Query 012084
Match_columns 471
No_of_seqs 359 out of 2711
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 08:27:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012084.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012084hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00049 carboxyl-terminal pro 100.0 1.5E-62 3.3E-67 506.3 42.2 360 100-466 4-373 (389)
2 COG0793 Prc Periplasmic protea 100.0 9.8E-59 2.1E-63 477.3 37.8 309 142-455 59-370 (406)
3 PRK11186 carboxy-terminal prot 100.0 3.2E-55 7E-60 471.3 38.6 349 95-455 150-528 (667)
4 TIGR00225 prc C-terminal pepti 100.0 1.1E-53 2.4E-58 433.2 38.9 307 142-457 10-319 (334)
5 cd06567 Peptidase_S41 C-termin 100.0 4.3E-38 9.4E-43 301.8 26.1 221 105-452 1-224 (224)
6 cd07562 Peptidase_S41_TRI Tric 100.0 2.3E-38 5E-43 311.4 21.0 247 100-459 1-250 (266)
7 cd07563 Peptidase_S41_IRBP Int 100.0 5.6E-36 1.2E-40 292.0 24.6 226 104-455 1-241 (250)
8 smart00245 TSPc tail specific 100.0 3E-35 6.6E-40 275.6 24.1 189 261-452 4-192 (192)
9 cd07560 Peptidase_S41_CPP C-te 100.0 5E-34 1.1E-38 270.8 25.6 162 289-452 50-211 (211)
10 cd07561 Peptidase_S41_CPP_like 100.0 6.1E-33 1.3E-37 270.4 21.0 171 285-455 62-245 (256)
11 PF03572 Peptidase_S41: Peptid 100.0 1.6E-30 3.5E-35 237.8 19.5 164 288-451 1-169 (169)
12 COG3480 SdrC Predicted secrete 99.3 1.5E-11 3.2E-16 119.4 14.5 181 48-265 15-198 (342)
13 PF14684 Tricorn_C1: Tricorn p 99.3 3.5E-12 7.5E-17 99.5 4.6 66 99-167 2-69 (70)
14 PF13180 PDZ_2: PDZ domain; PD 99.3 1.7E-11 3.7E-16 98.7 8.8 73 181-258 2-75 (82)
15 cd00988 PDZ_CTP_protease PDZ d 99.1 1.2E-09 2.5E-14 88.2 12.7 82 179-266 1-82 (85)
16 cd00136 PDZ PDZ domain, also c 98.9 5.3E-09 1.1E-13 81.1 8.4 68 181-252 2-69 (70)
17 PF00595 PDZ: PDZ domain (Also 98.9 5.2E-09 1.1E-13 83.8 8.2 74 178-253 8-81 (81)
18 cd00991 PDZ_archaeal_metallopr 98.8 2.9E-08 6.2E-13 79.3 7.9 58 197-256 11-69 (79)
19 cd00990 PDZ_glycyl_aminopeptid 98.7 6.5E-08 1.4E-12 77.0 8.5 66 182-256 3-68 (80)
20 cd00989 PDZ_metalloprotease PD 98.7 6.8E-08 1.5E-12 76.6 8.5 58 197-256 13-70 (79)
21 cd00986 PDZ_LON_protease PDZ d 98.6 1.4E-07 3E-12 75.2 8.1 58 197-257 9-67 (79)
22 PF14685 Tricorn_PDZ: Tricorn 98.6 2.7E-07 5.9E-12 74.9 9.4 75 182-264 3-87 (88)
23 cd00992 PDZ_signaling PDZ doma 98.6 2.2E-07 4.8E-12 74.0 8.1 71 179-252 11-81 (82)
24 smart00228 PDZ Domain present 98.6 4.3E-07 9.4E-12 72.6 9.0 73 180-255 12-84 (85)
25 cd00987 PDZ_serine_protease PD 98.4 9.4E-07 2E-11 71.7 8.1 58 197-256 25-83 (90)
26 COG3975 Predicted protease wit 98.3 2.2E-06 4.7E-11 89.0 10.3 135 101-256 377-513 (558)
27 TIGR01713 typeII_sec_gspC gene 98.2 4.7E-06 1E-10 81.6 9.3 73 181-257 178-251 (259)
28 PRK10779 zinc metallopeptidase 98.2 3E-06 6.6E-11 89.7 6.9 66 198-265 128-194 (449)
29 PRK10139 serine endoprotease; 98.2 4.5E-06 9.7E-11 88.4 8.1 76 179-256 266-349 (455)
30 PRK10942 serine endoprotease; 98.2 6.7E-06 1.4E-10 87.5 9.3 76 180-257 288-371 (473)
31 TIGR00054 RIP metalloprotease 98.1 4.4E-06 9.5E-11 87.7 7.3 66 197-266 204-269 (420)
32 PRK10898 serine endoprotease; 98.1 6.1E-06 1.3E-10 84.6 8.2 59 196-256 279-338 (353)
33 TIGR02038 protease_degS peripl 98.1 5.5E-06 1.2E-10 84.9 7.3 59 197-257 279-338 (351)
34 PRK10779 zinc metallopeptidase 98.1 6.3E-06 1.4E-10 87.3 7.5 59 197-257 222-280 (449)
35 TIGR02037 degP_htrA_DO peripla 98.1 7.1E-06 1.5E-10 86.4 7.8 77 179-257 233-317 (428)
36 KOG3209 WW domain-containing p 98.0 8.6E-06 1.9E-10 86.6 6.5 104 148-255 713-837 (984)
37 PF04495 GRASP55_65: GRASP55/6 97.9 4E-05 8.7E-10 67.8 8.5 85 180-267 28-113 (138)
38 TIGR02860 spore_IV_B stage IV 97.9 5.6E-05 1.2E-09 77.8 10.0 75 181-266 97-179 (402)
39 TIGR02037 degP_htrA_DO peripla 97.8 4.7E-05 1E-09 80.2 8.0 58 197-256 363-421 (428)
40 PRK10942 serine endoprotease; 97.8 7E-05 1.5E-09 79.7 9.0 57 197-256 409-465 (473)
41 KOG3550 Receptor targeting pro 97.8 0.00018 4E-09 62.9 9.7 95 149-253 77-172 (207)
42 PRK10139 serine endoprotease; 97.8 6E-05 1.3E-09 79.9 8.2 57 197-256 391-447 (455)
43 TIGR03279 cyano_FeS_chp putati 97.7 5.4E-05 1.2E-09 78.4 6.8 61 200-267 2-63 (433)
44 KOG3209 WW domain-containing p 97.5 0.00023 5.1E-09 76.0 7.8 78 178-255 353-432 (984)
45 TIGR00054 RIP metalloprotease 97.5 0.00011 2.3E-09 77.3 5.3 59 197-258 129-187 (420)
46 KOG3553 Tax interaction protei 97.5 9.5E-05 2.1E-09 60.2 3.5 45 196-240 59-103 (124)
47 COG0265 DegQ Trypsin-like seri 97.4 0.00072 1.6E-08 69.2 9.5 60 197-258 271-331 (347)
48 KOG3129 26S proteasome regulat 97.2 0.00095 2.1E-08 61.9 6.5 61 197-257 140-201 (231)
49 KOG3605 Beta amyloid precursor 97.1 0.00062 1.3E-08 72.3 5.7 87 180-268 657-745 (829)
50 KOG3580 Tight junction protein 97.0 0.0011 2.5E-08 69.6 6.5 69 181-253 418-487 (1027)
51 KOG3552 FERM domain protein FR 96.7 0.002 4.2E-08 71.0 5.0 67 179-255 66-132 (1298)
52 KOG3549 Syntrophins (type gamm 96.6 0.0026 5.6E-08 63.1 4.8 75 176-253 62-137 (505)
53 KOG3532 Predicted protein kina 96.4 0.0075 1.6E-07 64.6 7.1 68 180-253 386-453 (1051)
54 KOG3551 Syntrophins (type beta 96.4 0.0034 7.4E-08 63.1 4.1 75 176-253 92-167 (506)
55 KOG3542 cAMP-regulated guanine 96.4 0.0044 9.5E-08 66.2 5.0 57 196-254 562-618 (1283)
56 KOG3651 Protein kinase C, alph 96.3 0.0099 2.1E-07 58.0 6.6 55 197-252 31-86 (429)
57 KOG1892 Actin filament-binding 96.3 0.0096 2.1E-07 65.9 7.1 74 180-255 943-1019(1629)
58 PRK09681 putative type II secr 96.2 0.013 2.8E-07 57.6 7.1 46 210-257 221-267 (276)
59 KOG3580 Tight junction protein 96.0 0.011 2.4E-07 62.5 6.0 74 180-255 20-97 (1027)
60 KOG1421 Predicted signaling-as 95.9 0.015 3.2E-07 62.6 6.4 59 197-258 304-362 (955)
61 cd07021 Clp_protease_NfeD_like 95.3 0.089 1.9E-06 48.7 8.5 69 300-395 13-81 (178)
62 KOG0609 Calcium/calmodulin-dep 95.1 0.04 8.6E-07 58.1 6.0 69 180-253 134-203 (542)
63 KOG3571 Dishevelled 3 and rela 95.1 0.044 9.6E-07 57.1 6.2 73 182-255 263-339 (626)
64 COG3031 PulC Type II secretory 94.8 0.1 2.2E-06 49.7 7.5 53 204-258 215-268 (275)
65 KOG1320 Serine protease [Postt 94.3 0.15 3.2E-06 53.8 7.9 58 197-256 399-457 (473)
66 KOG3606 Cell polarity protein 94.0 0.1 2.3E-06 50.4 5.6 59 196-255 194-253 (358)
67 KOG3938 RGS-GAIP interacting p 93.0 0.14 3.1E-06 49.4 4.7 72 180-255 137-210 (334)
68 KOG0606 Microtubule-associated 92.4 0.18 3.9E-06 57.6 5.2 53 199-252 661-713 (1205)
69 cd07020 Clp_protease_NfeD_1 No 90.8 1.4 3.1E-05 40.9 8.8 69 301-396 14-85 (187)
70 PF12812 PDZ_1: PDZ-like domai 90.2 0.42 9.1E-06 37.9 4.0 42 198-241 32-73 (78)
71 KOG3605 Beta amyloid precursor 90.2 0.21 4.6E-06 53.7 2.9 47 199-245 759-805 (829)
72 KOG3834 Golgi reassembly stack 89.9 0.74 1.6E-05 47.5 6.3 70 196-267 15-85 (462)
73 KOG3834 Golgi reassembly stack 89.0 0.89 1.9E-05 46.9 6.2 83 182-267 94-179 (462)
74 COG0750 Predicted membrane-ass 88.5 0.89 1.9E-05 46.8 6.1 53 200-254 133-188 (375)
75 cd07015 Clp_protease_NfeD Nodu 86.5 3.8 8.3E-05 37.7 8.3 70 300-396 13-85 (172)
76 COG1030 NfeD Membrane-bound se 86.1 5.2 0.00011 41.9 9.8 62 286-348 25-87 (436)
77 KOG1738 Membrane-associated gu 84.4 1.5 3.3E-05 47.4 5.1 59 179-241 212-271 (638)
78 cd00394 Clp_protease_like Case 83.0 4.3 9.3E-05 36.3 7.0 68 301-395 12-80 (161)
79 TIGR00706 SppA_dom signal pept 76.8 11 0.00025 35.4 7.9 69 302-395 15-84 (207)
80 cd07016 S14_ClpP_1 Caseinolyti 76.7 4.7 0.0001 36.2 5.0 66 301-395 16-81 (160)
81 PF11874 DUF3394: Domain of un 74.3 5 0.00011 37.2 4.5 38 182-224 113-150 (183)
82 PRK14512 ATP-dependent Clp pro 72.7 23 0.00049 33.3 8.7 82 287-396 23-105 (197)
83 PF01972 SDH_sah: Serine dehyd 70.0 17 0.00038 35.8 7.4 72 302-406 77-148 (285)
84 PRK12553 ATP-dependent Clp pro 66.0 27 0.00059 33.0 7.8 70 299-395 46-116 (207)
85 COG0616 SppA Periplasmic serin 65.4 13 0.00028 37.7 5.7 69 303-396 83-152 (317)
86 cd07013 S14_ClpP Caseinolytic 64.5 18 0.00039 32.7 6.0 69 300-395 12-81 (162)
87 cd07014 S49_SppA Signal peptid 64.1 22 0.00047 32.5 6.6 71 301-395 23-94 (177)
88 PF00574 CLP_protease: Clp pro 61.0 14 0.00031 33.8 4.8 82 287-396 16-98 (182)
89 cd07017 S14_ClpP_2 Caseinolyti 58.2 32 0.0007 31.3 6.6 68 301-395 22-90 (171)
90 cd07023 S49_Sppa_N_C Signal pe 57.4 43 0.00092 31.4 7.5 70 301-394 18-88 (208)
91 cd07022 S49_Sppa_36K_type Sign 50.8 96 0.0021 29.2 8.8 79 301-409 26-105 (214)
92 KOG2921 Intramembrane metallop 47.9 19 0.0004 37.2 3.4 35 197-231 221-256 (484)
93 PRK00277 clpP ATP-dependent Cl 42.0 84 0.0018 29.5 6.7 67 300-393 43-110 (200)
94 cd07019 S49_SppA_1 Signal pept 41.4 83 0.0018 29.6 6.7 69 302-394 23-92 (211)
95 TIGR00493 clpP ATP-dependent C 39.4 97 0.0021 28.8 6.7 67 301-394 39-106 (191)
96 PRK12551 ATP-dependent Clp pro 39.1 77 0.0017 29.7 5.9 80 287-394 25-105 (196)
97 COG5233 GRH1 Peripheral Golgi 34.6 22 0.00048 35.6 1.6 33 197-229 64-96 (417)
98 cd07041 STAS_RsbR_RsbS_like Su 34.2 96 0.0021 25.4 5.3 45 287-331 9-55 (109)
99 KOG1421 Predicted signaling-as 33.6 93 0.002 34.6 6.1 55 196-253 862-917 (955)
100 TIGR03043 PS_II_psbZ photosyst 31.4 40 0.00086 25.2 2.1 25 46-70 7-31 (58)
101 CHL00082 psbZ photosystem II p 30.7 41 0.00089 25.4 2.1 25 46-70 10-34 (62)
102 PRK02576 psbZ photosystem II r 30.6 41 0.00088 25.4 2.1 24 46-69 10-33 (62)
103 TIGR00705 SppA_67K signal pept 28.3 3.8E+02 0.0083 29.6 10.1 95 286-409 307-410 (584)
104 PF04343 DUF488: Protein of un 26.5 72 0.0016 27.1 3.3 29 305-334 2-34 (122)
105 COG4702 Uncharacterized conser 25.8 72 0.0016 28.7 3.1 37 291-327 20-56 (168)
106 cd07043 STAS_anti-anti-sigma_f 25.7 2.2E+02 0.0047 22.3 5.9 53 288-340 8-61 (99)
107 PF03921 ICAM_N: Intercellular 25.6 29 0.00062 28.4 0.5 7 3-9 20-26 (91)
108 KOG4371 Membrane-associated pr 24.6 63 0.0014 37.5 3.1 57 177-236 1254-1311(1332)
109 PF07005 DUF1537: Protein of u 23.7 4.1E+02 0.009 24.8 8.3 104 286-397 3-117 (223)
110 PF01740 STAS: STAS domain; I 23.3 2.2E+02 0.0048 23.4 5.7 65 287-351 8-85 (117)
111 PRK14513 ATP-dependent Clp pro 22.3 2.9E+02 0.0062 26.0 6.7 80 287-394 27-107 (201)
112 TIGR02886 spore_II_AA anti-sig 21.8 2.3E+02 0.0051 22.8 5.4 47 287-333 7-55 (106)
113 PRK10949 protease 4; Provision 21.4 3.7E+02 0.008 29.9 8.3 86 286-395 325-419 (618)
114 PF10779 XhlA: Haemolysin XhlA 21.3 75 0.0016 24.5 2.1 20 32-51 46-65 (71)
115 PRK11778 putative inner membra 20.6 7.7E+02 0.017 25.2 9.7 45 372-421 154-198 (330)
116 CHL00028 clpP ATP-dependent Cl 20.2 2.5E+02 0.0055 26.3 5.8 80 287-394 30-110 (200)
No 1
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=100.00 E-value=1.5e-62 Score=506.31 Aligned_cols=360 Identities=39% Similarity=0.650 Sum_probs=303.9
Q ss_pred chHHHHHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhc-cccChHHHHHHHHHHHHhcCCCceeecChHHhhhhh---
Q 012084 100 TNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS-SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA--- 175 (471)
Q Consensus 100 ~~~~~f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~-~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~--- 175 (471)
++.++|+++|+.++++|||+. |+++||++++++|++. .+.++.+++.++++|+++|+|+|++|++++++..+.
