.0
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCeeEEEEEeee
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
+-++|..|.++|||++. |++||++++||+.-+.++ .++-+.+....|+.++|+|.|+|++.+++++-.
T Consensus 303 gmLvV~~vL~~gpa~k~-Le~GDillavN~t~l~df--~~l~~iLDegvgk~l~LtI~Rggqelel~vtvq 370 (955)
T KOG1421|consen 303 GMLVVETVLPEGPAEKK-LEPGDILLAVNSTCLNDF--EALEQILDEGVGKNLELTIQRGGQELELTVTVQ 370 (955)
T ss_pred eeEEEEEeccCCchhhc-cCCCcEEEEEcceehHHH--HHHHHHHhhccCceEEEEEEeCCEEEEEEEEec
Confidence 45778999999999988 999999999998777654 455566666689999999999999988888754
No 51
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=96.46 E-value=0.0078 Score=60.24 Aligned_cols=56 Identities=23% Similarity=0.332 Sum_probs=46.8
Q ss_pred cEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe
Q 009668 242 GLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 298 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~ 298 (529)
.++|+.|..++||.+.| ++.||+|++|||.++.+-..-++.++++. .-..|++++.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~-~~~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQV-SLNEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHH-hccceEEEeh
Confidence 47899999999999998 99999999999999999876677777763 3347777774
No 52
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=96.30 E-value=0.0059 Score=62.17 Aligned_cols=73 Identities=25% Similarity=0.354 Sum_probs=60.4
Q ss_pred cceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe
Q 009668 222 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 298 (529)
Q Consensus 222 ~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~ 298 (529)
..+|+|+.+.... +.+=.++|..++.+-.|+..| |-+||.|+.|||.-|+....+++++.++ .+|+.|+|||.
T Consensus 64 ~vGGlGLSIKGGa---EHn~PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLR-NAGdeVtlTV~ 137 (505)
T KOG3549|consen 64 KVGGLGLSIKGGA---EHNLPVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILR-NAGDEVTLTVK 137 (505)
T ss_pred ecCcceeeecccc---ccCccEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHH-hcCCEEEEEeH
Confidence 4578898885321 112257788999999999988 7999999999999999999999999998 68999999985
No 53
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=96.26 E-value=0.0059 Score=68.96 Aligned_cols=67 Identities=27% Similarity=0.358 Sum_probs=54.5
Q ss_pred cceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEee
Q 009668 222 ALTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS 299 (529)
Q Consensus 222 ~~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r 299 (529)
...|+||..+ ..++|..|.+|+|+.-. |.+||.|++|||.++.+...+.++.++|. -.+.|.|+|-+
T Consensus 65 ~~lGFgfvag---------rPviVr~VT~GGps~GK-L~PGDQIl~vN~Epv~daprervIdlvRa-ce~sv~ltV~q 131 (1298)
T KOG3552|consen 65 ASLGFGFVAG---------RPVIVRFVTEGGPSIGK-LQPGDQILAVNGEPVKDAPRERVIDLVRA-CESSVNLTVCQ 131 (1298)
T ss_pred ccccceeecC---------CceEEEEecCCCCcccc-ccCCCeEEEecCcccccccHHHHHHHHHH-HhhhcceEEec
Confidence 3456777654 35789999999999744 99999999999999999888888888873 45688888876
No 54
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=96.07 E-value=0.014 Score=66.13 Aligned_cols=77 Identities=30% Similarity=0.435 Sum_probs=58.1
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCC
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGA 301 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g 301 (529)
.|+|+.+---.+.-...=+++|.+|++|++|+..| |++||.+++|||.++-+++-+++..++- ..|..|.+.|...|
T Consensus 943 nGmGLSIVAAkGaGq~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmt-rtg~vV~leVaKqg 1020 (1629)
T KOG1892|consen 943 NGMGLSIVAAKGAGQRKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMT-RTGNVVHLEVAKQG 1020 (1629)
T ss_pred CCceEEEEeeccCCccccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHh-ccCCeEEEehhhhh
Confidence 56777654322111112278999999999999888 9999999999999999998777766664 57888999987543
No 55
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=96.01 E-value=0.011 Score=63.97 Aligned_cols=57 Identities=26% Similarity=0.446 Sum_probs=48.7
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHH-hcCCCCCcEEEEEe
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAER-LQGPEGSPVELTVR 298 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~-l~g~~G~~v~ltv~ 298 (529)
+++|..|..||||++.||+.||.|++||.++..++..++++.. |.-++|+.++|...
T Consensus 430 GIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtilaQ 487 (1027)
T KOG3580|consen 430 GIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILAQ 487 (1027)
T ss_pred eEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehhh
Confidence 6889999999999999999999999999999998877776654 44578888888653
No 56
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=95.93 E-value=0.006 Score=66.72 Aligned_cols=58 Identities=31% Similarity=0.529 Sum_probs=49.7
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEee
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS 299 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r 299 (529)
+.+++|..|.||+.|+++||++||+|++|||+..+.+....+..++++ ...++|++..
T Consensus 561 GfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrn--nthLtltvKt 618 (1283)
T KOG3542|consen 561 GFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRN--NTHLTLTVKT 618 (1283)
T ss_pred cceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcC--CceEEEEEec
Confidence 557999999999999999999999999999999999888888888874 3456666643
No 57
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=95.55 E-value=0.024 Score=62.42 Aligned_cols=65 Identities=25% Similarity=0.335 Sum_probs=48.3
Q ss_pred eeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEE
Q 009668 224 TGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVEL 295 (529)
Q Consensus 224 ~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~l 295 (529)
..+|+.+... .+..+.|-.|.+++||.++.+++||++++|||.||... .++.+.++...|+-..|
T Consensus 386 ~~ig~vf~~~-----~~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~--~q~~~~~~s~~~~~~~l 450 (1051)
T KOG3532|consen 386 SPIGLVFDKN-----TNRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSE--RQATRFLQSTTGDLTVL 450 (1051)
T ss_pred CceeEEEecC-----CceEEEEEEecCCChhhHhcCCCcceEEEecCccchhH--HHHHHHHHhcccceEEE
Confidence 3467766543 12346699999999999999999999999999999876 66666666545544333
No 58
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.42 E-value=0.046 Score=58.95 Aligned_cols=68 Identities=19% Similarity=0.275 Sum_probs=55.4
Q ss_pred cEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCC-CCCcEEEEEeeCCeeEEEEEeee
Q 009668 242 GLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLALTRE 311 (529)
Q Consensus 242 ~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~-~G~~v~ltv~r~g~~~~v~l~r~ 311 (529)
.++|..|.+|+|+...++.+||.|++|||+++.+. .++..+++.. .++++.+...|..+..++.+..+
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 47788999999999999999999999999999987 6666666542 34677777778888778777644
No 59
>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=94.95 E-value=0.12 Score=48.99 Aligned_cols=69 Identities=29% Similarity=0.437 Sum_probs=58.4
Q ss_pred chhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 346 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
.....+.+.|++..+++++.|||++ +.+||.+..+..+...+.. .+.|+++.+
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 3456788899888887899999999 8899999999988887643 237899999
Q ss_pred CCCCCCHHHHHHHHHh
Q 009668 426 NKGTASASEILAGALK 441 (529)
Q Consensus 426 d~~TaSAaE~fa~~lk 441 (529)
++.++|++-.++.+-.
T Consensus 66 ~g~AaSaG~~ia~a~d 81 (178)
T cd07021 66 NDRAASAGALIALAAD 81 (178)
T ss_pred CCchHHHHHHHHHhCC
Confidence 9999999999998765
No 60
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=94.81 E-value=0.058 Score=57.69 Aligned_cols=73 Identities=33% Similarity=0.456 Sum_probs=55.8
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCC--CCcEEEEEee
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPE--GSPVELTVRS 299 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~--G~~v~ltv~r 299 (529)
||+.+..+ .+...+++++|.++.++++-+..| |.+||.|+.||....++++.++++..|+... -..++++|..
T Consensus 263 LGiSivgq-sn~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvAk 338 (626)
T KOG3571|consen 263 LGISIVGQ-SNARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVAK 338 (626)
T ss_pred ceeEeecc-cCcCCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEee
Confidence 55555322 123346789999999999988887 9999999999999999999899888776432 2257888764
No 61
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=94.73 E-value=0.089 Score=57.28 Aligned_cols=79 Identities=22% Similarity=0.393 Sum_probs=55.7
Q ss_pred cceeeeEEEeecCCC---CCCCCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe
Q 009668 222 ALTGVGLSIGYPTAS---DGSSAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 298 (529)
Q Consensus 222 ~~~glG~~~~~~~~~---~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~ 298 (529)
+-.|+|+.+..-.+. ....-.++|..|.+|+||+-. |+.||.|+-|||.+.++....-+++.|+ +.|+...|+|+
T Consensus 18 p~rGFGIAiSGGRDnPhf~~getSiViSDVlpGGPAeG~-LQenDrvvMVNGvsMenv~haFAvQqLr-ksgK~A~Itvk 95 (1027)
T KOG3580|consen 18 PKRGFGIAISGGRDNPHFENGETSIVISDVLPGGPAEGL-LQENDRVVMVNGVSMENVLHAFAVQQLR-KSGKVAAITVK 95 (1027)
T ss_pred CCCcceeEeecCCCCCCccCCceeEEEeeccCCCCcccc-cccCCeEEEEcCcchhhhHHHHHHHHHH-hhccceeEEec
Confidence 335677776432221 111225789999999999854 9999999999999998775555556665 56777888888
Q ss_pred eCCe
Q 009668 299 SGAE 302 (529)
Q Consensus 299 r~g~ 302 (529)
|..+
T Consensus 96 Rprk 99 (1027)
T KOG3580|consen 96 RPRK 99 (1027)
T ss_pred ccce
Confidence 7544
No 62
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=94.69 E-value=0.033 Score=61.07 Aligned_cols=72 Identities=26% Similarity=0.482 Sum_probs=57.6
Q ss_pred EEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCC-CcEEEEEeeCCeeEEEEEeeeccc
Q 009668 243 LVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEG-SPVELTVRSGAEIRHLALTREKVS 314 (529)
Q Consensus 243 ~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G-~~v~ltv~r~g~~~~v~l~r~~~~ 314 (529)
++|.....++||++.| |..||.|++|||.++-++.+..-...+++... +.|+++|.+=--..++.|.|....
T Consensus 675 VViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~cpPV~~V~I~RPd~k 748 (829)
T KOG3605|consen 675 VVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSCPPVTTVLIRRPDLR 748 (829)
T ss_pred HHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecCCCceEEEeecccch
Confidence 4577888999999998 99999999999999999988777777777554 478888877666667777665433
No 63
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=94.62 E-value=0.041 Score=57.00 Aligned_cols=72 Identities=24% Similarity=0.390 Sum_probs=57.1
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEe
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVR 298 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~ 298 (529)
..|+|+.++.-.. ..-.+.|..+.+|-.|++++ |-.||.|++|||..+.+.+.+++++.++ ..|..|.+.|+
T Consensus 95 ~gGLGISIKGGre---NkMPIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLK-raGkeV~levK 167 (506)
T KOG3551|consen 95 AGGLGISIKGGRE---NKMPILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALK-RAGKEVLLEVK 167 (506)
T ss_pred CCcceEEeecCcc---cCCceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHH-hhCceeeeeee
Confidence 4788988864321 12246788999999999987 9999999999999999999999888776 47887777664
No 64
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=94.57 E-value=0.058 Score=52.69 Aligned_cols=58 Identities=21% Similarity=0.249 Sum_probs=43.0
Q ss_pred cCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCC-CCCcEEEEEeeCCeeEEEEE
Q 009668 249 MPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGP-EGSPVELTVRSGAEIRHLAL 308 (529)
Q Consensus 249 ~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~-~G~~v~ltv~r~g~~~~v~l 308 (529)
.+++--+..||++||+.++||+..+++- +++..+++.- .-+.+++|+.|+|+...+.+
T Consensus 215 kd~slF~~sglq~GDIavaiNnldltdp--~~m~~llq~l~~m~s~qlTv~R~G~rhdInV 273 (275)
T COG3031 215 KDGSLFYKSGLQRGDIAVAINNLDLTDP--EDMFRLLQMLRNMPSLQLTVIRRGKRHDINV 273 (275)
T ss_pred CCcchhhhhcCCCcceEEEecCcccCCH--HHHHHHHHhhhcCcceEEEEEecCccceeee
Confidence 3455566789999999999999999875 4444444321 34589999999998877654
No 65
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=93.46 E-value=0.16 Score=55.09 Aligned_cols=87 Identities=22% Similarity=0.373 Sum_probs=63.2
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeC--C-
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSG--A- 301 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~--g- 301 (529)
+|+.++... ...++|..+..|+-+++.| |..||+|.+|||.++.+....++..+++... .++++.+... .
T Consensus 136 lG~Tik~~e-----~~~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~-G~itfkiiP~~~~~ 209 (542)
T KOG0609|consen 136 LGATIRVEE-----DTKVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR-GSITFKIIPSYRPP 209 (542)
T ss_pred cceEEEecc-----CCccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC-CcEEEEEcccccCC
Confidence 566666531 2368999999999999999 7999999999999999988889988888766 4777777533 1
Q ss_pred eeEEEEEeeeccccccc
Q 009668 302 EIRHLALTREKVSLNPV 318 (529)
Q Consensus 302 ~~~~v~l~r~~~~~~~v 318 (529)
...++.-.|+.+...|-
T Consensus 210 ~~~~~~~vra~FdYdP~ 226 (542)
T KOG0609|consen 210 PQQQVVFVRALFDYDPK 226 (542)
T ss_pred CceeeeeehhhcCcCcc
Confidence 11222334555555553
No 66
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=92.75 E-value=0.26 Score=49.01 Aligned_cols=61 Identities=16% Similarity=0.376 Sum_probs=49.6
Q ss_pred CcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEeeCCe
Q 009668 241 AGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRSGAE 302 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r~g~ 302 (529)
-+++|...++|+-|+-.| |.+.|+|++|||..|.+-+++++..++-.. ...+-+||+...+
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN-shNLIiTVkPANQ 255 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN-SHNLIITVKPANQ 255 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc-ccceEEEeccccc
Confidence 378899999999999999 689999999999999999999988877532 3456667765443
No 67
>PF12812 PDZ_1: PDZ-like domain
Probab=92.61 E-value=0.2 Score=40.93 Aligned_cols=43 Identities=21% Similarity=0.242 Sum_probs=35.2
Q ss_pred EEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcC
Q 009668 243 LVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQG 287 (529)
Q Consensus 243 ~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g 287 (529)
.+++....|+++...|+.+|.+|.+|||+++.++ +++.+.++.
T Consensus 32 gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~L--d~f~~vvk~ 74 (78)
T PF12812_consen 32 GVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDL--DDFIKVVKK 74 (78)
T ss_pred EEEEEecCCChhhhCCCCCCeEEEeECCcCCcCH--HHHHHHHHh
Confidence 4666777889998777999999999999999986 676666553
No 68
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=92.37 E-value=0.19 Score=58.70 Aligned_cols=54 Identities=28% Similarity=0.348 Sum_probs=45.0
Q ss_pred EEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEE
Q 009668 243 LVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTV 297 (529)
Q Consensus 243 ~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv 297 (529)
-.|.+|.++|||..+|+++||.|+.|||.++.++...++++++. +.|..+.+++
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll-~~gn~v~~~t 713 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLL-KSGNKVTLRT 713 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHH-hcCCeeEEEe
Confidence 35789999999999999999999999999999999999988775 2445554433
No 69
>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=91.20 E-value=1.4 Score=42.07 Aligned_cols=70 Identities=27% Similarity=0.378 Sum_probs=54.4
Q ss_pred chhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 346 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
.....+.+.+..+.+.+++.++|++ +.+||.+..+..+...+.. .++|++..+
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~vvl~I-nSpGG~v~~~~~i~~~l~~--------------------------~~kPvia~v 65 (187)
T cd07020 13 ATADYLERAIDQAEEGGADALIIEL-DTPGGLLDSTREIVQAILA--------------------------SPVPVVVYV 65 (187)
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------CCCCEEEEE
Confidence 3466788888888877789999866 5678899888887765531 357899999
Q ss_pred C---CCCCCHHHHHHHHHhc
Q 009668 426 N---KGTASASEILAGALKD 442 (529)
Q Consensus 426 d---~~TaSAaE~fa~~lk~ 442 (529)
+ +.++|++-.++.+-..