T Consensus 4 ~~~~~f~e~w~~v~~~~~d~~---~~g~dW~~~~e~y~~~~~~~~~~~~~~~i~~ml~~L~D~hs~y~~~~~~~~~~~~~ 80 (389)
T PLN00049 4 EENLLFLEAWRTVDRAYVDKT---FNGQSWFRYRENALKNEPMNTREETYAAIRKMLATLDDPFTRFLEPEKFKSLRSGT 80 (389)
T ss_pred cHHHHHHHHHHHHHHHHcCcc---ccccCHHHHHHHHhhccCCCcHHHHHHHHHHHHhhCCCCcccCcCHHHHHHHHHhc
Confidence 688999999999999999986 8999999999999864 467888999999999999999999999998876432
Q ss_pred cccceeeeEEEEEeeCCCC-ceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEc
Q 012084 176 RYDMSGIGINLREVPDANG-VVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (471)
Q Consensus 176 ~~~~~giG~~~~~~~d~~g-~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r 254 (471)
++.+.|||+.+......++ ..+++|..|.++|||+++||++||+|++|||+++.+++..++..+++|..|+.|.|+|.|
T Consensus 81 ~~~~~GiG~~~~~~~~~~~~~~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~r 160 (389)
T PLN00049 81 KGAVTGVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRR 160 (389)
T ss_pred cCCceEEEEEEEEccCCCCccCcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEEE
Confidence 5678899999876322111 126889999999999999999999999999999998877778888899999999999998
Q ss_pred CCCCCeeEEEEeeeeeeeccceeeeee---ccCCCCeEEEEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCcc
Q 012084 255 GNCGPIESIQVQRQLVARTPVFYRLEH---LDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGL 331 (471)
Q Consensus 255 ~~~~~~~~v~l~r~~~~~~~v~~~~~~---~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~ 331 (471)
++ ...++++.|..+..+++.++... .+.++++||||+|++|...+.+++.+++++++++++++||||||+|+||.
T Consensus 161 ~g--~~~~~~l~r~~v~~~~v~~~~~~~~~~~~~~~~IgYi~i~~F~~~~~~~~~~~l~~l~~~~~~glIlDLR~N~GG~ 238 (389)
T PLN00049 161 GP--ETRLVTLTREKVSLNPVKSRLCEVPGPGAGSPKIGYIKLTTFNQNASSAVKEAIETLRANGVDAFVLDLRDNSGGL 238 (389)
T ss_pred CC--EEEEEEEEeeeEeccceeeEEEeeccccCCCCCEEEEEeccccchhHHHHHHHHHHHHHCCCCEEEEEcCCCCCCC
Confidence 65 46778888888777777665432 13345689999999999888899999999999999999999999999999
Q ss_pred HHHHHHHHhhcccCCceEEEEeccCcccceeEecCCC--CCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCC
Q 012084 332 VQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNS--PLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (471)
Q Consensus 332 ~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~--~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G 409 (471)
+..+..++++|++++. +.+...+.+.. ..+..... ..+.+|++||||+.||||||+|+.+||+++++++||++|+|
T Consensus 239 ~~~a~~ia~~f~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~PvvVLvn~~TaSasEi~a~alk~~~~~~vvG~~T~G 316 (389)
T PLN00049 239 FPAGIEIAKLWLDKGV-IVYIADSRGVR-DIYDADGSSAIATSEPLAVLVNKGTASASEILAGALKDNKRAVVLGEPTFG 316 (389)
T ss_pred HHHHHHHHHHhcCCCc-EEEEecCCCce-eEEecCCCccccCCCCEEEEECCCCccHHHHHHHHHhhCCCeEEEecCCcC
Confidence 9999999999999886 44443333221 12222222 24679999999999999999999999999999999999999
Q ss_pred CceeceEEECCCCCEEEEEEEEEEcCCCCcccCCcccCcEEcCCChHHHHHHHhhcc
Q 012084 410 KGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLPAWNDVTKHLSQCT 466 (471)
Q Consensus 410 ~g~~~~~~~L~~g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~~t~~d~~~~l~~~~ 466 (471)
++..|..+.|+||+.+++|+++|++|+|..+|+.||+||+.|...+....+.+-.|-
T Consensus 317 kg~~q~~~~L~dG~~l~lt~~~~~~p~G~~ie~~Gi~PDi~v~~~~~~~~~~~~~~~ 373 (389)
T PLN00049 317 KGLIQSVFELSDGSGLAVTVARYQTPAGTDIDKVGITPDHPLPESLPKDEEAFCGCL 373 (389)
T ss_pred CcccceeEEeCCCCEEEEEEEEEECCCCCCcCCCCcCCCeECCCCCCcchHHHHHHh
Confidence 999999999999999999999999999999999999999999866655555554443
No 2
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=9.8e-59 Score=477.34 Aligned_cols=309 Identities=37% Similarity=0.564 Sum_probs=276.4
Q ss_pred cChHHHHHHHHHHHHhcCCCceeecChHHhhhhh---cccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCC
Q 012084 142 QTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGD 218 (471)
Q Consensus 142 ~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~---~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD 218 (471)
.+...++.+++.|+++|.|||+.|+++++++.+. ++++.|+|+.+....+ + .+.|.++++++||++|||++||
T Consensus 59 ~~~~l~~~ai~g~ls~l~Dp~s~y~~~e~~~~~~~~~~~~~~GiG~~i~~~~~--~--~~~V~s~~~~~PA~kagi~~GD 134 (406)
T COG0793 59 DSDKLFEGAIEGMLSSLGDPHSTYLDPEDAAEFRTDTSGEFGGIGIELQMEDI--G--GVKVVSPIDGSPAAKAGIKPGD 134 (406)
T ss_pred cHHHHHHHHHHHHHHhcCCCcccccCHHHHHHhhhhccccccceeEEEEEecC--C--CcEEEecCCCChHHHcCCCCCC
Confidence 4556788999999999999999999999877643 5678999999987321 3 6889999999999999999999
Q ss_pred EEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchh
Q 012084 219 EVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN 298 (471)
Q Consensus 219 ~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~ 298 (471)
+|++|||+++.++...++...++|++|+.|+|++.|.+..+..++++.|+.+....+.+.....+.+++.||||||++|+
T Consensus 135 ~I~~IdG~~~~~~~~~~av~~irG~~Gt~V~L~i~r~~~~k~~~v~l~Re~i~l~~v~~~~~~~~~~~~~IGyI~I~~F~ 214 (406)
T COG0793 135 VIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRAGGGKPFTVTLTREEIELEDVAAKEKVEEGGKGRIGYIRIPSFG 214 (406)
T ss_pred EEEEECCEEccCCCHHHHHHHhCCCCCCeEEEEEEEcCCCceeEEEEEEEEEeccceeeeeeeecCCCceEEEEEecccc
Confidence 99999999999998888889999999999999999976667889999999988777766533334445569999999999
Q ss_pred hhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEE
Q 012084 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (471)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VL 378 (471)
..+.++|+.++++|+++++++||||||+|+||.++++..++.+|++++ .+.++.+|.+.....+.......+++|++||
T Consensus 215 ~~~~~~~~~al~~L~~~~~~GlIlDLR~N~GG~L~~av~i~~~f~~~g-~iv~~~~r~g~~~~~~~~~~~~~~~~PlvvL 293 (406)
T COG0793 215 EGTYEDLEKALDELKKQGAKGLILDLRNNPGGLLSQAVKLAGLFLPSG-PIVSTRGRNGKVNVYFSASGEALYDGPLVVL 293 (406)
T ss_pred cchHHHHHHHHHHHHhcCCcEEEEEeCCCCCccHHHHHHHHHcccCCC-cEEEEecCCCceeeccccccccCCCCCEEEE
Confidence 999999999999999999999999999999999999999999999996 6888888888655555555555788999999
Q ss_pred ECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCCCCEEEEEEEEEEcCCCCcccCCcccCcEEcCCCh
Q 012084 379 VNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLPAW 455 (471)
Q Consensus 379 vd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~~t~ 455 (471)
||++||||||+||.+||+++||+|||++|+|+|++|..++|+||+.+++|+++|++|+|+.+|++||.|||.|+.+.
T Consensus 294 vn~~SASAsEI~agalqd~~ra~lVG~~TfGkg~vQ~~~~L~dg~~lklT~a~yytp~G~~i~~~GI~PDI~v~~~~ 370 (406)
T COG0793 294 VNEGSASASEIFAGALQDYGRATLVGETTFGKGTVQTLRPLSDGSALKLTIAKYYTPSGRSIEGKGITPDIEVPQAD 370 (406)
T ss_pred ECCCCccHHHHHHHHHHHcCCcEEEecccccceEEEeeEEcCCCCeEEEEEEEEECCCCccccccCcCCCEeccCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998874
No 3
>PRK11186 carboxy-terminal protease; Provisional
Probab=100.00 E-value=3.2e-55 Score=471.30 Aligned_cols=349 Identities=25% Similarity=0.379 Sum_probs=283.5
Q ss_pred hhcccchHHHHHHHHH-HHHhhcccCCCCCCChhhHHHHHH----HHhh---c--cccChHHHHHHHHHHHHhcCCCcee
Q 012084 95 QVVAKTNEGIVEEAWQ-IVNDSFLDTGRHRWTPQNWQRKRE----DILS---S--SIQTRSKAHGIIKRMLASLGDPYTR 164 (471)
Q Consensus 95 ~~~~~~~~~~f~~vw~-~v~~~y~d~~~~~~~~~dW~~~~e----~~~~---~--~~~~~~~~~~~i~~ml~~L~D~Ht~ 164 (471)
..-+....+.++++|+ .++..|++.. |++.+|+++++ .|.. . ..+....++.+++.|+.++ ||||.
T Consensus 150 ~~~w~~~~~el~~~W~k~vk~~~l~~~---~~g~~w~~i~~~l~krY~~~l~~~~~~~~~d~~~~~i~~m~~~l-DphT~ 225 (667)
T PRK11186 150 KAPWPKDEAELNELWDQRVKYDALNLK---LTGKTWPEIKETLTKRYNFAIKRLTQTNSEDVFQLAMNAFAREI-DPHTS 225 (667)
T ss_pred cCCCcCCHHHHHHHHHHHHHHHHhhhh---hcCCCHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHhCC-CCCcc
Confidence 3445578889999999 6999999865 78999999884 3422 1 1223444888899999998 99999
Q ss_pred ecChHHhhhh---hcccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhc-CCCCCCEEEEEC--CE---EcCCCCHHH
Q 012084 165 FLSPAEFSKM---ARYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSA-GVRQGDEVLAVN--GV---DVRGKSAFE 235 (471)
Q Consensus 165 ~l~~~~~~~~---~~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~a-Gl~~GD~Il~In--G~---~v~~~~~~~ 235 (471)
|++|.+++.+ ..+.+.|||+.+.. .++ .++|.+|++||||+++ ||++||+|++|| |. ++.++..++
T Consensus 226 Y~sp~e~e~f~~~~~~~~~GIGa~l~~---~~~--~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~ 300 (667)
T PRK11186 226 YLSPRNAEQFNTEMNLSLEGIGAVLQM---DDD--YTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDD 300 (667)
T ss_pred ccChHHHHHhhhccCCceeEEEEEEEE---eCC--eEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHH
Confidence 9999987543 24568899999976 233 6889999999999998 999999999999 54 455777788
Q ss_pred HHHhhCCCCCcEEEEEEEcCC-CCCeeEEEEeeeeeeec--cceeeeeeccCCCCeEEEEEeCchhhhHHHHHHHHHHHH
Q 012084 236 VSSLLQGPSETFVTIEVKHGN-CGPIESIQVQRQLVART--PVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRL 312 (471)
Q Consensus 236 ~~~ll~g~~g~~v~l~v~r~~-~~~~~~v~l~r~~~~~~--~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l 312 (471)
+..+++|+.|++|+|+|.|++ .+...++++.|..+... ++...+ .+.++++||||+|++|.....+++.+++.++
T Consensus 301 vv~lirG~~Gt~V~LtV~r~~~~~~~~~vtl~R~~i~l~~~~~k~~v--~~~~~~kIGYI~I~sF~~~~~~d~~~~l~~l 378 (667)
T PRK11186 301 VVALIKGPKGSKVRLEILPAGKGTKTRIVTLTRDKIRLEDRAVKMSV--KTVGGEKVGVLDIPGFYVGLTDDVKKQLQKL 378 (667)
T ss_pred HHHHhcCCCCCEEEEEEEeCCCCCceEEEEEEeeeecccccceEEEE--EecCCCcEEEEEecccccchHHHHHHHHHHH
Confidence 999999999999999998843 45678899999877543 232222 2334679999999999988889999999999
Q ss_pred HhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECCCCCChHHHHHH
Q 012084 313 QDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVAS 392 (471)
Q Consensus 313 ~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~ 392 (471)
+++++++||||||+|+||++..+..++++|++++..+ ....+.+.............|.+|++||||++||||||+||+
T Consensus 379 ~~~~v~gLIlDLR~NgGG~l~~a~~la~lFi~~g~vv-~~~~~~g~~~~~~~~~~~~~~~gPlvVLVN~~SASASEIfA~ 457 (667)
T PRK11186 379 EKQNVSGIIIDLRGNGGGALTEAVSLSGLFIPSGPVV-QVRDNNGRVRVDSDTDGVVYYKGPLVVLVDRYSASASEIFAA 457 (667)
T ss_pred HHCCCCEEEEEcCCCCCCcHHHHHHHHHHHhcCCceE-EEecCCCceeccccCCcccccCCCEEEEeCCCCccHHHHHHH
Confidence 9999999999999999999999999999999988544 333343332211123344578899999999999999999999
Q ss_pred HHhcCCCeEEEccCCCCCceeceEEECCC--------CCEEEEEEEEEEcCCCCcccCCcccCcEEcCCCh
Q 012084 393 ALHDNCRAVLVGEKTFGKGLIQSVYELHD--------GSGVVVTIGKYVTPNHMDINGNGIEPDYRNLPAW 455 (471)
Q Consensus 393 ~lk~~~~a~vVGe~T~G~g~~~~~~~L~~--------g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~~t~ 455 (471)
+||+++||+|||++|+|+|++|..+.|++ +..+++|+++|++|+|..+++.||+|||.|...+
T Consensus 458 alqd~~ra~vVG~~T~GKGtvQ~~~~L~~~~~~~~~~~G~lk~Tiak~y~p~G~s~q~~GV~PDi~vp~~~ 528 (667)
T PRK11186 458 AMQDYGRALIVGEPTFGKGTVQQHRSLNRIYDQMLRPLGSVQYTIQKFYRINGGSTQRKGVTPDIIFPTGI 528 (667)
T ss_pred HHHhcCCEEEEeccCCCccccccccccccccccccCCCCeeEEEEeEEECCCCCcccCCCCCCCeEcCCCc
Confidence 99999999999999999999998877753 4469999999999999999999999999986543
No 4
>TIGR00225 prc C-terminal peptidase (prc). A C-terminal peptidase with different substrates in different species including processing of D1 protein of the photosystem II reaction center in higher plants and cleavage of a peptide of 11 residues from the precursor form of penicillin-binding protein in E.coli E.coli and H influenza have the most distal branch of the tree and their proteins have an N-terminal 200 amino acids that show no homology to other proteins in the database.
Probab=100.00 E-value=1.1e-53 Score=433.20 Aligned_cols=307 Identities=38% Similarity=0.590 Sum_probs=267.6
Q ss_pred cChHHHHHHHHHHHHhcCCCceeecChHHhhhh---hcccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCC
Q 012084 142 QTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKM---ARYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGD 218 (471)
Q Consensus 142 ~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~---~~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD 218 (471)
.+..+++.++++|+++|+|+|++|++++++... ..+...++|+.+... ++ +++|..|.++|||+++||++||
T Consensus 10 ~~~~~~~~~l~~m~~~l~D~h~~~~~~~~~~~~~~~~~~~~~~lG~~~~~~---~~--~~~V~~V~~~spA~~aGL~~GD 84 (334)
T TIGR00225 10 DETEEIYGAIKGMLASLNDPYTRYLSPETAKSFSETTSGSLEGIGIQVGMD---DG--EIVIVSPFEGSPAEKAGIKPGD 84 (334)
T ss_pred ccHHHHHHHHHHHHHhCCCCCccccCHHHHHHHHHhccCceEEEEEEEEEE---CC--EEEEEEeCCCChHHHcCCCCCC
Confidence 445689999999999999999999999877653 245678899998762 22 7899999999999999999999
Q ss_pred EEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchh
Q 012084 219 EVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN 298 (471)
Q Consensus 219 ~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~ 298 (471)
+|++|||+++.+++..++..++++..|+.+.|++.|++.....++++.+..+..+++..++. +.++++||||+|++|.