T Consensus 66 ~~~~G~AasgG~~iala~D~ 85 (187)
T cd07020 66 YPSGARAASAGTYILLAAHI 85 (187)
T ss_pred ecCCCCchhHHHHHHHhCCc
Confidence 8 8999999888877653
No 70
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=90.83 E-value=0.64 Score=49.00 Aligned_cols=58 Identities=29% Similarity=0.347 Sum_probs=45.0
Q ss_pred EEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCCCc---EEEEEee-CCee
Q 009668 244 VVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEGSP---VELTVRS-GAEI 303 (529)
Q Consensus 244 ~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~---v~ltv~r-~g~~ 303 (529)
.+..+..+|+|..+|+++||.|+++|+.++..+ +++.+.+....+.. +.+.+.| ++..
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 344788999999999999999999999999987 55545444445555 7888888 5554
No 71
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.82 E-value=0.59 Score=49.45 Aligned_cols=82 Identities=27% Similarity=0.374 Sum_probs=58.1
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCC-CCCEEEEE-CCEecCCCCHHHHHHHhcCCCCCcEEEEEee--CC
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGIL-SGDVILAI-DDTSTESMGIYDAAERLQGPEGSPVELTVRS--GA 301 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~-~GD~IlaI-nG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r--~g 301 (529)
+|+.+++-...--...-+-|.+|.++|||+.|||. -+|.|+-+ |.+.-+ .+++..++....++.+++.|.. .+
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 66666653221111224669999999999999987 88999988 655433 3677788888889999988863 34
Q ss_pred eeEEEEEee
Q 009668 302 EIRHLALTR 310 (529)
Q Consensus 302 ~~~~v~l~r 310 (529)
..+++++++
T Consensus 171 ~~ReVti~p 179 (462)
T KOG3834|consen 171 SCREVTITP 179 (462)
T ss_pred ccceEEeec
Confidence 567777774
No 72
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=90.29 E-value=0.23 Score=54.79 Aligned_cols=47 Identities=26% Similarity=0.384 Sum_probs=41.9
Q ss_pred EEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCCC
Q 009668 244 VVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPEG 290 (529)
Q Consensus 244 ~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~G 290 (529)
+|-+...|+-|++.|+++|-+|++|||++|-....+.++++|....|
T Consensus 759 iICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVG 805 (829)
T KOG3605|consen 759 IICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVG 805 (829)
T ss_pred EeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhh
Confidence 67888999999999999999999999999998888888888865444
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=86.18 E-value=4.1 Score=38.46 Aligned_cols=70 Identities=19% Similarity=0.214 Sum_probs=55.2
Q ss_pred chhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 346 NASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
.....+++.+++..+.+++.|+|++ +-|||.+..+..+...+.. .+.|+++.+
T Consensus 13 ~~~~~l~~~l~~A~~~~~~~i~l~i-nSPGG~v~~~~~I~~~i~~--------------------------~~~pvv~~v 65 (172)
T cd07015 13 YTYDQFDRYITIAEQDNAEAIIIEL-DTPGGRADAAGNIVQRIQQ--------------------------SKIPVIIYV 65 (172)
T ss_pred hHHHHHHHHHHHHhcCCCCeEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCcCEEEEE
Confidence 4566788888887777899999999 4578888888887766521 257899999
Q ss_pred C---CCCCCHHHHHHHHHhc
Q 009668 426 N---KGTASASEILAGALKD 442 (529)
Q Consensus 426 d---~~TaSAaE~fa~~lk~ 442 (529)
+ +..+|++-+++.+-..
T Consensus 66 ~p~g~~AaSag~~I~~a~~~ 85 (172)
T cd07015 66 YPPGASAASAGTYIALGSHL 85 (172)
T ss_pred ecCCCeehhHHHHHHHhcCc
Confidence 9 8889999998887654
No 74
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=85.86 E-value=1.1 Score=49.53 Aligned_cols=60 Identities=23% Similarity=0.317 Sum_probs=48.0
Q ss_pred ceeeeEEEeecCCCCCCCCcEEEEEecCCCcccCCC-CCCCCEEEEECCEecCCCCHHHHHHHhcC
Q 009668 223 LTGVGLSIGYPTASDGSSAGLVVISSMPGGPANRAG-ILSGDVILAIDDTSTESMGIYDAAERLQG 287 (529)
Q Consensus 223 ~~glG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aG-L~~GD~IlaInG~~v~~~~~~~~~~~l~g 287 (529)
..|+|+.+...- +|..+|+.+.++|||...+ |..||+|+.||++.+.+|.+..++..++.
T Consensus 212 ~eglg~~I~Ssy-----dg~h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwqlk~vV~sL~~ 272 (638)
T KOG1738|consen 212 SEGLGLYIDSSY-----DGPHVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQLKVVVSSLRE 272 (638)
T ss_pred ccCCceEEeeec-----CCceeccccccCChHHHhhcccCccceeeecccccccchhHhHHhhccc
Confidence 346677665432 4567889999999999875 99999999999999999988887777654
No 75
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.59 E-value=1.9 Score=45.71 Aligned_cols=68 Identities=24% Similarity=0.319 Sum_probs=48.0
Q ss_pred CcEEEEEecCCCcccCCCCCC-CCEEEEECCEecCCCCHHHHHHHhcCCCCCcEEEEEee--CCeeEEEEEee
Q 009668 241 AGLVVISSMPGGPANRAGILS-GDVILAIDDTSTESMGIYDAAERLQGPEGSPVELTVRS--GAEIRHLALTR 310 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~-GD~IlaInG~~v~~~~~~~~~~~l~g~~G~~v~ltv~r--~g~~~~v~l~r 310 (529)
.+..|..|.++|||.++||.+ -|-|++|||..+..-+ +.+..+++... +.|++++.. .-+.+.+.|++
T Consensus 15 eg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dn-d~Lk~llk~~s-ekVkltv~n~kt~~~R~v~I~p 85 (462)
T KOG3834|consen 15 EGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDN-DTLKALLKANS-EKVKLTVYNSKTQEVRIVEIVP 85 (462)
T ss_pred eeEEEEEeecCChHHhcCcchhhhhhheeCcccccCch-HHHHHHHHhcc-cceEEEEEecccceeEEEEecc
Confidence 467799999999999999855 5799999999998642 33334444333 349999863 34456666654
No 76
>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=83.29 E-value=4.1 Score=37.43 Aligned_cols=69 Identities=26% Similarity=0.365 Sum_probs=50.9
Q ss_pred chhHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
...+++.+.|+.+.+. .+++|+|++. .+||....+..+...+. .+++|++..
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 3456788888887764 5899999995 56777777766666542 134789999
Q ss_pred ECCCCCCHHHHHHHHHh
Q 009668 425 VNKGTASASEILAGALK 441 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk 441 (529)
+++.++|++=.++.+-.
T Consensus 64 ~~g~~~s~g~~la~~~d 80 (161)
T cd00394 64 VGGQAASAGYYIATAAN 80 (161)
T ss_pred ECChhHHHHHHHHhCCC
Confidence 99999999877766544
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=80.90 E-value=10 Score=36.67 Aligned_cols=70 Identities=21% Similarity=0.293 Sum_probs=50.2
Q ss_pred hhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 347 ASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 347 ~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
...++.+.++++.+ ..++++||++- .+||.+..+..+...+.. ....+|++..+
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~-s~Gg~~~~~~~l~~~i~~------------------------~~~~kpvia~v 68 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRIN-SPGGTVVASEEIYEKLKK------------------------LKAKKPVVASM 68 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEec-CCCCCHHHHHHHHHHHHH------------------------hcCCCCEEEEE
Confidence 35678888888775 57999999984 577777766655554321 01247999999
Q ss_pred CCCCCCHHHHHHHHHh
Q 009668 426 NKGTASASEILAGALK 441 (529)
Q Consensus 426 d~~TaSAaE~fa~~lk 441 (529)
++.++|++=.++.+..
T Consensus 69 ~g~a~s~g~~la~aaD 84 (207)
T TIGR00706 69 GGVAASGGYYIAMAAD 84 (207)
T ss_pred CCccchHHHHHHhcCC
Confidence 9999998887777553
No 78
>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=79.01 E-value=4.9 Score=37.01 Aligned_cols=66 Identities=20% Similarity=0.299 Sum_probs=52.3
Q ss_pred hhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEEC
Q 009668 347 ASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 426 (529)
Q Consensus 347 ~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d 426 (529)
..+.+.+.|..+... +.++|.+ +-+||++..+..+...+.. .++|+++.++
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 567788888877643 8899999 7789999888877776532 2478999999
Q ss_pred CCCCCHHHHHHHHHh
Q 009668 427 KGTASASEILAGALK 441 (529)
Q Consensus 427 ~~TaSAaE~fa~~lk 441 (529)
+.++|++-.++.+-.