T Consensus 85 ~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~R~g~~~~~~v~l~~~~~~~~~v~~~~~--~~~~~~igYi~i~~f~ 162 (334)
T TIGR00225 85 KIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAGKSKPLTFTLKRDRIELQTVKASVK--KVGGKSVGYIRISSFS 162 (334)
T ss_pred EEEEECCEECCCCCHHHHHHhccCCCCCEEEEEEEeCCCCceEEEEEEEEEeeccceEEEEE--cCCCcEEEEEEEEecc
Confidence 99999999999987677778888888999999999987666778888888777777766543 3446789999999999
Q ss_pred hhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEE
Q 012084 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (471)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VL 378 (471)
....+++.+++++|+++++++||||||+|+||++..+..++++|++++ .+.+...|++... .+.......+++|++||
T Consensus 163 ~~~~~~~~~~l~~l~~~~~~~lIiDLR~N~GG~~~~a~~~a~~f~~~~-~~~~~~~~~g~~~-~~~~~~~~~~~~pv~vL 240 (334)
T TIGR00225 163 EHTTEDVKKALDKLEKKNAKGYILDLRGNPGGLLQSAVDISRLFITKG-PIVQTKDRNGSKR-HYKANGRQPYNLPLVVL 240 (334)
T ss_pred cchHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCC-cEEEEEcCCCcce-EEecCCCccCCCCEEEE
Confidence 888899999999998889999999999999999999999999999988 4556666665433 34444455789999999
Q ss_pred ECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCCCCEEEEEEEEEEcCCCCcccCCcccCcEEcCCChHH
Q 012084 379 VNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLPAWND 457 (471)
Q Consensus 379 vd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~~t~~d 457 (471)
||+.|+||||+||++||+++++++||++|+|++..+..+.|++|+.+.+++.++++|+|..+++.||+|||.|.++.+.
T Consensus 241 vn~~TaSaaE~~a~~l~~~~~a~viG~~T~G~~~~~~~~~l~~g~~l~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~~~ 319 (334)
T TIGR00225 241 VNRGSASASEIFAGALQDNGRATIVGEKTFGKGTVQQVRPLNDGSGIKVTIAKYYTPNGGSIHKKGIEPDIVIEQPDDP 319 (334)
T ss_pred ECCCCCcHHHHHHHHHHhCCCeEEEeeCCccCceeeeEEEcCCCCEEEEEEEEEECCCCCCccCcCcCCCEEecCccch
Confidence 9999999999999999999999999999999999899999999999999999999999999999999999999887765
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=4.3e-38 Score=301.83 Aligned_cols=221 Identities=39% Similarity=0.696 Sum_probs=194.0
Q ss_pred HHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCceeecChHHhhhhhcccceee
Q 012084 105 VEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGI 182 (471)
Q Consensus 105 f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~gi 182 (471)
|+++|+.++++|+++ +..+|...++++... ...+..+++.++++|+.+|+|+|+.+.+
T Consensus 1 ~~~~~~~~~~~y~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~D~hs~~~~--------------- 60 (224)
T cd06567 1 FDEAWRLLRENYYDP-----HGVDWDALRDRYVDLLDAVDDRELLAGALNGMLGELGDPHSRYLT--------------- 60 (224)
T ss_pred CHHHHHHHHHHhccc-----chhHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHhCCCCCceeEE---------------
Confidence 578999999999986 578999999999865 4788899999999999999999997754
Q ss_pred eEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeE
Q 012084 183 GINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIES 262 (471)
Q Consensus 183 G~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~~~ 262 (471)
T Consensus 61 -------------------------------------------------------------------------------- 60 (224)
T cd06567 61 -------------------------------------------------------------------------------- 60 (224)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchh-hhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhh
Q 012084 263 IQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN-ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKL 341 (471)
Q Consensus 263 v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~-~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~ 341 (471)
||||+|++|. ....+.+.+++..+++ ++++||||||+|+||++..+..++++
T Consensus 61 --------------------------igYi~i~~f~~~~~~~~~~~~~~~~~~-~~~~lIiDLR~N~GG~~~~a~~l~~~ 113 (224)
T cd06567 61 --------------------------IGYIRIPSFSAESTAEELREALAELKK-GVKGLILDLRNNPGGLLSAAVELASL 113 (224)
T ss_pred --------------------------eEEEEECccCCcchHHHHHHHHHHHHc-CCCEEEEEcCCCCCccHHHHHHHHHH
Confidence 8999999998 6677889999998887 89999999999999999999999999
Q ss_pred cccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCC
Q 012084 342 FLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHD 421 (471)
Q Consensus 342 f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~ 421 (471)
|++++..+.....+...............+.+||+||||+.|+||||+|+++||+++++++||++|+|++..+..+.|++
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~taSaaE~~a~~lk~~~~~~vvG~~T~G~~~~~~~~~l~~ 193 (224)
T cd06567 114 FLPKGKIVVTTRRRGGNETEYVAPGGGSLYDGPLVVLVNEGSASASEIFAGALQDLGRATLVGERTFGKGSVQTVFPLLD 193 (224)
T ss_pred hcCCCcEEEEEecCCCceeEEecCCCCcccCCCEEEEECCCCccHHHHHHHHHHhCCCeEEEeeCCCCCCcceEEEEcCC
Confidence 99988665554333321122223344557889999999999999999999999999999999999999999889999999
Q ss_pred CCEEEEEEEEEEcCCCCcccCCcccCcEEcC
Q 012084 422 GSGVVVTIGKYVTPNHMDINGNGIEPDYRNL 452 (471)
Q Consensus 422 g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~ 452 (471)
|+.+.+|..++++|+|..+|+.||.|||.|.
T Consensus 194 g~~~~~~~~~~~~~~g~~~~~~Gv~PDi~v~ 224 (224)
T cd06567 194 GSALKLTTAKYYTPSGRSIEGKGVEPDIEVP 224 (224)
T ss_pred CCEEEEEEEEEECCCCCCccCCccCCCEECC
Confidence 9999999999999999999999999999873
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=2.3e-38 Score=311.43 Aligned_cols=247 Identities=23% Similarity=0.332 Sum_probs=192.4
Q ss_pred chHHHHHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCceeecChHHhhhhhcc
Q 012084 100 TNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARY 177 (471)
Q Consensus 100 ~~~~~f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~ 177 (471)
++.++|+++|++++++|+++. +++.||++++++|++. .++++.+++.++++|+++|+|+|+++.... +
T Consensus 1 ~~~~~fd~~w~~~~~~y~~~~---~~g~dW~~~~~~y~~~~~~~~~~~e~~~~l~~ml~~L~d~H~~~~~~~-~------ 70 (266)
T cd07562 1 EWLQMFDEAWRLVRDNFYDPD---MHGVDWDAVRAEYRPLLPRAATRAELADVLNEMLGELNDSHTGVSGLR-Y------ 70 (266)
T ss_pred CHHHHHHHHHHHHHhhccCCC---CCCCCHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHcCCccchHHHH-H------
Confidence 367899999999999999986 8999999999999874 578999999999999999999999765300 0
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCC
Q 012084 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (471)
Q Consensus 178 ~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~ 257 (471)
.+ .+. ++
T Consensus 71 --------------------------------------------------------~~---~~~------------~~-- 77 (266)
T cd07562 71 --------------------------------------------------------RD---WVE------------SN-- 77 (266)
T ss_pred --------------------------------------------------------HH---HHH------------HH--
Confidence 00 000 00
Q ss_pred CCeeEEEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchhhhHHHHHHHHHHHHHhc-CCcEEEEeccCCCCccHHHHH
Q 012084 258 GPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGI 336 (471)
Q Consensus 258 ~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~ 336 (471)
...+ .+ ..+++||||+|++|... .+.++++++... .+++||||||+|+||++ +.
T Consensus 78 --------------~~~~-~~-----~~~~~igYi~i~~~~~~---~~~~~~~~~~~~~~~~glIiDlR~N~GG~~--~~ 132 (266)
T cd07562 78 --------------REYV-EE-----LSDGRIGYVHIPDMGDD---GFAEFLRDLLAEVDKDGLIIDVRFNGGGNV--AD 132 (266)
T ss_pred --------------HHHH-HH-----hcCCcEEEEEeCCCChH---HHHHHHHHHHhcCCCceEEEEecCCCCCcH--HH
Confidence 0000 00 11379999999999643 355555555442 28999999999999994 34
Q ss_pred HHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceE
Q 012084 337 EIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSV 416 (471)
Q Consensus 337 ~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~ 416 (471)
.++++|... .+.+...|...... ..+...+++|++||||+.|+||||+|+.+||+++++++||++|+|++..+..
T Consensus 133 ~l~~~~~~~--~~~~~~~r~~~~~~---~~p~~~~~~pv~vL~~~~t~SaaE~~a~~lk~~~~~~vvG~~T~G~~~~~~~ 207 (266)
T cd07562 133 LLLDFLSRR--RYGYDIPRGGGKPV---TYPSGRWRGPVVVLVNEGSASDAEIFAYGFRALGLGPVVGTRTAGGVIISGR 207 (266)
T ss_pred HHHHHhCCC--ceEEEccCCCCCCC---CCcccccCCCEEEEECCCCCchHHHHHHHHHHcCCeeEEeeccCCceeecCc
Confidence 677777654 34555555511111 1112237899999999999999999999999999999999999999988888
Q ss_pred EECCCCCEEEEEEEEEEcCCCCcccCCcccCcEEcCCChHHHH
Q 012084 417 YELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLPAWNDVT 459 (471)
Q Consensus 417 ~~L~~g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~~t~~d~~ 459 (471)
+.||+|+.+.+|...+++++|..+|+.||.|||.|.++.+|+.
T Consensus 208 ~~L~~g~~~~~~~~~~~~~~g~~~e~~Gi~PDi~v~~~~~~~~ 250 (266)
T cd07562 208 YRLPDGGSLTVPEFGVYLPDGGPLENRGVAPDIEVENTPEDVA 250 (266)
T ss_pred eecCCCCEEEeeceeEEcCCCCccccCCCCCCEEecCCHhHhh
Confidence 9999999999999999999999999999999999999988754
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=5.6e-36 Score=291.99 Aligned_cols=226 Identities=25% Similarity=0.314 Sum_probs=190.8
Q ss_pred HHHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhc---cccChHHHHHHHHHHHHhcCCCceeecChHHhhhhhcccce
Q 012084 104 IVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS---SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMS 180 (471)
Q Consensus 104 ~f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~---~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~ 180 (471)
.|+.+|+.++++|.++. +.+.+|.++++++++. ...+..+++..+.+||.+|+|+|+.+..
T Consensus 1 ~~~~~~~~~~~~Y~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~l~D~H~~~~~------------- 64 (250)
T cd07563 1 VFEALAKLLEENYAFPE---AKGIDWDALAARLRAQVYLDITSPEELAAVLTADLQELGDGHLNVSY------------- 64 (250)
T ss_pred CHHHHHHHHHHhCCChH---HcccHHHHHHHHHhccccccCCCHHHHHHHHHHhhhccCCCcEEEEE-------------
Confidence 38899999999999876 5678999999999864 3578999999999999999999996532
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCe
Q 012084 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPI 260 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~ 260 (471)
T Consensus 65 -------------------------------------------------------------------------------- 64 (250)
T cd07563 65 -------------------------------------------------------------------------------- 64 (250)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred eEEEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchhh----hHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHH
Q 012084 261 ESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNA----LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGI 336 (471)
Q Consensus 261 ~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~----~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~ 336 (471)
||||+|++|.. ...+.++++++.+++ .++||||||+|+||+...+.
T Consensus 65 ----------------------------IgYl~i~~f~~~~~~~~~~~~~~~~~~l~~--~~~LIIDLR~N~GG~~~~~~ 114 (250)
T cd07563 65 ----------------------------IGYLRIDSFGGFEIAAAEALLDEALDKLAD--TDALIIDLRYNGGGSDSLVA 114 (250)
T ss_pred ----------------------------eEEEEEcccCChhhhhhHHHHHHHHHHhcC--CCeEEEEECCCCCCCHHHHH
Confidence 89999999986 356778888988875 59999999999999999999
Q ss_pred HHHhhcccCCceEEE--EeccCcccce-----eEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCC
Q 012084 337 EIAKLFLNEGETITY--TVGRDPQYQK-----TIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (471)
Q Consensus 337 ~la~~f~~~~~~~~~--~~~r~~~~~~-----~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G 409 (471)
.++++|++++..+.+ ...|...... ...+.....+++||+||||+.|+||||+|+++||+++++++||++|+|
T Consensus 115 ~l~s~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~T~SaaE~~a~~lk~~~~~~viGe~T~G 194 (250)
T cd07563 115 YLASYFTDEDKPVHLYTIYKRPGNTTTELWTLPVVPGGRYGYTKPVYVLTSPVTFSAAEEFAYALKQLKRATVVGETTAG 194 (250)
T ss_pred HHHHHcCCCCCcEEEEEEEECCCCCCcccceeeecCCCcccCCCCEEEEeCCCcCcHHHHHHHHHHhCCCcEEEeecCCC
Confidence 999999965443332 2223222111 112233456889999999999999999999999999999999999999
Q ss_pred CceeceEEECCCCCEEEEEEEEEEcCC-CCcccCCcccCcEEcCCCh
Q 012084 410 KGLIQSVYELHDGSGVVVTIGKYVTPN-HMDINGNGIEPDYRNLPAW 455 (471)
Q Consensus 410 ~g~~~~~~~L~~g~~l~~t~~~~~~~~-g~~~e~~GV~PDi~v~~t~ 455 (471)
++..+..+.||+|+.+.+|..++++|+ |..+|+.||.|||.|..+.
T Consensus 195 ~~~~~~~~~Lp~g~~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~~~ 241 (250)
T cd07563 195 GASPVLPFPLPNGLYLTVPTSRSVDPITGTNWEGVGVPPDIEVPATP 241 (250)
T ss_pred CCCCceEEEcCCCeEEEEecceeEeCCCCCcccccCcCCCeeecCCC
Confidence 998889999999999999999999998 9999999999999997754
No 8
>smart00245 TSPc tail specific protease. tail specific protease
Probab=100.00 E-value=3e-35 Score=275.60 Aligned_cols=189 Identities=40% Similarity=0.593 Sum_probs=159.2
Q ss_pred eEEEEeeeeeeeccceeeeeeccCCCCeEEEEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHh
Q 012084 261 ESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAK 340 (471)
Q Consensus 261 ~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~ 340 (471)
.++.+.|+.+..+++.+.+.... .++||||+|++|...+.+++++++++|++.++++||||||+|+||.+..+..+++
T Consensus 4 ~~~~~~r~~~~~~~~~~~~~~~~--~~~igYi~i~~f~~~~~~~~~~~~~~l~~~~~~~lIiDLR~N~GG~~~~~~~~~~ 81 (192)
T smart00245 4 RTIALIRAKIKIETLEGNVGYLR--FGNIGYIRIPEFSEHTSNLVEKAWKKLEKTNVEGLILDLRNNPGGLLSAAIDVSS 81 (192)
T ss_pred EEEEEEEeEEEeeEEeEEEeecC--CCcEEEEEEeEEChhhHHHHHHHHHHHHhCCCcEEEEEecCCCCCCHHHHHHHHH
Confidence 45667777666666665443221 3689999999999888899999999999989999999999999999999999999
Q ss_pred hcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECC
Q 012084 341 LFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELH 420 (471)
Q Consensus 341 ~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~ 420 (471)
+|++++. +.+...+.......+.......+.+|++||+|+.|+||||+||++||+++++++||++|+|++..+..+.|+
T Consensus 82 ~f~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~TaSaaE~~a~~lk~~~~a~viG~~T~G~~~~~~~~~l~ 160 (192)
T smart00245 82 LFLDKGV-IVYTIYRRTGELETYPANLGRKYSKPLVVLVNEGTASASEIFAGALKDLGRALIVGERTFGKGLVQQTVPLG 160 (192)
T ss_pred HhcCCCc-EEEEEecCCCceEEEecCCCcccCCCEEEEECCCCeeHHHHHHHHHhhCCCEEEEecCCcCCcceeeEEEeC
Confidence 9999874 444444431122233334445668999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEEEEEEEcCCCCcccCCcccCcEEcC
Q 012084 421 DGSGVVVTIGKYVTPNHMDINGNGIEPDYRNL 452 (471)
Q Consensus 421 ~g~~l~~t~~~~~~~~g~~~e~~GV~PDi~v~ 452 (471)
+|+.+++++.++++|+|+.+|+.||+|||+|.