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 79
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=76.87 E-value=16 Score=37.88 Aligned_cols=82 Identities=27% Similarity=0.321 Sum_probs=59.6
Q ss_pred hHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEEC
Q 009668 348 SGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 426 (529)
Q Consensus 348 ~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d 426 (529)
.+.+.+.++++.. .+++++||++ +-|||....+..+++.+-.- ..++||+|.++
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~i-nSPGG~v~as~~i~~~l~~l------------------------~~~~PV~v~v~ 136 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRI-NSPGGSVVASELIARALKRL------------------------RAKKPVVVSVG 136 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEE-ECcCCchhHHHHHHHHHHHH------------------------hhcCCEEEEEC
Confidence 4567777777765 4699999988 56899988888887775431 12239999999
Q ss_pred CCCCCHHHHHHHHHhcCCCeEEEccCCCCCcee
Q 009668 427 KGTASASEILAGALKDNKRAVLFGEPTYGKGKI 459 (529)
Q Consensus 427 ~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~ 459 (529)
..+||++=++|.+-. .|+=.++.=.|+.
T Consensus 137 ~~AASGGY~IA~aAd-----~I~a~p~si~GSI 164 (317)
T COG0616 137 GYAASGGYYIALAAD-----KIVADPSSITGSI 164 (317)
T ss_pred CeecchhhhhhccCC-----EEEecCCceeeec
Confidence 999999999888765 3555555555443
No 80
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=76.53 E-value=3.4 Score=43.46 Aligned_cols=44 Identities=27% Similarity=0.352 Sum_probs=36.1
Q ss_pred CCcEEEEEecCCCcccCC-CCCCCCEEEEECCEecCCCCHHHHHHHh
Q 009668 240 SAGLVVISSMPGGPANRA-GILSGDVILAIDDTSTESMGIYDAAERL 285 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~a-GL~~GD~IlaInG~~v~~~~~~~~~~~l 285 (529)
+.++.|+.|...||+.-. ||.+||.|+++||-++... +++.+-+
T Consensus 219 g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v--~dW~ecl 263 (484)
T KOG2921|consen 219 GEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKV--SDWLECL 263 (484)
T ss_pred CceEEEEeccccCCCcCcccCCccceEEecCCcccCCH--HHHHHHH
Confidence 457889999999998743 8999999999999999875 5555444
No 81
>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=74.03 E-value=3.4 Score=39.33 Aligned_cols=38 Identities=26% Similarity=0.303 Sum_probs=32.1
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCCCCCCCCEEEEEC
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRAGILSGDVILAID 269 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~aGL~~GD~IlaIn 269 (529)
.|+.+..+ ++.+.|..|..||||+++|+.-|++|++|-
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 46666544 678999999999999999999999998873
No 82
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=73.58 E-value=22 Score=38.31 Aligned_cols=60 Identities=22% Similarity=0.405 Sum_probs=50.8
Q ss_pred CceEEEEecc-cccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCc
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGV 393 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~ 393 (529)
+++.++.+.. -...+.+.+.+.++..++.++..+||+| +-|||.++.+.++.+.+...+.
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 5778888876 4555778899999999888999999998 6799999999999999987653
No 83
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=72.78 E-value=7 Score=39.10 Aligned_cols=67 Identities=27% Similarity=0.355 Sum_probs=49.0
Q ss_pred eeEEEeecCCCCCCCCcEEEEEecCCCcccCC-CCCCCCEEEEECCEecCCCCHHHHHHHhcC-CCCCcEEEEE
Q 009668 226 VGLSIGYPTASDGSSAGLVVISSMPGGPANRA-GILSGDVILAIDDTSTESMGIYDAAERLQG-PEGSPVELTV 297 (529)
Q Consensus 226 lG~~~~~~~~~~~~~~~~~V~~V~~gsPA~~a-GL~~GD~IlaInG~~v~~~~~~~~~~~l~g-~~G~~v~ltv 297 (529)
+|+.+.-. .-|..+|..+.+||--.+- -+.+||-|-+|||+.+-++..+++.+.|+. +.|++.++.+
T Consensus 139 lGlTITDN-----G~GyAFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrL 207 (334)
T KOG3938|consen 139 LGLTITDN-----GAGYAFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRL 207 (334)
T ss_pred cceEEeeC-----CcceeeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEe
Confidence 56666421 1345678888888877764 489999999999999999999998887764 3455555544
No 84
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=71.85 E-value=16 Score=35.21 Aligned_cols=82 Identities=21% Similarity=0.166 Sum_probs=59.4
Q ss_pred CceEEEEecccccchhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCC
Q 009668 333 PRIGYIKLTSFNQNASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 411 (529)
Q Consensus 333 ~~igYl~i~sF~~~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~ 411 (529)
.++-||. ..........+.+.|..+.. .+.+.++|.+- -+||++..+..+...+..
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 3555554 11223456677888877776 46788999986 678899998888877532
Q ss_pred CCcccCCCCEEEEECCCCCCHHHHHHHHHhc
Q 009668 412 TDALAASEPLAVLVNKGTASASEILAGALKD 442 (529)
Q Consensus 412 ~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~ 442 (529)
.+.||++++++..+|+|-+++.+-..
T Consensus 80 -----~~~~V~t~v~G~AaSaaslIl~ag~~ 105 (197)
T PRK14512 80 -----VKPKVFTIGVGLVASAAALIFLAAKK 105 (197)
T ss_pred -----CCCCEEEEEEeeeHhHHHHHHhcCCc
Confidence 34689999999999999988877654
No 85
>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=70.52 E-value=20 Score=33.57 Aligned_cols=71 Identities=21% Similarity=0.208 Sum_probs=48.8
Q ss_pred hhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 347 ASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 347 ~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
...++.++++++.+ ..++++||++. .+||.+.....+...+.. ....++||+..+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~-~~gg~~~~~~~~~~~i~~-----------------------~~~~~kpVia~v 78 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAA-----------------------ARAAGKPVVASG 78 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEee-CCCcCHHHHHHHHHHHHH-----------------------HHhCCCCEEEEE
Confidence 45688888887765 47999999994 567776554333221110 012468999999
Q ss_pred CCCCCCHHHHHHHHHh
Q 009668 426 NKGTASASEILAGALK 441 (529)
Q Consensus 426 d~~TaSAaE~fa~~lk 441 (529)
++.++|++=.++.+.-
T Consensus 79 ~G~a~g~g~~la~a~D 94 (177)
T cd07014 79 GGNAASGGYWISTPAN 94 (177)
T ss_pred CCchhHHHHHHHHhCC
Confidence 9999999888877654
No 86
>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=67.87 E-value=15 Score=34.04 Aligned_cols=69 Identities=14% Similarity=0.110 Sum_probs=52.2
Q ss_pred chhHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
...+.+.+.|..+... +.+.++|-+ +-+||++..+..+...+.. .+.|+++.
T Consensus 12 ~~~~~~~~~L~~l~~~~~~~~i~l~I-nSpGG~v~~~~~i~~~i~~--------------------------~~~~v~~~ 64 (162)
T cd07013 12 ISANQFAAQLLFLGAVNPEKDIYLYI-NSPGGDVFAGMAIYDTIKF--------------------------IKADVVTI 64 (162)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh--------------------------cCCCceEE
Confidence 4567788888877764 578999999 7788898888888776532 23468888
Q ss_pred ECCCCCCHHHHHHHHHh
Q 009668 425 VNKGTASASEILAGALK 441 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk 441 (529)
+.+.++|+|-+++.+-.
T Consensus 65 ~~g~aaS~~~~i~~a~~ 81 (162)
T cd07013 65 IDGLAASMGSVIAMAGA 81 (162)
T ss_pred EEeehhhHHHHHHHcCC
Confidence 88999999988776654
No 87
>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=67.55 E-value=32 Score=33.13 Aligned_cols=82 Identities=23% Similarity=0.270 Sum_probs=54.4
Q ss_pred chhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
....++.++|..+.+ ..++++||++ +.+||++..+..+...+.. + ...++|++..
T Consensus 17 ~~~~~l~~~l~~a~~d~~i~~ivl~~-~s~Gg~~~~~~~i~~~i~~----------------~-------~~~~kpvia~ 72 (208)
T cd07023 17 IGADSLIEQLRKAREDDSVKAVVLRI-NSPGGSVVASEEIYREIRR----------------L-------RKAKKPVVAS 72 (208)
T ss_pred CCHHHHHHHHHHHHhCCCCcEEEEEE-ECCCCCHHHHHHHHHHHHH----------------H-------HhcCCcEEEE
Confidence 356678888888765 4699999999 4578887665444332110 0 1236799999
Q ss_pred ECCCCCCHHHHHHHHHhcCCCeEEEccCCCCC
Q 009668 425 VNKGTASASEILAGALKDNKRAVLFGEPTYGK 456 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~ 456 (529)
+++.++|++=.+|.+.. .++-.+++.-
T Consensus 73 v~g~~~s~g~~lA~aaD-----~i~a~~~s~~ 99 (208)
T cd07023 73 MGDVAASGGYYIAAAAD-----KIVANPTTIT 99 (208)
T ss_pred ECCcchhHHHHHHhhCC-----EEEECCCCeE
Confidence 99999998887776543 3555555433
No 88
>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=66.57 E-value=31 Score=35.02 Aligned_cols=72 Identities=24% Similarity=0.279 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEECC
Q 009668 348 SGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVNK 427 (529)
Q Consensus 348 ~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d~ 427 (529)
.+++.+++....+ .+++.|.+ +-+||.+..+..++.++.. +..|+.|+|..
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 3456666665443 33455554 5899999999999988643 34678899999
Q ss_pred CCCCHHHHHHHHHhcCCCeEEEccC
Q 009668 428 GTASASEILAGALKDNKRAVLFGEP 452 (529)
Q Consensus 428 ~TaSAaE~fa~~lk~~~~a~iVGe~ 452 (529)
.+.||+-++|.+... .++|..
T Consensus 128 ~A~SAGTlIALaADe----IvM~p~ 148 (285)
T PF01972_consen 128 YAMSAGTLIALAADE----IVMGPG 148 (285)
T ss_pred ccccHHHHHHHhCCe----EEECCC
Confidence 999999999887664 566653
No 89
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=60.83 E-value=24 Score=34.22 Aligned_cols=70 Identities=19% Similarity=0.160 Sum_probs=53.5
Q ss_pred cchhHHHHHHHHHHhhCC-CCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEE
Q 009668 345 QNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAV 423 (529)
Q Consensus 345 ~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~V 423 (529)
....+++.+.|..+...+ .+.+.|-+ +-+||++..+..+...+.. .+.|++.
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 345677777777777654 78899988 6788899988888776532 2347899
Q ss_pred EECCCCCCHHHHHHHHHh
Q 009668 424 LVNKGTASASEILAGALK 441 (529)
Q Consensus 424 L~d~~TaSAaE~fa~~lk 441 (529)
++.+.++|+|-+++.+-.
T Consensus 99 ~~~G~aaSaa~lI~~ag~ 116 (207)
T PRK12553 99 VCTGQAASAGAVLLAAGT 116 (207)
T ss_pred EEEeehhhHHHHHHHcCC
Confidence 999999999998888765
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=59.58 E-value=70 Score=30.96 Aligned_cols=81 Identities=28% Similarity=0.326 Sum_probs=54.5
Q ss_pred chhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
....++.++|+++.+ ..++++||++.. +||....+..+...+.. . .. .+||+..
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 356788888888765 479999999844 67776655444443311 0 01 5899999
Q ss_pred ECCCCCCHHHHHHHHHhcCCCeEEEccCCCCC
Q 009668 425 VNKGTASASEILAGALKDNKRAVLFGEPTYGK 456 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~ 456 (529)
+++.++|++=.+|.+.. .++-.+++--
T Consensus 80 v~g~a~s~gy~lA~~aD-----~i~a~~~a~~ 106 (214)
T cd07022 80 VNGLAASAAYWIASAAD-----RIVVTPTAGV 106 (214)
T ss_pred ECCchhhHHHHHHhcCC-----EEEEcCCCeE
Confidence 99999988888777654 3555565443
No 91
>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=58.25 E-value=13 Score=35.02 Aligned_cols=71 Identities=15% Similarity=0.194 Sum_probs=53.0
Q ss_pred chhHHHHHHHHHHh-hCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLR-SNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~-~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
.....+.+.|..+. +.+.+.+.|-+ +.+||++..+..+.+.+.. .+.|+.+.
T Consensus 28 ~~~~~~~~~L~~l~~~~~~~~i~i~I-NSpGG~v~~g~~i~~~i~~--------------------------~~~~v~t~ 80 (182)
T PF00574_consen 28 ESANRLISQLLYLENEDKNKPINIYI-NSPGGDVDAGLAIYDAIRS--------------------------SKAPVTTV 80 (182)
T ss_dssp HHHHHHHHHHHHHHHHTSSSEEEEEE-EECEBCHHHHHHHHHHHHH--------------------------SSSEEEEE
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEE-cCCCCccHHHHHHHHHHHh--------------------------cCCCeEEE
Confidence 34566666666664 34678888888 7799999999988887643 23578888
Q ss_pred ECCCCCCHHHHHHHHHhcC
Q 009668 425 VNKGTASASEILAGALKDN 443 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk~~ 443 (529)
+.+.++|+|-+++.+-+..
T Consensus 81 ~~G~aaSaa~~i~~ag~~~ 99 (182)
T PF00574_consen 81 VLGLAASAATLIFLAGDKG 99 (182)
T ss_dssp EEEEEETHHHHHHHTSSTT
T ss_pred EeCccccceehhhhcCCcC
Confidence 8899999999888776654
No 92
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=58.14 E-value=26 Score=39.70 Aligned_cols=68 Identities=19% Similarity=0.157 Sum_probs=52.9
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHhcCCC-CCcEEEEEe-eCCeeEEEEEee
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERLQGPE-GSPVELTVR-SGAEIRHLALTR 310 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l~g~~-G~~v~ltv~-r~g~~~~v~l~r 310 (529)
+.+++|++.-.||||.+ +|.+--.|++|||..+.++ ++++..++..+ .+-+++... +++-+..++++.
T Consensus 861 p~gvyvt~rg~gspalq-~l~aa~fitavng~~t~~l--ddf~~~~~~ipdnsyv~v~~mtfd~vp~~~s~k~ 930 (955)
T KOG1421|consen 861 PEGVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTL--DDFYHMLLEIPDNSYVQVKQMTFDGVPSIVSVKP 930 (955)
T ss_pred CCceEEeecccCChhHh-hcchheeEEEecccccCcH--HHHHHHHhhCCCCceEEEEEeccCCCceEEEecc
Confidence 56899999999999998 8999999999999998766 78887776544 445666543 566666666654
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=57.73 E-value=56 Score=31.56 Aligned_cols=70 Identities=21% Similarity=0.239 Sum_probs=50.3
Q ss_pred hHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEEC
Q 009668 348 SGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 426 (529)
Q Consensus 348 ~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d 426 (529)
..++.+.+..+.+. .++++||++ +++||++..+..+...+.. + ....+||+..++
T Consensus 23 ~~~l~~~l~~a~~d~~v~~ivL~~-~s~Gg~~~~~~~~~~~l~~----------------~-------~~~~kpVia~v~ 78 (211)
T cd07019 23 GDTTAAQIRDARLDPKVKAIVLRV-NSPGGSVTASEVIRAELAA----------------A-------RAAGKPVVVSAG 78 (211)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEE-cCCCcCHHHHHHHHHHHHH----------------H-------HhCCCCEEEEEC
Confidence 46788888887764 799999995 4588988776555432210 0 123689999999
Q ss_pred CCCCCHHHHHHHHHh
Q 009668 427 KGTASASEILAGALK 441 (529)
Q Consensus 427 ~~TaSAaE~fa~~lk 441 (529)
+.++|++=.++.+-.