T Consensus 161 ~g~~l~it~~~~~~~~g~~~e~~Gv~PDi~v~ 192 (192)
T smart00245 161 DGSGLKLTVAKYYTPSGKSIEKKGVEPDIQVP 192 (192)
T ss_pred CCCEEEEEEEEEECCCCCEecCCCcCCCEECc
Confidence 99999999999999999999999999999873
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=5e-34 Score=270.75 Aligned_cols=162 Identities=48% Similarity=0.749 Sum_probs=144.7
Q ss_pred EEEEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCC
Q 012084 289 VGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNS 368 (471)
Q Consensus 289 igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~ 368 (471)
||||++++|.....++|.++|++++++++++||||||+|+||++..+..++++|++++ .+.+...|.+... .+.....
T Consensus 50 igYi~i~sf~~~~~~~~~~~l~~~~~~~~~~lIlDLR~N~GG~~~~~~~i~~~f~~~~-~~~~~~~~~g~~~-~~~~~~~ 127 (211)
T cd07560 50 IGYIRITSFSENTAEELKKALKELKKQGMKGLILDLRNNPGGLLDEAVEIADLFLPGG-PIVSTKGRNGKRE-AYASDDG 127 (211)
T ss_pred eEEEEEcccCchhHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCC-eEEEEEecCCceE-EEecCCC
Confidence 7999999999888889999999999888999999999999999999999999999965 4556666654332 2233334
Q ss_pred CCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCCCCEEEEEEEEEEcCCCCcccCCcccCc
Q 012084 369 PLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPD 448 (471)
Q Consensus 369 ~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~g~~l~~t~~~~~~~~g~~~e~~GV~PD 448 (471)
..+.+|++||||+.|+||||+|+++||+++++++||++|+|++..+..+.||||+.+++++.++++|+|..+|+.||+||
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 46889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcC
Q 012084 449 YRNL 452 (471)
Q Consensus 449 i~v~ 452 (471)
|+|.
T Consensus 208 i~V~ 211 (211)
T cd07560 208 IEVP 211 (211)
T ss_pred EECC
Confidence 9873
No 10
>cd07561 Peptidase_S41_CPP_like C-terminal processing peptidase-like; serine protease family S41. Bacterial protease homologs of the S41 family related to C-terminal processing peptidase (CPP). CPP-1 is believed to be important for the degradation of incorrectly synthesized proteins as well as protection from thermal and osmotic stresses. CPP is synthesized with an extension on its carboxyl-terminus and specifically recognizes a C-terminal tripeptide, but cleaves at variable distance from the C-terminus. The CPP active site consists of a serine/lysine catalytic dyad. Conservation of these residues is seen in the CPP-like proteins of this group. CPP proteins contain a PDZ domain that promotes protein-protein interactions and is important for substrate recognition however, most of CPP-like proteins only have an internal fragment or lack the PDZ domain.
Probab=100.00 E-value=6.1e-33 Score=270.39 Aligned_cols=171 Identities=27% Similarity=0.350 Sum_probs=147.6
Q ss_pred CCCeEEEEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccC---CceEEEEeccCcc---
Q 012084 285 GTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNE---GETITYTVGRDPQ--- 358 (471)
Q Consensus 285 ~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~---~~~~~~~~~r~~~--- 358 (471)
.+++||||+|++|...+.+++.+++++|+++++++||||||+|+||.+..+..++++|+++ +..+.+...|+..
T Consensus 62 ~~~~IGYi~i~~F~~~~~~~l~~a~~~l~~~~~~~LIlDLR~N~GG~~~~a~~las~f~~~~~~~~~~~~~~~~~~~~~~ 141 (256)
T cd07561 62 GGKKVGYLVYNSFTSGYDDELNQAFAEFKAQGVTELVLDLRYNGGGLVSSANLLASLLAPAVALGQVFATLEYNDKRSAN 141 (256)
T ss_pred CCCcEEEEEECccccchHHHHHHHHHHHHHcCCCeEEEEeCCCCCccHHHHHHHHHHhcCcccCCCeEEEEEecCCccCC
Confidence 3689999999999988889999999999999999999999999999999999999999983 5556555555432
Q ss_pred -cceeEecC----CCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECC--CCCEEEEEEEE
Q 012084 359 -YQKTIVAD----NSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELH--DGSGVVVTIGK 431 (471)
Q Consensus 359 -~~~~~~~~----~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~--~g~~l~~t~~~ 431 (471)
....+... ......+||+||||+.||||||+|+.+||+++++++||++|+|++.++..+.++ +|+.+++++.+
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~pv~VL~~~~TASAaE~~a~~Lk~~~~a~vIGe~T~Gk~~~~~~~~l~~~~g~~l~~t~~~ 221 (256)
T cd07561 142 NEDLLFSSKTLAGGNSLNLSKVYVLTSGSTASASELVINSLKPYMDVVLIGETTYGKNVGSLTFEDDRKHKWALQPVVFK 221 (256)
T ss_pred CceeecccccccccCcCCcccEEEEECCCcccHHHHHHHHhhccCCEEEEeCCCCCCCccceEEEccCCCCeEEEEEEEE
Confidence 11222222 233446899999999999999999999999999999999999999999999998 89999999999
Q ss_pred EEcCCCCcccCCcccCcEEcCCCh
Q 012084 432 YVTPNHMDINGNGIEPDYRNLPAW 455 (471)
Q Consensus 432 ~~~~~g~~~e~~GV~PDi~v~~t~ 455 (471)
+++|+|..+++.||+||++|..+.
T Consensus 222 ~~~~~G~~~~~~Gi~PDi~v~~~~ 245 (256)
T cd07561 222 VVNADGQGDYSNGLTPDIEVNEDS 245 (256)
T ss_pred EECCCCCCccCCCcCCceEeCccc
Confidence 999999999999999999986543
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=1.6e-30 Score=237.79 Aligned_cols=164 Identities=32% Similarity=0.460 Sum_probs=125.6
Q ss_pred eEEEEEeCchhh--hHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEec---cCccccee
Q 012084 288 SVGYMRLKEFNA--LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVG---RDPQYQKT 362 (471)
Q Consensus 288 ~igYi~i~sF~~--~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~---r~~~~~~~ 362 (471)
+||||+|++|.. ...+.+.+++++++++++++||||||+|+||+...+..++++|.+++....+... +.......
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 689999999954 6788999999999988999999999999999999999999999987643332211 11111111
Q ss_pred EecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCCCCEEEEEEEEEEcCCCCcccC
Q 012084 363 IVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDING 442 (471)
Q Consensus 363 ~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~g~~l~~t~~~~~~~~g~~~e~ 442 (471)
........+++|++||+|+.|+||||+|+++||+++++++||++|+|++..+..+.|++|+.+.++..+++.++|..+|+
T Consensus 81 ~~~~~~~~~~~~v~vL~~~~t~Saae~fa~~lk~~~~~~ivGe~T~G~~~~~~~~~l~~g~~~~i~~~~~~~~~g~~~~~ 160 (169)
T PF03572_consen 81 KWSTPKNRFNGPVYVLTDENTASAAEIFASALKDNKRATIVGEPTAGAGGGQTGFSLPSGSILSIPTSRYYNPDGQKIEG 160 (169)
T ss_dssp EECSSTT-SSSEEEEEE-TTBBTHHHHHHHHHHHTTSEEEEES--SB-EEEEEEEE-TTSEEEEEEEEEEEETTSBBTTT
T ss_pred CCccccccCCCCEEEEeCCCCCChhHHHHHHHHhcCCCeEEeecCCCCCEEeeEEEECCCcEEEeEeEEEEeCCCCEEcC
Confidence 11112567899999999999999999999999999999999999999998888999999999999999999999999999
Q ss_pred CcccCcEEc
Q 012084 443 NGIEPDYRN 451 (471)
Q Consensus 443 ~GV~PDi~v 451 (471)
.||.|||+|
T Consensus 161 ~Gi~PDi~V 169 (169)
T PF03572_consen 161 IGIEPDIEV 169 (169)
T ss_dssp TS---SEE-
T ss_pred CcEEccEEC
Confidence 999999986
No 12
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=99.35 E-value=1.5e-11 Score=119.36 Aligned_cols=181 Identities=13% Similarity=0.173 Sum_probs=125.2
Q ss_pred HHHHHhhhhccCccccccCCCcCCCCCCCCCCCccccC-CccCCCcchhhcccchHHHHHHHHHHHHhhcccCCCCCCCh
Q 012084 48 TGALSFNLLLSSPLALESSSSVQSVPPSPSPSLTCHEG-EDAAESEPRQVVAKTNEGIVEEAWQIVNDSFLDTGRHRWTP 126 (471)
Q Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~f~~vw~~v~~~y~d~~~~~~~~ 126 (471)
++++++++|+++|||+..||..+ +.+.++.|++- +++.|++++++|+......+..+|.-+..+.--..
T Consensus 15 li~~~l~~~~~vPyy~~~PGg~~----d~~~vv~V~g~~~~~~G~l~ltTV~~~~a~l~~~l~a~l~~~~ei~p------ 84 (342)
T COG3480 15 LILAVLAFFVPVPYYIEGPGGEE----DLKQVVKVEGHEDKTSGHLNLTTVSVRDATLITYLYAWLSPQEEIVP------ 84 (342)
T ss_pred HHHHHHHHhccCceEEecCCCcc----ccceeEEecCccCCCCceeEEEEEEcccCcHHHHHHhhhCCceeecc------
Confidence 44556778899999999999888 89999999994 35568999999999998888888877665422101
Q ss_pred hhHHHHHHHHhhccccChHHHHHHHHHHHHhcCCCceeecChHHhhhhhcccceeeeEEEEEeeCCCCceEEEEEEEcCC
Q 012084 127 QNWQRKREDILSSSIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGIGINLREVPDANGVVTLKVLGLILD 206 (471)
Q Consensus 127 ~dW~~~~e~~~~~~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~ 206 (471)
.++..++. .+++++.+.=+.|+..- ++.+....+.+++..+.+.. .+++|..+..+
T Consensus 85 ------~e~i~~~G-~sdee~~~~n~~~m~~S----------q~~A~y~A~~~a~~pv~~~y-------~gvyv~~v~~~ 140 (342)
T COG3480 85 ------REQVTPPG-ESDEEYERRNQFYMETS----------QNAAIYAAYKYAGKPVEVTY-------AGVYVLSVIDN 140 (342)
T ss_pred ------hhhcCCCC-CcHHHHHHHHHHHHHhh----------hhHHHHHHHHHcCCceEEEE-------eeEEEEEccCC
Confidence 23333322 34445544333333211 12233334556777888766 26899999999
Q ss_pred CchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEc-CCCCCeeEEEE
Q 012084 207 GPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKH-GNCGPIESIQV 265 (471)
Q Consensus 207 spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r-~~~~~~~~v~l 265 (471)
||+.. -|+.||.|++|||+++... +++..++.. +.|++|+|+++| ++.....++++
T Consensus 141 ~~~~g-kl~~gD~i~avdg~~f~s~--~e~i~~v~~~k~Gd~VtI~~~r~~~~~~~~~~tl 198 (342)
T COG3480 141 SPFKG-KLEAGDTIIAVDGEPFTSS--DELIDYVSSKKPGDEVTIDYERHNETPEIVTITL 198 (342)
T ss_pred cchhc-eeccCCeEEeeCCeecCCH--HHHHHHHhccCCCCeEEEEEEeccCCCceEEEEE
Confidence 99863 4999999999999999874 666666654 789999999986 44333333333
No 13
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=99.28 E-value=3.5e-12 Score=99.55 Aligned_cols=66 Identities=21% Similarity=0.420 Sum_probs=52.6
Q ss_pred cchHHHHHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCceeecC
Q 012084 99 KTNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLS 167 (471)
Q Consensus 99 ~~~~~~f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~ 167 (471)
.++.++|+++|++++++|+++. +++.||++++++|++. .++++.+++.+|.+|+++|+|+|+++.+
T Consensus 2 ~E~~~~F~~~W~~~~~~f~d~~---~~gvDW~~~~~~Y~p~v~~~~~~~el~~vl~eMl~eL~~~H~~~~~ 69 (70)
T PF14684_consen 2 AEWRQMFDEAWRLVRENFYDPD---MHGVDWDAVYDRYRPLVPAAKTRDELYDVLNEMLGELNDSHTYVYG 69 (70)
T ss_dssp HHHHHHHHHHHHHHHHHSS-HH---HHHHHHHHHHHHHHGGGGG--SHHHHHHHHHHHHHTT--S---EE-
T ss_pred HHHHHHHHHHHHHHHHhcCCCC---CCCCChHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHCCCccCccC
Confidence 4788999999999999999986 8999999999999874 5789999999999999999999998754
No 14
>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=99.28 E-value=1.7e-11 Score=98.68 Aligned_cols=73 Identities=29% Similarity=0.504 Sum_probs=58.8
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhh-CCCCCcEEEEEEEcCCCC
Q 012084 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll-~g~~g~~v~l~v~r~~~~ 258 (471)
++|+.+....+ ..+++|..|.++|||+++||++||+|++|||+++.++ .++...+ +..+|++++|++.|+++.
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 67888876432 1368999999999999999999999999999999775 5665555 789999999999997743
No 15
>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=99.13 E-value=1.2e-09 Score=88.19 Aligned_cols=82 Identities=30% Similarity=0.528 Sum_probs=66.1
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012084 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 179 ~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~ 258 (471)
+.++|+.+.. ++ .+++|..+.++|||+++||++||+|++|||+++.++...++...+....|..+.+++.|+ ++
T Consensus 1 ~~~lG~~~~~---~~--~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~-~~ 74 (85)
T cd00988 1 FGGIGLELKY---DD--GGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRG-DG 74 (85)
T ss_pred CeEEEEEEEE---cC--CeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcC-CC
Confidence 3578888865 22 368999999999999999999999999999999998667777788777788999999887 23
Q ss_pred CeeEEEEe
Q 012084 259 PIESIQVQ 266 (471)
Q Consensus 259 ~~~~v~l~ 266 (471)
...++++.
T Consensus 75 ~~~~~~~~ 82 (85)
T cd00988 75 EPREVTLT 82 (85)
T ss_pred CEEEEEEE
Confidence 44555554
No 16
>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=98.92 E-value=5.3e-09 Score=81.09 Aligned_cols=68 Identities=35% Similarity=0.519 Sum_probs=57.9
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEE
Q 012084 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v 252 (471)
++|+.+.... + .+++|..|.++|||+++||++||+|++|||+++.++...++..+++...|+.++|++
T Consensus 2 ~~G~~~~~~~--~--~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 69 (70)
T cd00136 2 GLGFSIRGGT--E--GGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69 (70)
T ss_pred CccEEEecCC--C--CCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEE
Confidence 5677776521 1 268999999999999999999999999999999999878888889887788888876
No 17
>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=98.91 E-value=5.2e-09 Score=83.83 Aligned_cols=74 Identities=35% Similarity=0.500 Sum_probs=61.1
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 178 ~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
...++|+.+....+.. ...++|.++.++|||+++||++||+|++|||+++.+++..++..+++...+ .++|+|+
T Consensus 8 ~~~~lG~~l~~~~~~~-~~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~~~-~v~L~V~ 81 (81)
T PF00595_consen 8 GNGPLGFTLRGGSDND-EKGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSASN-PVTLTVQ 81 (81)
T ss_dssp TTSBSSEEEEEESTSS-SEEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHSTS-EEEEEEE
T ss_pred CCCCcCEEEEecCCCC-cCCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCCCC-cEEEEEC
Confidence 3457899987744321 247999999999999999999999999999999999998888888876655 7888764
No 18
>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=98.77 E-value=2.9e-08 Score=79.30 Aligned_cols=58 Identities=21% Similarity=0.384 Sum_probs=50.2
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~ 256 (471)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+.+++.|++
T Consensus 11 Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~--~d~~~~l~~~~~g~~v~l~v~r~g 69 (79)
T cd00991 11 GVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTL--EDFMEALKPTKPGEVITVTVLPST 69 (79)
T ss_pred cEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCH--HHHHHHHhcCCCCCEEEEEEEECC
Confidence 68899999999999999999999999999999976 566666654 45889999999876
No 19
>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=98.71 E-value=6.5e-08 Score=77.04 Aligned_cols=66 Identities=30% Similarity=0.360 Sum_probs=50.8
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012084 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (471)
Q Consensus 182 iG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~ 256 (471)
+|+.+.. .++ ++.|..|.++|||+++||++||+|++|||+++.++ .++...+ ..++.+.+++.|++
T Consensus 3 ~G~~~~~---~~~--~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~--~~~l~~~--~~~~~v~l~v~r~g 68 (80)
T cd00990 3 LGLTLDK---EEG--LGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDAL--QDRLKEY--QAGDPVELTVFRDD 68 (80)
T ss_pred ccEEEEc---cCC--cEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHH--HHHHHhc--CCCCEEEEEEEECC
Confidence 4666643 222 68999999999999999999999999999999874 2333222 45778999998865
No 20
>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=98.71 E-value=6.8e-08 Score=76.60 Aligned_cols=58 Identities=22% Similarity=0.384 Sum_probs=49.5
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~ 256 (471)
.++|..|.++|||+++||++||+|++|||+++.++ .++..++....+..+.+++.|++
T Consensus 13 ~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~--~~~~~~l~~~~~~~~~l~v~r~~ 70 (79)
T cd00989 13 EPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSW--EDLVDAVQENPGKPLTLTVERNG 70 (79)
T ss_pred CcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHHCCCceEEEEEEECC
Confidence 47899999999999999999999999999999986 56666665555778999998865
No 21
>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=98.63 E-value=1.4e-07 Score=75.21 Aligned_cols=58 Identities=22% Similarity=0.339 Sum_probs=48.7
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~~ 257 (471)
+++|..|.++|||+. ||++||+|++|||.++.++ .++..++.. ..|..+.+++.|++.