T Consensus 79 g~a~s~gy~la~~aD 93 (211)
T cd07019 79 GAAASGGYWISTPAN 93 (211)
T ss_pred CeehhHHHHHHHhCC
Confidence 999999888887643
No 94
>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=57.42 E-value=33 Score=32.06 Aligned_cols=68 Identities=18% Similarity=0.209 Sum_probs=50.2
Q ss_pred hhHHHHHHHHHHhhCC-CCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 347 ASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 347 ~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
...++...+..+...+ .+.++|-+ +-+||++..+..+...+-. .+.|+++.+
T Consensus 22 ~~~~i~~~l~~~~~~~~~~~i~l~i-nSpGG~v~~~~~i~~~l~~--------------------------~~~~v~t~~ 74 (171)
T cd07017 22 VANLIIAQLLYLESEDPKKPIYLYI-NSPGGSVTAGLAIYDTMQY--------------------------IKPPVSTIC 74 (171)
T ss_pred HHHHHHHHHHHHHccCCCCceEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCCCEEEEE
Confidence 4556777776666543 58899998 7788888888888776521 246788888
Q ss_pred CCCCCCHHHHHHHHHh
Q 009668 426 NKGTASASEILAGALK 441 (529)
Q Consensus 426 d~~TaSAaE~fa~~lk 441 (529)
.+.++|+|-.++.+-.
T Consensus 75 ~g~aaS~~~~i~~~g~ 90 (171)
T cd07017 75 LGLAASMGALLLAAGT 90 (171)
T ss_pred EeEehhHHHHHHHcCC
Confidence 9999999988776653
No 95
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=41.59 E-value=82 Score=30.33 Aligned_cols=67 Identities=15% Similarity=0.181 Sum_probs=49.4
Q ss_pred chhHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
...+.+...+..+... +.+.+.|.+ +-+||.+..+..+...+.. .+.|++.+
T Consensus 43 ~~~~~i~~~L~~l~~~~~~~~I~l~I-nSpGG~v~~g~~I~d~i~~--------------------------~~~~v~t~ 95 (200)
T PRK00277 43 HMANLIVAQLLFLEAEDPDKDIYLYI-NSPGGSVTAGLAIYDTMQF--------------------------IKPDVSTI 95 (200)
T ss_pred HHHHHHHHHHHHhhccCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh--------------------------cCCCEEEE
Confidence 3456666666666643 466788888 6788999988888776521 23578888
Q ss_pred ECCCCCCHHHHHHHH
Q 009668 425 VNKGTASASEILAGA 439 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~ 439 (529)
+++.++|++-+++.+
T Consensus 96 ~~G~aaS~a~~I~~a 110 (200)
T PRK00277 96 CIGQAASMGAFLLAA 110 (200)
T ss_pred EEeEeccHHHHHHhc
Confidence 899999999988877
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=40.21 E-value=91 Score=29.79 Aligned_cols=67 Identities=15% Similarity=0.166 Sum_probs=47.3
Q ss_pred hhHHHHHHHHHHhhC-CCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEE
Q 009668 347 ASGAVREAIDTLRSN-SVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLV 425 (529)
Q Consensus 347 ~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~ 425 (529)
..+++...|..+... ..+.+.|.+ +-+||.+..+..+...+.. .+.|+..++
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 445666666666543 356788888 6678999988888776521 235688888
Q ss_pred CCCCCCHHHHHHHHH
Q 009668 426 NKGTASASEILAGAL 440 (529)
Q Consensus 426 d~~TaSAaE~fa~~l 440 (529)
.+.++|+|-+++.+-
T Consensus 92 ~G~AaSaaslI~~aG 106 (191)
T TIGR00493 92 IGQAASMGAFLLSAG 106 (191)
T ss_pred EEeeccHHHHHHhcC
Confidence 899999998877653
No 97
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=33.25 E-value=1.1e+02 Score=29.41 Aligned_cols=69 Identities=14% Similarity=0.150 Sum_probs=49.8
Q ss_pred chhHHHHHHHHHHhhCC-CCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEE
Q 009668 346 NASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVL 424 (529)
Q Consensus 346 ~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL 424 (529)
...+++-..|..+...+ .+.+.|=+ +-+||++..+..+...+- ..+.||..+
T Consensus 37 ~~a~~ii~~Ll~l~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~--------------------------~~~~~V~t~ 89 (196)
T PRK12551 37 DSANRIVAQLLFLEAEDPEKDIYLYI-NSPGGSVYDGLGIFDTMQ--------------------------HVKPDVHTV 89 (196)
T ss_pred HHHHHHHHHHHHhhccCCCCCEEEEE-eCCCcchhhHHHHHHHHH--------------------------hcCCCEEEE
Confidence 35566777776666443 56677766 567889988887777652 234679999
Q ss_pred ECCCCCCHHHHHHHHHh
Q 009668 425 VNKGTASASEILAGALK 441 (529)
Q Consensus 425 ~d~~TaSAaE~fa~~lk 441 (529)
+++..+|+|-+++.+=.
T Consensus 90 ~~G~AaS~AslIl~aG~ 106 (196)
T PRK12551 90 CVGLAASMGAFLLCAGA 106 (196)
T ss_pred EEEEehhHHHHHHhCCC
Confidence 99999999998887643
No 98
>PRK07854 enoyl-CoA hydratase; Provisional
Probab=32.86 E-value=2.2e+02 Score=28.04 Aligned_cols=90 Identities=21% Similarity=0.229 Sum_probs=52.6
Q ss_pred CceEEEEecc------cccchhHHHHHHHHHHhhCCCCeEEEEcCCCC-----CCChHHHHHHHHhhcCCCcEEEEEcCC
Q 009668 333 PRIGYIKLTS------FNQNASGAVREAIDTLRSNSVNAFVLDLRDNS-----GGLFPEGIEIAKIWLDKGVIVYICDSR 401 (529)
Q Consensus 333 ~~igYl~i~s------F~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~-----GG~~~~~~~l~~~f~~~~~~~~~~~~~ 401 (529)
++|+.|.++. ++.....++.+++.++.+..++.+|| ++++ |+++........ +. .
T Consensus 8 ~~v~~itlnrp~~~Nal~~~~~~~l~~al~~~~~~~vr~vvl--~g~g~~F~aG~Dl~~~~~~~~-~~-----------~ 73 (243)
T PRK07854 8 GQVLTIELQRPERRNALNAELCEELREAVRKAVDESARAIVL--TGQGTVFCAGADLSGDVYADD-FP-----------D 73 (243)
T ss_pred CCEEEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCceEEEE--ECCCCceecccCCccchhHHH-HH-----------H
Confidence 4677777743 45556678888888877667888887 5543 444431000000 00 0
Q ss_pred CceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHH
Q 009668 402 GVRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGAL 440 (529)
Q Consensus 402 ~~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~l 440 (529)
.....+. .-...++|++..+++.+..++-.++.+.
T Consensus 74 ~~~~~~~----~l~~~~kP~Iaav~G~a~GgG~~lal~c 108 (243)
T PRK07854 74 ALIEMLH----AIDAAPVPVIAAINGPAIGAGLQLAMAC 108 (243)
T ss_pred HHHHHHH----HHHhCCCCEEEEecCcccccHHHHHHhC
Confidence 0000000 0113579999999999999888887764
No 99
>PRK11778 putative inner membrane peptidase; Provisional
Probab=32.86 E-value=3.5e+02 Score=28.35 Aligned_cols=105 Identities=23% Similarity=0.263 Sum_probs=58.7
Q ss_pred CceEEEEeccc-ccchhHHHHHHHHHHh--hCCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeec
Q 009668 333 PRIGYIKLTSF-NQNASGAVREAIDTLR--SNSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDT 409 (529)
Q Consensus 333 ~~igYl~i~sF-~~~~~~~l~~~l~~l~--~~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~ 409 (529)
+.|+.|.+..- ..+....+++.+..+. +..-+++||++- .|||........++.+.. +.
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 46777776653 2222233444444432 123378999884 467765443222222110 00
Q ss_pred CCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCceeeeEEECC
Q 009668 410 DGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGKIQSVFQLS 466 (529)
Q Consensus 410 ~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~~~~~~~L~ 466 (529)
...+|+++.+++.++|++=.+|.+.. .|+=.|++..|+.......+
T Consensus 152 ------~~~kpVva~v~~~AASggY~iAsaAD-----~I~A~P~a~vGSIGVi~~~~ 197 (330)
T PRK11778 152 ------DAGIPLTVAVDKVAASGGYMMACVAD-----KIIAAPFAIVGSIGVVAQIP 197 (330)
T ss_pred ------hcCCCEEEEECCchhhHHHHHHHhCC-----EEEECCCCeEEeeeeeeecc
Confidence 12469999999999999988887653 45666666555543333343
No 100
>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=32.76 E-value=83 Score=26.47 Aligned_cols=42 Identities=10% Similarity=0.287 Sum_probs=28.9
Q ss_pred CceEEEEecc-cccchhHHHHHHH-HHHhhCCCCeEEEEcCCCC
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAI-DTLRSNSVNAFVLDLRDNS 374 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l-~~l~~~~~~~LIIDLR~N~ 374 (529)
+++..+++.. +.....+.+++.+ ..+.+.+.+.+|||+++=+
T Consensus 9 ~~~~v~~l~G~L~~~~a~~~~~~l~~~~~~~~~~~vvlDls~v~ 52 (109)
T cd07041 9 DGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVP 52 (109)
T ss_pred CCEEEEeeeeeECHHHHHHHHHHHHHHHHHcCCCEEEEECCCCc
Confidence 3567777765 5445667777765 4454457899999999755
No 101
>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=31.89 E-value=1.8e+02 Score=23.37 Aligned_cols=49 Identities=18% Similarity=0.163 Sum_probs=31.0
Q ss_pred ceEEEEecc-cccchhHHHHHHHHHHhhCCCCeEEEEcCCCCCCChHHHH
Q 009668 334 RIGYIKLTS-FNQNASGAVREAIDTLRSNSVNAFVLDLRDNSGGLFPEGI 382 (529)
Q Consensus 334 ~igYl~i~s-F~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~ 382 (529)
++..+++.. +.....+.+.+.+......+.+.+|||+++-..=+...+.
T Consensus 8 ~~~ii~l~G~l~~~~~~~~~~~~~~~~~~~~~~viid~~~v~~iDs~g~~ 57 (99)
T cd07043 8 GVLVVRLSGELDAATAPELREALEELLAEGPRRLVLDLSGVTFIDSSGLG 57 (99)
T ss_pred CEEEEEEeceecccchHHHHHHHHHHHHcCCCEEEEECCCCCEEcchhHH
Confidence 555666653 3333456677776665554579999999997765544433
No 102
>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=30.53 E-value=4.3e+02 Score=29.89 Aligned_cols=80 Identities=21% Similarity=0.232 Sum_probs=52.8
Q ss_pred hHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCCCCcccCCCCEEEEEC
Q 009668 348 SGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDGTDALAASEPLAVLVN 426 (529)
Q Consensus 348 ~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gpv~VL~d 426 (529)
.+.+.+.+.++.+ ..+++|||.+- .|||....+..+...+.. +. ...+||++.++
T Consensus 331 ~~~~~~~l~~a~~D~~VkaIVLrin-SpGGs~~ase~i~~~i~~----------------~~-------~~gKPVva~~~ 386 (584)
T TIGR00705 331 GDTVAALLRVARSDPDIKAVVLRIN-SPGGSVFASEIIRRELAR----------------AQ-------ARGKPVIVSMG 386 (584)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEec-CCCCCHHHHHHHHHHHHH----------------HH-------hCCCcEEEEEC
Confidence 3466777776654 47899998875 466766555545433211 00 12489999999
Q ss_pred CCCCCHHHHHHHHHhcCCCeEEEccCCCCC
Q 009668 427 KGTASASEILAGALKDNKRAVLFGEPTYGK 456 (529)
Q Consensus 427 ~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~ 456 (529)
+.++|++=.++.+.. .|+-+++.-.
T Consensus 387 g~aaSggY~iA~aaD-----~I~a~p~t~~ 411 (584)
T TIGR00705 387 AMAASGGYWIASAAD-----YIVASPNTIT 411 (584)
T ss_pred CccccHHHHHHHhCC-----EEEECCCCee
Confidence 999999988888764 3566666543
No 103
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=27.11 E-value=29 Score=35.78 Aligned_cols=35 Identities=34% Similarity=0.592 Sum_probs=30.3
Q ss_pred CCcEEEEEecCCCcccCCCCCCCCEEEEECCEecC
Q 009668 240 SAGLVVISSMPGGPANRAGILSGDVILAIDDTSTE 274 (529)
Q Consensus 240 ~~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~ 274 (529)
+.-+.|..|.+.+||+++|.-.||.|+-+|+-++.
T Consensus 62 n~~l~~lrv~~~~~~e~~~~~~~dyilg~n~Dp~~ 96 (417)
T COG5233 62 NCLLEVLRVNPESPAEKAGMVVGDYILGINEDPLR 96 (417)
T ss_pred hhhhhheeccccChhHhhccccceeEEeecCCcHH
Confidence 34566888999999999999999999999987764
No 104
>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=26.35 E-value=1.5e+02 Score=24.67 Aligned_cols=45 Identities=16% Similarity=0.285 Sum_probs=31.0
Q ss_pred CceEEEEecc-cccchhHHHHHHHHHHh-hCCCCeEEEEcCCCCCCC
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAIDTLR-SNSVNAFVLDLRDNSGGL 377 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l~~l~-~~~~~~LIIDLR~N~GG~ 377 (529)
+++..+++.. +.....+.+++.+.++- +.+.+.+|||+++-.-=+
T Consensus 7 ~~~~vi~l~G~L~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~iD 53 (106)
T TIGR02886 7 GDVLIVRLSGELDHHTAERVRRKIDDAIERRPIKHLILNLKNVTFMD 53 (106)
T ss_pred CCEEEEEEecccchhhHHHHHHHHHHHHHhCCCCEEEEECCCCcEec
Confidence 4677777764 33345677877776653 346899999999987533
No 105
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=25.06 E-value=1.2e+02 Score=26.46 Aligned_cols=29 Identities=24% Similarity=0.391 Sum_probs=22.6
Q ss_pred HHHHHHHHhhCCCCeEEEEcCCCCC----CChHH
Q 009668 351 VREAIDTLRSNSVNAFVLDLRDNSG----GLFPE 380 (529)
Q Consensus 351 l~~~l~~l~~~~~~~LIIDLR~N~G----G~~~~ 380 (529)
++++++.+++.+++ +++|+|.+|. |.-..
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 45667777777885 9999999999 86554
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=24.48 E-value=2e+02 Score=24.33 Aligned_cols=47 Identities=17% Similarity=0.142 Sum_probs=33.7
Q ss_pred CceEEEEecc-cccchhHHHHHHHHHHhhCC---------CCeEEEEcCCCCCCChH
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAIDTLRSNS---------VNAFVLDLRDNSGGLFP 379 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l~~l~~~~---------~~~LIIDLR~N~GG~~~ 379 (529)
+++..+++.. +.....+.+++.+.++...+ .+.+|||+++-..=+..