T Consensus 9 Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~~~~~v~l~v~r~g~ 67 (79)
T cd00986 9 GVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEA--EELIDYIQSKKEGDTVKLKVKREEK 67 (79)
T ss_pred CEEEEEECCCCchhh-CCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCCEEEEEEEECCE
Confidence 578999999999986 8999999999999999975 456666653 568889999998764
No 22
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.62 E-value=2.7e-07 Score=74.87 Aligned_cols=75 Identities=25% Similarity=0.418 Sum_probs=53.0
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCC--------CchhhcC--CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEE
Q 012084 182 IGINLREVPDANGVVTLKVLGLILD--------GPAHSAG--VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIE 251 (471)
Q Consensus 182 iG~~~~~~~d~~g~~~~~V~~v~~~--------spA~~aG--l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~ 251 (471)
+|+.+.. +++ ++.|.+++++ ||-.+.| +++||.|++|||+++..- .++..+|.++.|++|.|+
T Consensus 3 LGAd~~~---~~~--~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~--~~~~~lL~~~agk~V~Lt 75 (88)
T PF14685_consen 3 LGADFSY---DNG--GYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTAD--ANPYRLLEGKAGKQVLLT 75 (88)
T ss_dssp -SEEEEE---ETT--EEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTT--B-HHHHHHTTTTSEEEEE
T ss_pred cceEEEE---cCC--EEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCC--CCHHHHhcccCCCEEEEE
Confidence 6777776 233 7889999986 7777888 579999999999999974 467889999999999999
Q ss_pred EEcCCCCCeeEEE
Q 012084 252 VKHGNCGPIESIQ 264 (471)
Q Consensus 252 v~r~~~~~~~~v~ 264 (471)
|.+.+. ..+++.
T Consensus 76 v~~~~~-~~R~v~ 87 (88)
T PF14685_consen 76 VNRKPG-GARTVV 87 (88)
T ss_dssp EE-STT--EEEEE
T ss_pred EecCCC-CceEEE
Confidence 998764 445554
No 23
>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=98.59 E-value=2.2e-07 Score=74.04 Aligned_cols=71 Identities=37% Similarity=0.510 Sum_probs=54.8
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEE
Q 012084 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (471)
Q Consensus 179 ~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v 252 (471)
..++|+.+....+. ..+++|..+.++|||+++||++||+|++|||+++.+++..++...++...+ .++|++
T Consensus 11 ~~~~G~~~~~~~~~--~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 11 GGGLGFSLRGGKDS--GGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCCcCEEEeCcccC--CCCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 35678877642211 135899999999999999999999999999999998777888888875443 566654
No 24
>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=98.55 E-value=4.3e-07 Score=72.58 Aligned_cols=73 Identities=33% Similarity=0.478 Sum_probs=56.1
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
..+|+.+...... ..+++|..|.++|||+++||++||+|++|||+++.+++..+....+... +..+.|++.|+
T Consensus 12 ~~~G~~~~~~~~~--~~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~ 84 (85)
T smart00228 12 GGLGFSLVGGKDE--GGGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRG 84 (85)
T ss_pred CcccEEEECCCCC--CCCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeC
Confidence 5678877542111 0369999999999999999999999999999999988766665555543 45888888764
No 25
>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=98.43 E-value=9.4e-07 Score=71.71 Aligned_cols=58 Identities=31% Similarity=0.414 Sum_probs=48.2
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~ 256 (471)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..+..+.+++.|++
T Consensus 25 g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~--~~~~~~l~~~~~~~~i~l~v~r~g 83 (90)
T cd00987 25 GVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSV--ADLRRALAELKPGDKVTLTVLRGG 83 (90)
T ss_pred EEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECC
Confidence 68899999999999999999999999999999986 345445543 34788999998865
No 26
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=98.35 E-value=2.2e-06 Score=89.05 Aligned_cols=135 Identities=16% Similarity=0.267 Sum_probs=92.8
Q ss_pred hHHHHHHHHHHHHhhcccCCCCCCChhhHHHHHHHHhhccccChHHHHHHHHHHHHhcCCCce-eecChHHhhhhh-ccc
Q 012084 101 NEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSSIQTRSKAHGIIKRMLASLGDPYT-RFLSPAEFSKMA-RYD 178 (471)
Q Consensus 101 ~~~~f~~vw~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~~~~~~~~~~~~i~~ml~~L~D~Ht-~~l~~~~~~~~~-~~~ 178 (471)
++..+|++++.|++.+-. .++++.+++|+++++.+.. .+....+++++.+-.++-. .++.+....... ..+
T Consensus 377 ~~~SLDdvmram~~~~~~-~~~~~t~e~v~av~~~~tg------~dl~~f~~~~i~~~~~~~l~~~l~~~gL~~~~~~~~ 449 (558)
T COG3975 377 GQKSLDDVMRALWKEFGR-AERGYTPEDVQAVLENVTG------LDLATFFDEYIEGTEPPPLNPLLERFGLTFTPKPRE 449 (558)
T ss_pred CcccHHHHHHHHHHHhCc-CccCCCHHHHHHHHHhhcc------ccHHHHHHHHhhcCCCCChhhhhhhcceEEEecCCC
Confidence 377999999999998876 4578999999999998865 2344456666665544321 111111110000 112
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012084 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (471)
Q Consensus 179 ~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~ 256 (471)
..++|+.+.. ++| +.+|+.|.++|||++|||.+||+|++|||.+- ++.+-+.+..+++++.|.+
T Consensus 450 ~~~LGl~v~~---~~g--~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~s~---------~l~~~~~~d~i~v~~~~~~ 513 (558)
T COG3975 450 AYYLGLKVKS---EGG--HEKITFVFPGGPAYKAGLSPGDKIVAINGISD---------QLDRYKVNDKIQVHVFREG 513 (558)
T ss_pred CcccceEecc---cCC--eeEEEecCCCChhHhccCCCccEEEEEcCccc---------cccccccccceEEEEccCC
Confidence 4578888765 333 67899999999999999999999999999911 1223366788888887755
No 27
>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=98.23 E-value=4.7e-06 Score=81.63 Aligned_cols=73 Identities=21% Similarity=0.164 Sum_probs=55.4
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012084 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~~ 257 (471)
.+|+...... +...++.|..+.++|||+++||++||+|++|||+++.++ .++..++.. ..++.++|+|.|++.
T Consensus 178 ~lgi~p~~~~--g~~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~--~~~~~~l~~~~~~~~v~l~V~R~G~ 251 (259)
T TIGR01713 178 YIRLSPVMKN--DKLEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP--EQAFQALQMLREETNLTLTVERDGQ 251 (259)
T ss_pred eEeEEEEEeC--CceeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCeEEEEEEECCE
Confidence 4555554321 112478999999999999999999999999999999986 444444443 467889999999873
No 28
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.17 E-value=3e-06 Score=89.68 Aligned_cols=66 Identities=20% Similarity=0.119 Sum_probs=52.2
Q ss_pred EEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhh-CCCCCcEEEEEEEcCCCCCeeEEEE
Q 012084 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCGPIESIQV 265 (471)
Q Consensus 198 ~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll-~g~~g~~v~l~v~r~~~~~~~~v~l 265 (471)
.+|..|.++|||++|||++||+|++|||+++.++ +++...+ ....|+++++++.|+++....++++
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 4688999999999999999999999999999987 3443333 3456788999999987554444544
No 29
>PRK10139 serine endoprotease; Provisional
Probab=98.16 E-value=4.5e-06 Score=88.37 Aligned_cols=76 Identities=20% Similarity=0.211 Sum_probs=58.8
Q ss_pred ceeeeEEEEEeeCC-------CCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEE
Q 012084 179 MSGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTI 250 (471)
Q Consensus 179 ~~giG~~~~~~~d~-------~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l 250 (471)
...+|+.+..+..+ +...+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+
T Consensus 266 r~~LGv~~~~l~~~~~~~lgl~~~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l 343 (455)
T PRK10139 266 RGLLGIKGTEMSADIAKAFNLDVQRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSF--AELRSRIATTEPGTKVKL 343 (455)
T ss_pred ccceeEEEEECCHHHHHhcCCCCCCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEE
Confidence 34567776654311 111368999999999999999999999999999999987 566555544 67889999
Q ss_pred EEEcCC
Q 012084 251 EVKHGN 256 (471)
Q Consensus 251 ~v~r~~ 256 (471)
++.|++
T Consensus 344 ~V~R~G 349 (455)
T PRK10139 344 GLLRNG 349 (455)
T ss_pred EEEECC
Confidence 999876
No 30
>PRK10942 serine endoprotease; Provisional
Probab=98.16 E-value=6.7e-06 Score=87.48 Aligned_cols=76 Identities=17% Similarity=0.235 Sum_probs=57.9
Q ss_pred eeeeEEEEEeeCC-------CCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhC-CCCCcEEEEE
Q 012084 180 SGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIE 251 (471)
Q Consensus 180 ~giG~~~~~~~d~-------~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~-g~~g~~v~l~ 251 (471)
..+|+.+..+..+ +...+++|..|.++|||+++||++||+|++|||+++.++ .++...+. ...|+.+.|+
T Consensus 288 g~lGv~~~~l~~~~a~~~~l~~~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l~ 365 (473)
T PRK10942 288 GELGIMGTELNSELAKAMKVDAQRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSF--AALRAQVGTMPVGSKLTLG 365 (473)
T ss_pred ceeeeEeeecCHHHHHhcCCCCCCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEE
Confidence 3567776554311 112368999999999999999999999999999999986 45554443 3568899999
Q ss_pred EEcCCC
Q 012084 252 VKHGNC 257 (471)
Q Consensus 252 v~r~~~ 257 (471)
+.|+++
T Consensus 366 v~R~G~ 371 (473)
T PRK10942 366 LLRDGK 371 (473)
T ss_pred EEECCe
Confidence 998763
No 31
>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=98.14 E-value=4.4e-06 Score=87.68 Aligned_cols=66 Identities=21% Similarity=0.321 Sum_probs=54.6
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEEe
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQ 266 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~~~v~l~ 266 (471)
+++|..|.++|||+++||++||+|++|||+++.++ +++...+....++++.+++.|+++ ..+++++
T Consensus 204 g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g~--~~~~~v~ 269 (420)
T TIGR00054 204 EPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSW--TDFVSAVKENPGKSMDIKVERNGE--TLSISLT 269 (420)
T ss_pred CcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCceEEEEEECCE--EEEEEEE
Confidence 46889999999999999999999999999999986 567777766678889999999763 3444443
No 32
>PRK10898 serine endoprotease; Provisional
Probab=98.14 E-value=6.1e-06 Score=84.64 Aligned_cols=59 Identities=20% Similarity=0.308 Sum_probs=50.1
Q ss_pred eEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012084 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~ 256 (471)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+.|++.|++
T Consensus 279 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~~l~~~l~~~~~g~~v~l~v~R~g 338 (353)
T PRK10898 279 QGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISA--LETMDQVAEIRPGSVIPVVVMRDD 338 (353)
T ss_pred CeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECC
Confidence 478999999999999999999999999999999876 444444433 67889999999876
No 33
>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=98.11 E-value=5.5e-06 Score=84.94 Aligned_cols=59 Identities=25% Similarity=0.330 Sum_probs=50.6
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~~ 257 (471)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.|++.|+++
T Consensus 279 Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~dl~~~l~~~~~g~~v~l~v~R~g~ 338 (351)
T TIGR02038 279 GIVITGVDPNGPAARAGILVRDVILKYDGKDVIGA--EELMDRIAETRPGSKVMVTVLRQGK 338 (351)
T ss_pred cceEeecCCCChHHHCCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCE
Confidence 68899999999999999999999999999999986 455555543 678899999999763
No 34
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.09 E-value=6.3e-06 Score=87.27 Aligned_cols=59 Identities=15% Similarity=0.270 Sum_probs=51.5
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~ 257 (471)
+++|..|.++|||++|||++||+|++|||+++.++ +++...+....++.+.+++.|+++
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g~ 280 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQW--QTFVTLVRDNPGKPLALEIERQGS 280 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhCCCCEEEEEEEECCE
Confidence 47899999999999999999999999999999986 566666766678899999999773
No 35
>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=98.09 E-value=7.1e-06 Score=86.39 Aligned_cols=77 Identities=21% Similarity=0.295 Sum_probs=58.1
Q ss_pred ceeeeEEEEEeeCC-------CCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhC-CCCCcEEEE
Q 012084 179 MSGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTI 250 (471)
Q Consensus 179 ~~giG~~~~~~~d~-------~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~-g~~g~~v~l 250 (471)
...+|+.+..+..+ ....+++|..|.++|||+++||++||+|++|||+++.++ .++...+. ...|+.++|
T Consensus 233 ~~~lGi~~~~~~~~~~~~lgl~~~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~--~~~~~~l~~~~~g~~v~l 310 (428)
T TIGR02037 233 RGWLGVTIQEVTSDLAKSLGLEKQRGALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSF--ADLRRAIGTLKPGKKVTL 310 (428)
T ss_pred CCcCceEeecCCHHHHHHcCCCCCCceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEE
Confidence 35567776654211 011368999999999999999999999999999999986 44544443 367889999
Q ss_pred EEEcCCC
Q 012084 251 EVKHGNC 257 (471)
Q Consensus 251 ~v~r~~~ 257 (471)
++.|+++
T Consensus 311 ~v~R~g~ 317 (428)
T TIGR02037 311 GILRKGK 317 (428)
T ss_pred EEEECCE
Confidence 9999763
No 36
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.02 E-value=8.6e-06 Score=86.58 Aligned_cols=104 Identities=22% Similarity=0.324 Sum_probs=74.6
Q ss_pred HHHHHHHHHhcCCCceeec-------ChHHh------h-------hhhcccceeeeEEEEEeeCCCCceEEEEEEEcCCC
Q 012084 148 HGIIKRMLASLGDPYTRFL-------SPAEF------S-------KMARYDMSGIGINLREVPDANGVVTLKVLGLILDG 207 (471)
Q Consensus 148 ~~~i~~ml~~L~D~Ht~~l-------~~~~~------~-------~~~~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~s 207 (471)
..++.-|-+.-+.+|..+. .+..- . .+.+.+..||||.+.......+ --|..+++||
T Consensus 713 ~~vv~Lm~~AArnghV~LtVRRkv~~~~~~rsp~~s~~~~~~yDV~lhR~ENeGFGFVi~sS~~kp~---sgiGrIieGS 789 (984)
T KOG3209|consen 713 SEVVDLMEAAARNGHVNLTVRRKVRTGPARRSPRNSAAPSGPYDVVLHRKENEGFGFVIMSSQNKPE---SGIGRIIEGS 789 (984)
T ss_pred HHHHHHHHHHHhcCceEEEEeeeeeeccccCCcccccCCCCCeeeEEecccCCceeEEEEecccCCC---CCccccccCC
Confidence 3466667777778887552 11100 0 0123345688988754322222 2278899999
Q ss_pred chhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 208 PAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 208 pA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
||++.| |+.||+|++|||.+|..++..++.++++ ..|-+|+|+|..+
T Consensus 790 PAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIK-daGlsVtLtIip~ 837 (984)
T KOG3209|consen 790 PADRCGKLKVGDRILAVNGQSILNLSHADIVSLIK-DAGLSVTLTIIPP 837 (984)
T ss_pred hhHhhccccccceEEEecCeeeeccCchhHHHHHH-hcCceEEEEEcCh
Confidence 999999 9999999999999999999999999987 5688999999754
No 37
>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=97.94 E-value=4e-05 Score=67.77 Aligned_cols=85 Identities=14% Similarity=0.251 Sum_probs=55.8
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCC-CCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~-GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~ 258 (471)
.|+.+++..... .....+.|.+|.|+|||++|||++ .|.|+.+|+..+.+. +++..++....+..+.|.|-+....