T Consensus 8 ~~v~ii~~~g~l~f~~~~~~~~~i~~~~~~~~~~~~~~~~~~~vIlD~s~v~~iDss 64 (117)
T PF01740_consen 8 DGVLIIRLDGPLFFANAEEFRDRIRKLIDEDPERIKKRQTIKNVILDMSGVSFIDSS 64 (117)
T ss_dssp TTEEEEEEESEESHHHHHHHHHHHHHHHCCSSS--HTSSSSSEEEEEETTESEESHH
T ss_pred CCEEEEEEeeEEEHHHHHHHHHHHHHhhhcccccccccccceEEEEEEEeCCcCCHH
Confidence 4777888875 33445677888887766654 59999999998765443
No 107
>PRK10949 protease 4; Provisional
Probab=24.47 E-value=6.8e+02 Score=28.63 Aligned_cols=98 Identities=19% Similarity=0.192 Sum_probs=62.4
Q ss_pred CCceEEEEeccc-ccc-------hhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCC
Q 009668 332 SPRIGYIKLTSF-NQN-------ASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRG 402 (529)
Q Consensus 332 ~~~igYl~i~sF-~~~-------~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~ 402 (529)
.++|+.|.+..- ..+ ..+.+.+.|+++.+ ..++++||++- .|||....+..+...+..-
T Consensus 325 ~~~Iavi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrIn-SpGGs~~ase~i~~~i~~~----------- 392 (618)
T PRK10949 325 GGSIAVIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAAA----------- 392 (618)
T ss_pred CCeEEEEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEec-CCCCcHHHHHHHHHHHHHH-----------
Confidence 356777776542 111 23456667766654 58999999996 5677766665555544220
Q ss_pred ceeeeecCCCCcccCCCCEEEEECCCCCCHHHHHHHHHhcCCCeEEEccCCCCCce
Q 009668 403 VRDIYDTDGTDALAASEPLAVLVNKGTASASEILAGALKDNKRAVLFGEPTYGKGK 458 (529)
Q Consensus 403 ~~~~~~~~~~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk~~~~a~iVGe~T~G~~~ 458 (529)
....+||++-+++..+|++=.+|.+.. .|+=+|+.-.|+
T Consensus 393 ------------r~~gKPVvas~~~~aASggY~iA~aad-----~I~a~p~t~tGS 431 (618)
T PRK10949 393 ------------RAAGKPVVVSMGGMAASGGYWISTPAN-----YIVASPSTLTGS 431 (618)
T ss_pred ------------HhcCCcEEEEECCCCccHHHHHHHhcC-----EEEECCCCceee
Confidence 012579999999999999888887764 455566544443
No 108
>COG4100 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]
Probab=23.79 E-value=1.2e+02 Score=31.37 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=18.4
Q ss_pred CCCCCEEEEECCEecCCCCHHHHH
Q 009668 259 ILSGDVILAIDDTSTESMGIYDAA 282 (529)
Q Consensus 259 L~~GD~IlaInG~~v~~~~~~~~~ 282 (529)
|++||+++.|-|.|-..+ .+++
T Consensus 104 LRpgDell~i~G~PYDTL--eevI 125 (416)
T COG4100 104 LRPGDELLYITGSPYDTL--EEVI 125 (416)
T ss_pred cCCCCeEEEecCCcchhH--HHHh
Confidence 899999999999998765 5554
No 109
>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=23.64 E-value=2.4e+02 Score=23.35 Aligned_cols=46 Identities=17% Similarity=0.207 Sum_probs=31.6
Q ss_pred CceEEEEecc-cccchhHHHHHHHHHHhh-CCCCeEEEEcCCCCCCCh
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAIDTLRS-NSVNAFVLDLRDNSGGLF 378 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~ 378 (529)
+++.++++.. +.......+++.+.++.. .+.+.+|||+.+-..=+.
T Consensus 11 ~~~~vi~~~G~l~~~~~~~~~~~l~~~~~~~~~~~vvidls~v~~iDs 58 (108)
T TIGR00377 11 EGVVIVRLSGELDAHTAPLLREKVTPAAERTGPRPIVLDLEDLEFMDS 58 (108)
T ss_pred CCEEEEEEecccccccHHHHHHHHHHHHHhcCCCeEEEECCCCeEEcc
Confidence 3667777764 333446677777776655 478999999998765443
No 110
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=22.40 E-value=38 Score=41.12 Aligned_cols=45 Identities=16% Similarity=0.354 Sum_probs=38.1
Q ss_pred CcEEEEEecCCCcccCCCCCCCCEEEEECCEecCCCCHHHHHHHh
Q 009668 241 AGLVVISSMPGGPANRAGILSGDVILAIDDTSTESMGIYDAAERL 285 (529)
Q Consensus 241 ~~~~V~~V~~gsPA~~aGL~~GD~IlaInG~~v~~~~~~~~~~~l 285 (529)
+.++|.+|.+++||.-+.|+-||.++.||.+++..+...+++..+
T Consensus 143 eT~~~~eV~~n~~~~~a~LQ~~~~V~~v~~q~~A~i~~s~~~S~~ 187 (1973)
T KOG4407|consen 143 ETIFIKEVQANGPAHYANLQTGDRVLMVNNQPIAGIAYSTIVSMI 187 (1973)
T ss_pred hhhhhhhhccCChhHHHhhhccceeEEeecCcccchhhhhhhhhh
Confidence 356789999999999999999999999999999987655555443
No 111
>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=21.84 E-value=2e+02 Score=23.51 Aligned_cols=45 Identities=11% Similarity=0.144 Sum_probs=29.4
Q ss_pred CCceEEEEecc-cccchhHHHHHHHHHHhhCC--CCeEEEEcCCCCCC
Q 009668 332 SPRIGYIKLTS-FNQNASGAVREAIDTLRSNS--VNAFVLDLRDNSGG 376 (529)
Q Consensus 332 ~~~igYl~i~s-F~~~~~~~l~~~l~~l~~~~--~~~LIIDLR~N~GG 376 (529)
++++.++++.. +.....+.+.+.+.+..+.. .+.+|||+++-..=
T Consensus 7 ~~~~~v~~l~G~l~~~~~~~l~~~~~~~~~~~~~~~~lilD~~~v~~i 54 (107)
T cd07042 7 PPGVLIYRIDGPLFFGNAEYFKDRLLRLVDEDPPLKVVILDLSAVNFI 54 (107)
T ss_pred CCCEEEEEecCceEeehHHHHHHHHHHHhccCCCceEEEEECCCCchh
Confidence 35777888775 22234566777766655433 58999999987543
No 112
>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=21.42 E-value=2.7e+02 Score=26.93 Aligned_cols=81 Identities=15% Similarity=0.177 Sum_probs=52.9
Q ss_pred CceEEEEecccccchhHHHHHHHHHHhhCC-CCeEEEEcCCCCCCChHHHHHHHHhhcCCCcEEEEEcCCCceeeeecCC
Q 009668 333 PRIGYIKLTSFNQNASGAVREAIDTLRSNS-VNAFVLDLRDNSGGLFPEGIEIAKIWLDKGVIVYICDSRGVRDIYDTDG 411 (529)
Q Consensus 333 ~~igYl~i~sF~~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~~~~~~~~~~~~ 411 (529)
++|.||-- ......++.+-..|-.|...+ .+.+-|=+ +-+||++..+..+...+-
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 46656522 223334566666666666533 45565555 667899888887777653
Q ss_pred CCcccCCCCEEEEECCCCCCHHHHHHHHHh
Q 009668 412 TDALAASEPLAVLVNKGTASASEILAGALK 441 (529)
Q Consensus 412 ~~~~~~~gpv~VL~d~~TaSAaE~fa~~lk 441 (529)
..+.||..++.+..+|+|-+++.+=.
T Consensus 83 ----~~~~~V~Ti~~G~AaS~As~il~aG~ 108 (201)
T PRK14513 83 ----YIKAPVSTICVGIAMSMGSVLLMAGD 108 (201)
T ss_pred ----hcCCCEEEEEEeeehhhHHHHHhcCC
Confidence 23468999999999999998875543
No 113
>cd00059 FH Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix.
Probab=21.11 E-value=98 Score=25.20 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=27.8
Q ss_pred HHHHHhhhhccccCCccccchhHHHHHHHHHHHHHHcCCCCCCCCChH
Q 009668 123 AMLVTSTTIALSETPSLALSEENRLFLEAWRTIDRAYVDKTFNGQSWF 170 (529)
Q Consensus 123 ~ll~l~i~~~~~~~~~~~~s~~~~~fd~v~~~l~~~Y~~~~~~g~~w~ 170 (529)
.|+.++|... .+++..+.++++.+.++|++.......|+
T Consensus 8 ~LI~~Ai~~s---------p~~~lTL~eIy~~I~~~~pyyr~~~~gWk 46 (78)
T cd00059 8 ALIAMAIQSS---------PEKRLTLSEIYKWISDNFPYFRDAPAGWQ 46 (78)
T ss_pred HHHHHHHHhC---------CCCCeeHHHHHHHHHHhCCccccCCCCCc
Confidence 4555666544 35666789999999999987655566775
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=20.55 E-value=2.1e+02 Score=23.71 Aligned_cols=43 Identities=9% Similarity=0.162 Sum_probs=28.7
Q ss_pred CceEEEEecc-cccchhHHHHHHHHH-HhhCCCCeEEEEcCCCCC
Q 009668 333 PRIGYIKLTS-FNQNASGAVREAIDT-LRSNSVNAFVLDLRDNSG 375 (529)
Q Consensus 333 ~~igYl~i~s-F~~~~~~~l~~~l~~-l~~~~~~~LIIDLR~N~G 375 (529)
+++.++++.. +.....+.+++.+.. +.+.+.+.+|||+.+-.-
T Consensus 7 ~~v~ii~~~G~l~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~ 51 (100)
T cd06844 7 DDYWVVRLEGELDHHSVEQFKEELLHNITNVAGKTIVIDISALEF 51 (100)
T ss_pred CCEEEEEEEEEecHhhHHHHHHHHHHHHHhCCCCEEEEECCCCcE
Confidence 3677788775 444456677777654 333468999999986653
Done!