T Consensus 28 LG~sv~~~~~~~-~~~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~--~~l~~~v~~~~~~~l~L~Vyns~~~ 104 (138)
T PF04495_consen 28 LGISVRFESFEG-AEEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDE--DDLFELVEANENKPLQLYVYNSKTD 104 (138)
T ss_dssp S-EEEEEEE-TT-GCCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--ST--CHHHHHHHHTTTS-EEEEEEETTTT
T ss_pred CcEEEEEecccc-cccceEEEeEecCCCHHHHCCccccccEEEEccceecCCH--HHHHHHHHHcCCCcEEEEEEECCCC
Confidence 345555554321 122468899999999999999998 699999999888864 5667777777888999999765555
Q ss_pred CeeEEEEee
Q 012084 259 PIESIQVQR 267 (471)
Q Consensus 259 ~~~~v~l~r 267 (471)
..+.|++..
T Consensus 105 ~vR~V~i~P 113 (138)
T PF04495_consen 105 SVREVTITP 113 (138)
T ss_dssp CEEEEEE--
T ss_pred eEEEEEEEc
Confidence 667777643
No 38
>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=97.91 E-value=5.6e-05 Score=77.80 Aligned_cols=75 Identities=23% Similarity=0.510 Sum_probs=56.3
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEc--------CCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEE
Q 012084 181 GIGINLREVPDANGVVTLKVLGLI--------LDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~--------~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v 252 (471)
.+|+.+.. .+++|.... .+|||++|||++||+|++|||+++..+ .++.+.+....++.+.|++
T Consensus 97 ~iGI~l~t-------~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~--~DL~~iL~~~~g~~V~LtV 167 (402)
T TIGR02860 97 SIGVKLNT-------KGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNM--DDLANLINKAGGEKLTLTI 167 (402)
T ss_pred EEEEEEec-------CEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCeEEEEE
Confidence 46777653 257776553 258999999999999999999999986 5666777665688999999
Q ss_pred EcCCCCCeeEEEEe
Q 012084 253 KHGNCGPIESIQVQ 266 (471)
Q Consensus 253 ~r~~~~~~~~v~l~ 266 (471)
+|++ ...++.+.
T Consensus 168 ~R~G--e~~tv~V~ 179 (402)
T TIGR02860 168 ERGG--KIIETVIK 179 (402)
T ss_pred EECC--EEEEEEEE
Confidence 9976 34445544
No 39
>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=97.81 E-value=4.7e-05 Score=80.19 Aligned_cols=58 Identities=26% Similarity=0.367 Sum_probs=50.7
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~ 256 (471)
+++|..|.++|||+++||++||+|++|||+++.++ .++.+.+.. +.|+.+.|++.|++
T Consensus 363 Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~--~d~~~~l~~~~~g~~v~l~v~R~g 421 (428)
T TIGR02037 363 GVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSV--AELRKVLDRAKKGGRVALLILRGG 421 (428)
T ss_pred ceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECC
Confidence 68999999999999999999999999999999975 566666654 46889999999876
No 40
>PRK10942 serine endoprotease; Provisional
Probab=97.80 E-value=7e-05 Score=79.73 Aligned_cols=57 Identities=19% Similarity=0.405 Sum_probs=49.2
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~ 256 (471)
+++|..|.++|||+++||++||+|++|||+++.++ +++.+.+... +..+.|+|+|++
T Consensus 409 gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s~--~dl~~~l~~~-~~~v~l~V~R~g 465 (473)
T PRK10942 409 GVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKNI--AELRKILDSK-PSVLALNIQRGD 465 (473)
T ss_pred CeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhC-CCeEEEEEEECC
Confidence 58899999999999999999999999999999986 5666666543 368999999876
No 41
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=97.79 E-value=0.00018 Score=62.94 Aligned_cols=95 Identities=26% Similarity=0.420 Sum_probs=64.7
Q ss_pred HHHHHHHHhcCCCceeecChHHhhhhhcccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEE
Q 012084 149 GIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVD 227 (471)
Q Consensus 149 ~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~ 227 (471)
..+..+.++-+..|-+... . .....|+||++.--...+ ..++|++++||+-|++-| |++||.+++|||.+
T Consensus 77 atvaafaaseghahprvve---l----pktdeglgfnvmggkeqn--spiyisriipggvadrhgglkrgdqllsvngvs 147 (207)
T KOG3550|consen 77 ATVAAFAASEGHAHPRVVE---L----PKTDEGLGFNVMGGKEQN--SPIYISRIIPGGVADRHGGLKRGDQLLSVNGVS 147 (207)
T ss_pred HHHHHHHHhccCCCCceee---c----CccccccceeeccCcccC--CceEEEeecCCccccccCcccccceeEeeccee
Confidence 3455555665555655431 0 112348888874311112 368999999999999875 99999999999999
Q ss_pred cCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 228 VRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 228 v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
+++-..+....+|+...| .|.|.|+
T Consensus 148 vege~hekavellkaa~g-svklvvr 172 (207)
T KOG3550|consen 148 VEGEHHEKAVELLKAAVG-SVKLVVR 172 (207)
T ss_pred ecchhhHHHHHHHHHhcC-cEEEEEe
Confidence 998777777788865544 4566554
No 42
>PRK10139 serine endoprotease; Provisional
Probab=97.78 E-value=6e-05 Score=79.86 Aligned_cols=57 Identities=23% Similarity=0.439 Sum_probs=48.9
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~ 256 (471)
+++|..|.++|||+++||++||+|++|||+++..+ +++...++... +.+.|++.|++
T Consensus 391 Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~-~~v~l~v~R~g 447 (455)
T PRK10139 391 GIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSI--AEMRKVLAAKP-AIIALQIVRGN 447 (455)
T ss_pred ceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhCC-CeEEEEEEECC
Confidence 58899999999999999999999999999999987 56666665443 68889998876
No 43
>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=97.74 E-value=5.4e-05 Score=78.44 Aligned_cols=61 Identities=20% Similarity=0.361 Sum_probs=46.6
Q ss_pred EEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE-cCCCCCeeEEEEee
Q 012084 200 VLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK-HGNCGPIESIQVQR 267 (471)
Q Consensus 200 V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~-r~~~~~~~~v~l~r 267 (471)
|..|.++|||+++||++||+|++|||+++.+| .++..++. +..+.+++. |++ ...++.+.+
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw--~D~~~~l~---~e~l~L~V~~rdG--e~~~l~Ie~ 63 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDL--IDYQFLCA---DEELELEVLDANG--ESHQIEIEK 63 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHhc---CCcEEEEEEcCCC--eEEEEEEec
Confidence 55789999999999999999999999999988 45554553 356888886 444 445555554
No 44
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.52 E-value=0.00023 Score=76.00 Aligned_cols=78 Identities=28% Similarity=0.410 Sum_probs=64.5
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhC-CCCCcEEEEEEEcC
Q 012084 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVKHG 255 (471)
Q Consensus 178 ~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~-g~~g~~v~l~v~r~ 255 (471)
.+.||||.+.--.|..++..+.|.+|++++||++.| |+.||+|+.|||..+-+.+..++.+.++ ++.|..|.|++.|+
T Consensus 353 g~~GFGfTliGGdd~~gDefLqVKsvl~DGPAa~dGkle~GDviV~INg~cvlGhTHAqaV~~fqaiPvg~~V~L~lcRg 432 (984)
T KOG3209|consen 353 GYMGFGFTLIGGDDVRGDEFLQVKSVLKDGPAAQDGKLETGDVIVHINGECVLGHTHAQAVKRFQAIPVGQSVDLVLCRG 432 (984)
T ss_pred cccccceEEecCCcCCCCceeeeeecccCCchhhcCccccCcEEEEECCceeccccHHHHHHHhhccccCCeeeEEEecC
Confidence 356889988542222355578899999999999999 9999999999999999998888887775 58899999999874
No 45
>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=97.51 E-value=0.00011 Score=77.25 Aligned_cols=59 Identities=24% Similarity=0.236 Sum_probs=46.9
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~ 258 (471)
+.+|..|.++|||++|||++||+|++|||+++.++ .++.+.+.... .++.+++.|+++.
T Consensus 129 g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~--~dl~~~ia~~~-~~v~~~I~r~g~~ 187 (420)
T TIGR00054 129 GPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGF--KDVRQQIADIA-GEPMVEILAEREN 187 (420)
T ss_pred CceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhc-ccceEEEEEecCc
Confidence 45789999999999999999999999999999986 45555444333 5778888776543
No 46
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.49 E-value=9.5e-05 Score=60.23 Aligned_cols=45 Identities=27% Similarity=0.288 Sum_probs=38.4
Q ss_pred eEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhh
Q 012084 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL 240 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll 240 (471)
.+++|++|.+||||+.|||+.+|.|+.+||.+.+-.+.+...+.+
T Consensus 59 ~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i 103 (124)
T KOG3553|consen 59 KGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRI 103 (124)
T ss_pred ccEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHh
Confidence 478999999999999999999999999999988766555555554
No 47
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=0.00072 Score=69.22 Aligned_cols=60 Identities=27% Similarity=0.398 Sum_probs=49.8
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhh-CCCCCcEEEEEEEcCCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll-~g~~g~~v~l~v~r~~~~ 258 (471)
+++|..|.++|||+++|+++||+|+++||+++... .++...+ ....|..+.+++.|+++.
T Consensus 271 G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~--~~l~~~v~~~~~g~~v~~~~~r~g~~ 331 (347)
T COG0265 271 GAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASL--SDLVAAVASNRPGDEVALKLLRGGKE 331 (347)
T ss_pred ceEEEecCCCChHHHcCCCCCCEEEEECCEEccCH--HHHHHHHhccCCCCEEEEEEEECCEE
Confidence 58899999999999999999999999999999985 3443333 345799999999998643
No 48
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.00095 Score=61.87 Aligned_cols=61 Identities=21% Similarity=0.296 Sum_probs=48.0
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCC-HHHHHHhhCCCCCcEEEEEEEcCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKS-AFEVSSLLQGPSETFVTIEVKHGNC 257 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~-~~~~~~ll~g~~g~~v~l~v~r~~~ 257 (471)
.++|..|.++|||++|||+.||+|+++....--... ...+....+-..+..+.+++.|.+.
T Consensus 140 Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~e~~~v~v~v~R~g~ 201 (231)
T KOG3129|consen 140 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQ 201 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCCC
Confidence 578999999999999999999999999877655443 3444444555678889999988763
No 49
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=97.14 E-value=0.00062 Score=72.29 Aligned_cols=87 Identities=21% Similarity=0.429 Sum_probs=66.1
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~~ 257 (471)
..+|+.+.+..+..--..++|.+...++||++.| |..||.|++|||.++-++.+.....++++ +..+.|+|+|.+-
T Consensus 657 EiLGVViVESGWGSmLPTVViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~c-- 734 (829)
T KOG3605|consen 657 EILGVVIVESGWGSILPTVVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSC-- 734 (829)
T ss_pred ceeeEEEEecCccccchHHHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecC--
Confidence 3578887652111111335677888999999999 99999999999999999998888888888 4557789999873
Q ss_pred CCeeEEEEeee
Q 012084 258 GPIESIQVQRQ 268 (471)
Q Consensus 258 ~~~~~v~l~r~ 268 (471)
.++.+|.+.|.
T Consensus 735 pPV~~V~I~RP 745 (829)
T KOG3605|consen 735 PPVTTVLIRRP 745 (829)
T ss_pred CCceEEEeecc
Confidence 36677777664
No 50
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.04 E-value=0.0011 Score=69.60 Aligned_cols=69 Identities=32% Similarity=0.441 Sum_probs=54.4
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhh-CCCCCcEEEEEEE
Q 012084 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVK 253 (471)
Q Consensus 181 giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll-~g~~g~~v~l~v~ 253 (471)
.+|+.+.- ..+.+++|..|..||||+..||+.||.|+.||.++..++..+++..+| .-++|+.|+|.-.
T Consensus 418 SvGLRLAG----GNDVGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtilaQ 487 (1027)
T KOG3580|consen 418 SVGLRLAG----GNDVGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILAQ 487 (1027)
T ss_pred eeeeEecc----CCceeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehhh
Confidence 46666643 123589999999999999999999999999999999998766655444 4488888887643
No 51
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=96.68 E-value=0.002 Score=70.98 Aligned_cols=67 Identities=28% Similarity=0.387 Sum_probs=53.5
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 179 ~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
..||||.- | ..++|..|.+|+|+.- .|++||.|++|||+++++...+.+..++|. ..+.|.|+|.++
T Consensus 66 ~lGFgfva-------g-rPviVr~VT~GGps~G-KL~PGDQIl~vN~Epv~daprervIdlvRa-ce~sv~ltV~qP 132 (1298)
T KOG3552|consen 66 SLGFGFVA-------G-RPVIVRFVTEGGPSIG-KLQPGDQILAVNGEPVKDAPRERVIDLVRA-CESSVNLTVCQP 132 (1298)
T ss_pred cccceeec-------C-CceEEEEecCCCCccc-cccCCCeEEEecCcccccccHHHHHHHHHH-HhhhcceEEecc
Confidence 45666643 2 3689999999999973 499999999999999999988888888874 346788888764
No 52
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=96.61 E-value=0.0026 Score=63.07 Aligned_cols=75 Identities=28% Similarity=0.411 Sum_probs=61.6
Q ss_pred cccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 176 ~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
+...+|+|+.+.-- .+-...++|..++++-.|+..| |-.||-|+.|||.-|.....+++.++|+ ..|+.|+|||.
T Consensus 62 RQ~vGGlGLSIKGG--aEHn~PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLR-NAGdeVtlTV~ 137 (505)
T KOG3549|consen 62 RQKVGGLGLSIKGG--AEHNLPVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILR-NAGDEVTLTVK 137 (505)
T ss_pred eeecCcceeeeccc--cccCccEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHH-hcCCEEEEEeH
Confidence 34567899988531 1112358899999999999999 8999999999999999999999999887 56899999995
No 53
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=96.40 E-value=0.0075 Score=64.56 Aligned_cols=68 Identities=24% Similarity=0.353 Sum_probs=53.3
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
..||+.+.. ++..-+.|-.|.+++||.++.+++||++++|||+||... .++.+.++...|+-..|.++
T Consensus 386 ~~ig~vf~~----~~~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~--~q~~~~~~s~~~~~~~l~~~ 453 (1051)
T KOG3532|consen 386 SPIGLVFDK----NTNRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSE--RQATRFLQSTTGDLTVLVER 453 (1051)
T ss_pred CceeEEEec----CCceEEEEEEecCCChhhHhcCCCcceEEEecCccchhH--HHHHHHHHhcccceEEEEee
Confidence 468888764 454567899999999999999999999999999999975 56666666666665555543
No 54
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=96.37 E-value=0.0034 Score=63.08 Aligned_cols=75 Identities=27% Similarity=0.417 Sum_probs=58.7
Q ss_pred cccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 176 ~~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
+++..|+|+.+.--.+++ -.++|+.+++|-.|++++ |..||.|++|||.++.+.+.++..+.|+ ..|+.|.++|+
T Consensus 92 K~d~gGLGISIKGGreNk--MPIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLK-raGkeV~levK 167 (506)
T KOG3551|consen 92 KQDAGGLGISIKGGRENK--MPILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALK-RAGKEVLLEVK 167 (506)
T ss_pred EecCCcceEEeecCcccC--CceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHH-hhCceeeeeee
Confidence 345678999986422122 357899999999999988 9999999999999999988888777775 45777777763
No 55
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=96.36 E-value=0.0044 Score=66.20 Aligned_cols=57 Identities=28% Similarity=0.445 Sum_probs=49.0
Q ss_pred eEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEc
Q 012084 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r 254 (471)
.+++|..|.||+.|+++||++||+|++|||+..+.++...+..+|++ ++.++|+|+.
T Consensus 562 fgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrn--nthLtltvKt 618 (1283)
T KOG3542|consen 562 FGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRN--NTHLTLTVKT 618 (1283)
T ss_pred ceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcC--CceEEEEEec
Confidence 47899999999999999999999999999999999887777788876 4567777754
No 56
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=96.29 E-value=0.0099 Score=58.02 Aligned_cols=55 Identities=36% Similarity=0.583 Sum_probs=45.4
Q ss_pred EEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEE
Q 012084 197 TLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v 252 (471)
-++|+.|+.++||++.| |+.||+|++|||.+|.+...-++.++++-.. ..|.+.+
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~-~eV~Ihy 86 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSL-NEVKIHY 86 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhc-cceEEEe
Confidence 57899999999999999 9999999999999999987777777775433 2456665
No 57
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=96.27 E-value=0.0096 Score=65.92 Aligned_cols=74 Identities=24% Similarity=0.462 Sum_probs=58.6
Q ss_pred eeeeEEEEEeeCCCCc--eEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 180 SGIGINLREVPDANGV--VTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~--~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
.|+|+.+.-.. .-|. .+++|.+|++|++|+..| |+.||.+++|||.++.+++.++...++- ..|..|.|+|.+.
T Consensus 943 nGmGLSIVAAk-GaGq~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmt-rtg~vV~leVaKq 1019 (1629)
T KOG1892|consen 943 NGMGLSIVAAK-GAGQRKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMT-RTGNVVHLEVAKQ 1019 (1629)
T ss_pred CCceEEEEeec-cCCccccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHh-ccCCeEEEehhhh
Confidence 57788775422 1222 468999999999999988 9999999999999999998777777664 4578899999653
No 58
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=96.21 E-value=0.013 Score=57.64 Aligned_cols=46 Identities=24% Similarity=0.386 Sum_probs=35.9
Q ss_pred hhcCCCCCCEEEEECCEEcCCCCH-HHHHHhhCCCCCcEEEEEEEcCCC
Q 012084 210 HSAGVRQGDEVLAVNGVDVRGKSA-FEVSSLLQGPSETFVTIEVKHGNC 257 (471)
Q Consensus 210 ~~aGl~~GD~Il~InG~~v~~~~~-~~~~~ll~g~~g~~v~l~v~r~~~ 257 (471)
..+||++||++++|||.++.+... .++.+.| ...+.++|+|.|+|.
T Consensus 221 ~~~GLq~GDva~sING~dL~D~~qa~~l~~~L--~~~tei~ltVeRdGq 267 (276)
T PRK09681 221 DASGFKEGDIAIALNQQDFTDPRAMIALMRQL--PSMDSIQLTVLRKGA 267 (276)
T ss_pred HHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHh--ccCCeEEEEEEECCE
Confidence 568999999999999999987531 2344445 456889999999874
No 59
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=96.05 E-value=0.011 Score=62.51 Aligned_cols=74 Identities=27% Similarity=0.390 Sum_probs=53.5
Q ss_pred eeeeEEEEEeeC----CCCceEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 180 SGIGINLREVPD----ANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 180 ~giG~~~~~~~d----~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
-|||+.+.--.| ++|...++|..|++|+||+- -|+.||.|+-|||.++++....-+.+.|+ +.|+...|+|+|+
T Consensus 20 rGFGIAiSGGRDnPhf~~getSiViSDVlpGGPAeG-~LQenDrvvMVNGvsMenv~haFAvQqLr-ksgK~A~ItvkRp 97 (1027)
T KOG3580|consen 20 RGFGIAISGGRDNPHFENGETSIVISDVLPGGPAEG-LLQENDRVVMVNGVSMENVLHAFAVQQLR-KSGKVAAITVKRP 97 (1027)
T ss_pred CcceeEeecCCCCCCccCCceeEEEeeccCCCCccc-ccccCCeEEEEcCcchhhhHHHHHHHHHH-hhccceeEEeccc
Confidence 467776643212 24555789999999999973 39999999999999999875444444554 4566778888775
No 60
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=95.94 E-value=0.015 Score=62.63 Aligned_cols=59 Identities=22% Similarity=0.321 Sum_probs=48.5
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~ 258 (471)
-++|..|+++|||++ -|++||.+++||+.-+.++ ..+-+.|....|+.++|+|.|++..
T Consensus 304 mLvV~~vL~~gpa~k-~Le~GDillavN~t~l~df--~~l~~iLDegvgk~l~LtI~Rggqe 362 (955)
T KOG1421|consen 304 MLVVETVLPEGPAEK-KLEPGDILLAVNSTCLNDF--EALEQILDEGVGKNLELTIQRGGQE 362 (955)
T ss_pred eEEEEEeccCCchhh-ccCCCcEEEEEcceehHHH--HHHHHHHhhccCceEEEEEEeCCEE
Confidence 467889999999998 5999999999998888775 3455556556899999999998753
No 61
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=95.30 E-value=0.089 Score=48.69 Aligned_cols=69 Identities=36% Similarity=0.509 Sum_probs=57.7
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 300 ~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
.....+.+.|++..+.+++.|||++ +.+||.+..+..+...+... +.|+++.+
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~ivl~i-nspGG~v~~~~~I~~~l~~~--------------------------~~pvva~V 65 (178)
T cd07021 13 GLAAFVERALKEAKEEGADAVVLDI-DTPGGRVDSALEIVDLILNS--------------------------PIPTIAYV 65 (178)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEE-ECcCCCHHHHHHHHHHHHhC--------------------------CCCEEEEE
Confidence 3456788889888887899999999 88999999998888877521 26899999
Q ss_pred CCCCCChHHHHHHHHh
Q 012084 380 NNRTASASEIVASALH 395 (471)
Q Consensus 380 d~~TaSaaE~fa~~lk 395 (471)
++.++|++-+++.+..
T Consensus 66 ~g~AaSaG~~ia~a~d 81 (178)
T cd07021 66 NDRAASAGALIALAAD 81 (178)
T ss_pred CCchHHHHHHHHHhCC
Confidence 9999999999998765
No 62
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=95.09 E-value=0.04 Score=58.09 Aligned_cols=69 Identities=29% Similarity=0.478 Sum_probs=56.0
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEE
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~ 253 (471)
..+|+.++. +++. .++|.++..|+-+++.| |+.||+|++|||.++.+....++..+++.-.| ++++.+.
T Consensus 134 eplG~Tik~---~e~~-~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~G-~itfkii 203 (542)
T KOG0609|consen 134 EPLGATIRV---EEDT-KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSRG-SITFKII 203 (542)
T ss_pred CccceEEEe---ccCC-ccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCCC-cEEEEEc
Confidence 356777765 2332 68999999999999999 89999999999999999988888888876654 5777774
No 63
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=95.08 E-value=0.044 Score=57.13 Aligned_cols=73 Identities=22% Similarity=0.309 Sum_probs=55.6
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCC---CCCcEEEEEEEcC
Q 012084 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG---PSETFVTIEVKHG 255 (471)
Q Consensus 182 iG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g---~~g~~v~l~v~r~ 255 (471)
+|+.+.-..++.|+.+++|.++.+++.-+..| |.+||-|+.||.+..+.++.+++++.|+. .+| .++|+|...
T Consensus 263 LGiSivgqsn~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~g-Pi~ltvAk~ 339 (626)
T KOG3571|consen 263 LGISIVGQSNARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPG-PIKLTVAKC 339 (626)
T ss_pred ceeEeecccCcCCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCC-CeEEEEeec
Confidence 56666443334455689999999999877777 99999999999999999998887777753 222 377787653
No 64
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=94.85 E-value=0.1 Score=49.71 Aligned_cols=53 Identities=19% Similarity=0.190 Sum_probs=37.4
Q ss_pred cCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCCCC
Q 012084 204 ILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCG 258 (471)
Q Consensus 204 ~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~~~ 258 (471)
-+++.-++.||++||+-++||+.++++- +++..+++- ..-+...+||+|+|..
T Consensus 215 kd~slF~~sglq~GDIavaiNnldltdp--~~m~~llq~l~~m~s~qlTv~R~G~r 268 (275)
T COG3031 215 KDGSLFYKSGLQRGDIAVAINNLDLTDP--EDMFRLLQMLRNMPSLQLTVIRRGKR 268 (275)
T ss_pred CCcchhhhhcCCCcceEEEecCcccCCH--HHHHHHHHhhhcCcceEEEEEecCcc
Confidence 3445567789999999999999999873 443333321 3346788999887743
No 65
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.26 E-value=0.15 Score=53.79 Aligned_cols=58 Identities=21% Similarity=0.299 Sum_probs=46.7
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~~ 256 (471)
.++|..|++++++...++.+||.|++|||+++... .++..+++. ..+++|.+..+++.
T Consensus 399 ~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~--~~l~~~i~~~~~~~~v~vl~~~~~ 457 (473)
T KOG1320|consen 399 LVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNL--KHLYELIEECSTEDKVAVLDRRSA 457 (473)
T ss_pred EEEEEEeccCCCcccccccCCCEEEEECCEEeech--HHHHHHHHhcCcCceEEEEEecCc
Confidence 47788999999999999999999999999999986 567777754 23356766666654
No 66
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=94.02 E-value=0.1 Score=50.36 Aligned_cols=59 Identities=32% Similarity=0.456 Sum_probs=47.6
Q ss_pred eEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012084 196 VTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~ 255 (471)
.+++|.+..+|+-|+..| |...|+|++|||.+|.+.+++++..++-.. ...+-+||+..
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN-shNLIiTVkPA 253 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN-SHNLIITVKPA 253 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc-ccceEEEeccc
Confidence 468999999999999999 799999999999999999988887765432 23456666543
No 67
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=93.00 E-value=0.14 Score=49.36 Aligned_cols=72 Identities=21% Similarity=0.354 Sum_probs=57.6
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhCC-CCCcEEEEEEEcC
Q 012084 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHG 255 (471)
Q Consensus 180 ~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~g-~~g~~v~l~v~r~ 255 (471)
.-+|+.+. +||....+|..+-++|--++-. +.+||.|-+|||+.+-++..+++.++|+. +.|++++|.+..+
T Consensus 137 dalGlTIT----DNG~GyAFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrLieP 210 (334)
T KOG3938|consen 137 DALGLTIT----DNGAGYAFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRLIEP 210 (334)
T ss_pred cccceEEe----eCCcceeeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEeecc
Confidence 35777775 3565578898999998776654 89999999999999999999999888865 6678888887654
No 68
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=92.40 E-value=0.18 Score=57.56 Aligned_cols=53 Identities=36% Similarity=0.387 Sum_probs=43.8
Q ss_pred EEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEE
Q 012084 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (471)
Q Consensus 199 ~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v 252 (471)
.|..|.++|||..||+++||.|+.|||+++.++...++.+++. +.|..+.+++
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll-~~gn~v~~~t 713 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLL-KSGNKVTLRT 713 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHH-hcCCeeEEEe
Confidence 5788999999999999999999999999999998888888774 2344455444
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=90.79 E-value=1.4 Score=40.88 Aligned_cols=69 Identities=33% Similarity=0.463 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEEC
Q 012084 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (471)
Q Consensus 301 ~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd 380 (471)
....+.+.|+.+.+.+++.++|++ +.+||.+..+..+...+.. .++|++..++
T Consensus 14 ~~~~l~~~l~~a~~~~~~~vvl~I-nSpGG~v~~~~~i~~~l~~--------------------------~~kPvia~v~ 66 (187)
T cd07020 14 TADYLERAIDQAEEGGADALIIEL-DTPGGLLDSTREIVQAILA--------------------------SPVPVVVYVY 66 (187)
T ss_pred HHHHHHHHHHHHHhCCCCEEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------CCCCEEEEEe
Confidence 456788888888877789988855 6678898888877765531 2468999998
Q ss_pred ---CCCCChHHHHHHHHhc
Q 012084 381 ---NRTASASEIVASALHD 396 (471)
Q Consensus 381 ---~~TaSaaE~fa~~lk~ 396 (471)
+.++|++-.++.+-..
T Consensus 67 ~~~G~AasgG~~iala~D~ 85 (187)
T cd07020 67 PSGARAASAGTYILLAAHI 85 (187)
T ss_pred cCCCCchhHHHHHHHhCCc
Confidence 9999999998887653
No 70
>PF12812 PDZ_1: PDZ-like domain
Probab=90.24 E-value=0.42 Score=37.95 Aligned_cols=42 Identities=14% Similarity=0.131 Sum_probs=32.2
Q ss_pred EEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhC
Q 012084 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (471)
Q Consensus 198 ~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~ 241 (471)
.+++..-.++++...|+.+|.+|.+|||+++.++ +++.+.++
T Consensus 32 gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~L--d~f~~vvk 73 (78)
T PF12812_consen 32 GVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDL--DDFIKVVK 73 (78)
T ss_pred EEEEEecCCChhhhCCCCCCeEEEeECCcCCcCH--HHHHHHHH
Confidence 3455667788888766999999999999999986 45544443
No 71
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=90.23 E-value=0.21 Score=53.71 Aligned_cols=47 Identities=26% Similarity=0.420 Sum_probs=40.7
Q ss_pred EEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCC
Q 012084 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSE 245 (471)
Q Consensus 199 ~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g 245 (471)
+|-+.+.|+-|++-|+|.|-+|++|||++|-....+.+.++|....|
T Consensus 759 iICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVG 805 (829)
T KOG3605|consen 759 IICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVG 805 (829)
T ss_pred EeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhh
Confidence 56678899999999999999999999999998888888888865444
No 72
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.88 E-value=0.74 Score=47.53 Aligned_cols=70 Identities=24% Similarity=0.386 Sum_probs=50.5
Q ss_pred eEEEEEEEcCCCchhhcCCCC-CCEEEEECCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEEee
Q 012084 196 VTLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQR 267 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aGl~~-GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~~~~~v~l~r 267 (471)
.+..|..|.++|||.+|||.+ =|-|++|||..++.- .+.+..+++..... |+|++-.-.....+.+.+.+
T Consensus 15 eg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~d-nd~Lk~llk~~sek-Vkltv~n~kt~~~R~v~I~p 85 (462)
T KOG3834|consen 15 EGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKD-NDTLKALLKANSEK-VKLTVYNSKTQEVRIVEIVP 85 (462)
T ss_pred eeEEEEEeecCChHHhcCcchhhhhhheeCcccccCc-hHHHHHHHHhcccc-eEEEEEecccceeEEEEecc
Confidence 467788999999999999866 569999999999865 34566666654444 99998764433444555443
No 73
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.98 E-value=0.89 Score=46.95 Aligned_cols=83 Identities=16% Similarity=0.248 Sum_probs=57.5
Q ss_pred eeEEEEEeeCCCC-ceEEEEEEEcCCCchhhcCCC-CCCEEEEE-CCEEcCCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012084 182 IGINLREVPDANG-VVTLKVLGLILDGPAHSAGVR-QGDEVLAV-NGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (471)
Q Consensus 182 iG~~~~~~~d~~g-~~~~~V~~v~~~spA~~aGl~-~GD~Il~I-nG~~v~~~~~~~~~~ll~g~~g~~v~l~v~r~~~~ 258 (471)
||+.++....+.. ..-+-|.+|.++|||++||++ -+|.|+.+ |.+--. .+++..++.-..++.+.|-|-.-+..
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 6666665433111 123568899999999999988 78999988 655433 36777788778888888887554444
Q ss_pred CeeEEEEee
Q 012084 259 PIESIQVQR 267 (471)
Q Consensus 259 ~~~~v~l~r 267 (471)
..+.++++.
T Consensus 171 ~~ReVti~p 179 (462)
T KOG3834|consen 171 SCREVTITP 179 (462)
T ss_pred ccceEEeec
Confidence 556677653
No 74
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=88.48 E-value=0.89 Score=46.78 Aligned_cols=53 Identities=32% Similarity=0.371 Sum_probs=40.6
Q ss_pred EEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhCCCCCcE---EEEEEEc
Q 012084 200 VLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETF---VTIEVKH 254 (471)
Q Consensus 200 V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~g~~g~~---v~l~v~r 254 (471)
+..+..+|+|..+|+++||+|+++|+.++.++ .++...+....+.. +.+.+.|
T Consensus 133 ~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~i~~~~ 188 (375)
T COG0750 133 VGEVAPKSAAALAGLRPGDRIVAVDGEKVASW--DDVRRLLVAAAGDVFNLLTILVIR 188 (375)
T ss_pred eeecCCCCHHHHcCCCCCCEEEeECCEEccCH--HHHHHHHHhccCCcccceEEEEEe
Confidence 34688899999999999999999999999987 44444444334444 6777777
No 75
>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=86.47 E-value=3.8 Score=37.65 Aligned_cols=70 Identities=24% Similarity=0.275 Sum_probs=54.2
Q ss_pred hHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 300 ~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
.....+.+.+++..+.+++.++|++ +-|||.+..+..+.+.+.. .+.|+++.+
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 3456778888877777899999998 4578888888877766521 146899999
Q ss_pred C---CCCCChHHHHHHHHhc
Q 012084 380 N---NRTASASEIVASALHD 396 (471)
Q Consensus 380 d---~~TaSaaE~fa~~lk~ 396 (471)
+ +..+|++-+++.+-..
T Consensus 66 ~p~g~~AaSag~~I~~a~~~ 85 (172)
T cd07015 66 YPPGASAASAGTYIALGSHL 85 (172)
T ss_pred ecCCCeehhHHHHHHHhcCc
Confidence 9 8999999999988664
No 76
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=86.13 E-value=5.2 Score=41.88 Aligned_cols=62 Identities=21% Similarity=0.328 Sum_probs=51.2
Q ss_pred CCeEEEEEeCc-hhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCce
Q 012084 286 TTSVGYMRLKE-FNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGET 348 (471)
Q Consensus 286 ~~~igYi~i~s-F~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~ 348 (471)
.+++.++.++. .+..+.+.+.+.++..++.++..+||+| +-|||.+..+.++.+.|...+.+
T Consensus 25 ~~~v~vi~i~g~I~~~s~~~l~r~l~~A~~~~a~~vvl~l-dTPGGl~~sm~~iv~~i~~s~vP 87 (436)
T COG1030 25 EKKVYVIEIDGAIDPASADYLQRALQSAEEENAAAVVLEL-DTPGGLLDSMRQIVRAILNSPVP 87 (436)
T ss_pred CCeEEEEEecCccCHHHHHHHHHHHHHHHhCCCcEEEEEe-cCCCchHHHHHHHHHHHHcCCCC
Confidence 35677888875 3556778899999998888999999998 67999999999999999876654
No 77
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=84.36 E-value=1.5 Score=47.38 Aligned_cols=59 Identities=27% Similarity=0.346 Sum_probs=46.9
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHHHHhhC
Q 012084 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (471)
Q Consensus 179 ~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~~~ll~ 241 (471)
..|+|+.+...- +| .-+|..+.++|||+..+ |..||+|+.||+..+-+|....+.+.|+
T Consensus 212 ~eglg~~I~Ssy--dg--~h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwqlk~vV~sL~ 271 (638)
T KOG1738|consen 212 SEGLGLYIDSSY--DG--PHVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQLKVVVSSLR 271 (638)
T ss_pred ccCCceEEeeec--CC--ceeccccccCChHHHhhcccCccceeeecccccccchhHhHHhhcc
Confidence 457888886543 33 45788999999999887 9999999999999999997666665554
No 78
>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=83.00 E-value=4.3 Score=36.35 Aligned_cols=68 Identities=25% Similarity=0.391 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHhc-CCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
..+++.+.++.+... .+++++|++. .+||.+..+..+...+.. +++|++..+
T Consensus 12 ~~~~l~~~l~~a~~d~~~~~ivl~~~-s~Gg~~~~~~~i~~~l~~--------------------------~~kpvva~~ 64 (161)
T cd00394 12 SADQLAAQIRFAEADNSVKAIVLEVN-TPGGRVDAGMNIVDALQA--------------------------SRKPVIAYV 64 (161)
T ss_pred hHHHHHHHHHHHHhCCCCceEEEEEE-CCCcCHHHHHHHHHHHHH--------------------------hCCCEEEEE
Confidence 446778888877654 4899999995 567777777666654421 236899999
Q ss_pred CCCCCChHHHHHHHHh
Q 012084 380 NNRTASASEIVASALH 395 (471)
Q Consensus 380 d~~TaSaaE~fa~~lk 395 (471)
++.++|++=.++.+..
T Consensus 65 ~g~~~s~g~~la~~~d 80 (161)
T cd00394 65 GGQAASAGYYIATAAN 80 (161)
T ss_pred CChhHHHHHHHHhCCC
Confidence 9999999877766543
No 79
>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=76.82 E-value=11 Score=35.39 Aligned_cols=69 Identities=25% Similarity=0.341 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEEC
Q 012084 302 RKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (471)
Q Consensus 302 ~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd 380 (471)
..++.++++++.+ ..++++||++- .+||.+..+.++...+.. +. -.+|++..++
T Consensus 15 ~~~l~~~l~~a~~d~~i~~vvl~~~-s~Gg~~~~~~~l~~~i~~------------------~~------~~kpvia~v~ 69 (207)
T TIGR00706 15 PEDFDKKIKRIKDDKSIKALLLRIN-SPGGTVVASEEIYEKLKK------------------LK------AKKPVVASMG 69 (207)
T ss_pred HHHHHHHHHHHhhCCCccEEEEEec-CCCCCHHHHHHHHHHHHH------------------hc------CCCCEEEEEC
Confidence 4577888887764 57999999985 567777666665554321 00 1479999999
Q ss_pred CCCCChHHHHHHHHh
Q 012084 381 NRTASASEIVASALH 395 (471)
Q Consensus 381 ~~TaSaaE~fa~~lk 395 (471)
+.++|++=.++.+..
T Consensus 70 g~a~s~g~~la~aaD 84 (207)
T TIGR00706 70 GVAASGGYYIAMAAD 84 (207)
T ss_pred CccchHHHHHHhcCC
Confidence 999998887777553
No 80
>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=76.68 E-value=4.7 Score=36.21 Aligned_cols=66 Identities=27% Similarity=0.327 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEEC
Q 012084 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (471)
Q Consensus 301 ~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd 380 (471)
..+.+.+.|..+... +.++|.+ +-+||++..+..+.+.+.. .++|++..++
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 456788888876653 8888888 7889999888887776531 1368999999
Q ss_pred CCCCChHHHHHHHHh
Q 012084 381 NRTASASEIVASALH 395 (471)
Q Consensus 381 ~~TaSaaE~fa~~lk 395 (471)
+.++|++-.++.+-.
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 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=74.28 E-value=5 Score=37.17 Aligned_cols=38 Identities=29% Similarity=0.407 Sum_probs=31.1
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCCchhhcCCCCCCEEEEEC
Q 012084 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVN 224 (471)
Q Consensus 182 iG~~~~~~~d~~g~~~~~V~~v~~~spA~~aGl~~GD~Il~In 224 (471)
.|+.+.. +++ ++.|..|..||||+++|+.-|++|++|-
T Consensus 113 ~GL~l~~---e~~--~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 113 AGLTLME---EGG--KVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred CCCEEEe---eCC--EEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 4666654 333 7899999999999999999999998874
No 82
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=72.65 E-value=23 Score=33.30 Aligned_cols=82 Identities=17% Similarity=0.139 Sum_probs=58.5
Q ss_pred CeEEEEEeCchhhhHHHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEec
Q 012084 287 TSVGYMRLKEFNALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (471)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (471)
.++-||. ...+......+.+.|..++. .+.+.++|.+- -+||++..+..+.+.+..
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 4555554 12233455678888877776 45788888886 678899988888876631
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHHhc
Q 012084 366 DNSPLVTAPVIVLVNNRTASASEIVASALHD 396 (471)
Q Consensus 366 ~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~ 396 (471)
.+.|+++++++..+|+|-+++.+-..
T Consensus 80 -----~~~~V~t~v~G~AaSaaslIl~ag~~ 105 (197)
T PRK14512 80 -----VKPKVFTIGVGLVASAAALIFLAAKK 105 (197)
T ss_pred -----CCCCEEEEEEeeeHhHHHHHHhcCCc
Confidence 13478999999999999998887654
No 83
>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=70.05 E-value=17 Score=35.78 Aligned_cols=72 Identities=25% Similarity=0.334 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECC
Q 012084 302 RKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNN 381 (471)
Q Consensus 302 ~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~ 381 (471)
.+.+.++++...+. +++.|.| +-+||.+.++..++.++... ..|+.|+|..
T Consensus 77 se~v~raI~~~~~~--~~IdLii-~TpGG~v~AA~~I~~~l~~~--------------------------~~~v~v~VP~ 127 (285)
T PF01972_consen 77 SEFVLRAIREAPKD--KPIDLII-HTPGGLVDAAEQIARALREH--------------------------PAKVTVIVPH 127 (285)
T ss_pred HHHHHHHHHhcCCC--CceEEEE-ECCCCcHHHHHHHHHHHHhC--------------------------CCCEEEEECc
Confidence 35566777655442 3344443 48999999999999887431 3478899999
Q ss_pred CCCChHHHHHHHHhcCCCeEEEccC
Q 012084 382 RTASASEIVASALHDNCRAVLVGEK 406 (471)
Q Consensus 382 ~TaSaaE~fa~~lk~~~~a~vVGe~ 406 (471)
.+.||+-++|.+..+ +++|..
T Consensus 128 ~A~SAGTlIALaADe----IvM~p~ 148 (285)
T PF01972_consen 128 YAMSAGTLIALAADE----IVMGPG 148 (285)
T ss_pred ccccHHHHHHHhCCe----EEECCC
Confidence 999999999887654 555553
No 84
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=66.01 E-value=27 Score=33.00 Aligned_cols=70 Identities=20% Similarity=0.256 Sum_probs=53.1
Q ss_pred hhHHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEE
Q 012084 299 ALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIV 377 (471)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~V 377 (471)
....+++...|..+...+ .+.+.|-+ +-+||++..+..+.+.+-. .+.|++.
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 445677888888777655 77888888 7788899888887776531 1236888
Q ss_pred EECCCCCChHHHHHHHHh
Q 012084 378 LVNNRTASASEIVASALH 395 (471)
Q Consensus 378 Lvd~~TaSaaE~fa~~lk 395 (471)
++.+.++|+|-+++.+-.
T Consensus 99 ~~~G~aaSaa~lI~~ag~ 116 (207)
T PRK12553 99 VCTGQAASAGAVLLAAGT 116 (207)
T ss_pred EEEeehhhHHHHHHHcCC
Confidence 889999999999888765
No 85
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=65.39 E-value=13 Score=37.69 Aligned_cols=69 Identities=23% Similarity=0.277 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEECC
Q 012084 303 KDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNN 381 (471)
Q Consensus 303 ~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd~ 381 (471)
+.+.+.++.+.. .++++++|++ +-|||.+..+..+++.+-.-. -++|++|.++.
T Consensus 83 ~~~~~~l~~~~~~~~vk~vvL~i-nSPGG~v~as~~i~~~l~~l~------------------------~~~PV~v~v~~ 137 (317)
T COG0616 83 DDIEEILRAARADPSVKAVVLRI-NSPGGSVVASELIARALKRLR------------------------AKKPVVVSVGG 137 (317)
T ss_pred HHHHHHHHHHhcCCCCceEEEEE-ECcCCchhHHHHHHHHHHHHh------------------------hcCCEEEEECC
Confidence 445555665544 4689988887 568999988888887763211 12399999999
Q ss_pred CCCChHHHHHHHHhc
Q 012084 382 RTASASEIVASALHD 396 (471)
Q Consensus 382 ~TaSaaE~fa~~lk~ 396 (471)
.++|++=++|.+-..
T Consensus 138 ~AASGGY~IA~aAd~ 152 (317)
T COG0616 138 YAASGGYYIALAADK 152 (317)
T ss_pred eecchhhhhhccCCE
Confidence 999999999887653
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=64.48 E-value=18 Score=32.69 Aligned_cols=69 Identities=20% Similarity=0.270 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHHHHhc-CCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEE
Q 012084 300 LARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (471)
Q Consensus 300 ~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VL 378 (471)
...+.+.+.|..+... +.+.++|-+ +-+||++..+..+.+.+.. .+.|+++.
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 3567788888877764 568999988 7788899888887776532 12367888
Q ss_pred ECCCCCChHHHHHHHHh
Q 012084 379 VNNRTASASEIVASALH 395 (471)
Q Consensus 379 vd~~TaSaaE~fa~~lk 395 (471)
+.+.++|++-+++.+-.
T Consensus 65 ~~g~aaS~~~~i~~a~~ 81 (162)
T cd07013 65 IDGLAASMGSVIAMAGA 81 (162)
T ss_pred EEeehhhHHHHHHHcCC
Confidence 88999999988877654
No 87
>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=64.12 E-value=22 Score=32.47 Aligned_cols=71 Identities=14% Similarity=0.146 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
...++.++++++.+ ..++++||++. .+||.+.....+...+.. + ....+|++..+
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~-~~gg~~~~~~~~~~~i~~------------------~-----~~~~kpVia~v 78 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAA------------------A-----RAAGKPVVASG 78 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEee-CCCcCHHHHHHHHHHHHH------------------H-----HhCCCCEEEEE
Confidence 34678888887754 46899999994 567766544333222110 0 01357999999
Q ss_pred CCCCCChHHHHHHHHh
Q 012084 380 NNRTASASEIVASALH 395 (471)
Q Consensus 380 d~~TaSaaE~fa~~lk 395 (471)
++.++|++=.++.+..
T Consensus 79 ~G~a~g~g~~la~a~D 94 (177)
T cd07014 79 GGNAASGGYWISTPAN 94 (177)
T ss_pred CCchhHHHHHHHHhCC
Confidence 9999999888877653
No 88
>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=60.99 E-value=14 Score=33.80 Aligned_cols=82 Identities=20% Similarity=0.252 Sum_probs=56.2
Q ss_pred CeEEEEEeCchhhhHHHHHHHHHHHHH-hcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEec
Q 012084 287 TSVGYMRLKEFNALARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (471)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~-~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (471)
+++-||.= .-+....+.+.+.|..+. +...+.+.|-+ +.+||.+..+..+.+.+..-
T Consensus 16 ~r~i~l~g-~I~~~~~~~~~~~L~~l~~~~~~~~i~i~I-NSpGG~v~~g~~i~~~i~~~-------------------- 73 (182)
T PF00574_consen 16 ERIIFLNG-PIDEESANRLISQLLYLENEDKNKPINIYI-NSPGGDVDAGLAIYDAIRSS-------------------- 73 (182)
T ss_dssp TTEEEEES-SBSHHHHHHHHHHHHHHHHHTSSSEEEEEE-EECEBCHHHHHHHHHHHHHS--------------------
T ss_pred CeEEEECC-ccCHHHHHHHHHHHHHHhccCCCceEEEEE-cCCCCccHHHHHHHHHHHhc--------------------
Confidence 44445442 223344566666666664 34577888888 77999999999988877432
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHHhc
Q 012084 366 DNSPLVTAPVIVLVNNRTASASEIVASALHD 396 (471)
Q Consensus 366 ~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~ 396 (471)
+.|+...+.+.++|+|-+++.+-+.
T Consensus 74 ------~~~v~t~~~G~aaSaa~~i~~ag~~ 98 (182)
T PF00574_consen 74 ------KAPVTTVVLGLAASAATLIFLAGDK 98 (182)
T ss_dssp ------SSEEEEEEEEEEETHHHHHHHTSST
T ss_pred ------CCCeEEEEeCccccceehhhhcCCc
Confidence 2367777778999999888877655
No 89
>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=58.23 E-value=32 Score=31.26 Aligned_cols=68 Identities=19% Similarity=0.253 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
..+++...+..+...+ .+.++|-+ +-+||.+..+..+.+.+-. .+.|+++.+
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 4556777777776544 48888888 7788888888888876521 125788888
Q ss_pred CCCCCChHHHHHHHHh
Q 012084 380 NNRTASASEIVASALH 395 (471)
Q Consensus 380 d~~TaSaaE~fa~~lk 395 (471)
.+.++|+|-+++.+-.
T Consensus 75 ~g~aaS~~~~i~~~g~ 90 (171)
T cd07017 75 LGLAASMGALLLAAGT 90 (171)
T ss_pred EeEehhHHHHHHHcCC
Confidence 8999999988777653
No 90
>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=57.45 E-value=43 Score=31.41 Aligned_cols=70 Identities=20% Similarity=0.319 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
...++.+++..+.+ .+++++||++ +.+||.+..+..+...+.. + ....+|++..+
T Consensus 18 ~~~~l~~~l~~a~~d~~i~~ivl~~-~s~Gg~~~~~~~i~~~i~~------------------~-----~~~~kpvia~v 73 (208)
T cd07023 18 GADSLIEQLRKAREDDSVKAVVLRI-NSPGGSVVASEEIYREIRR------------------L-----RKAKKPVVASM 73 (208)
T ss_pred CHHHHHHHHHHHHhCCCCcEEEEEE-ECCCCCHHHHHHHHHHHHH------------------H-----HhcCCcEEEEE
Confidence 44677788887754 4699999999 4588887665444332210 0 01257999999
Q ss_pred CCCCCChHHHHHHHH
Q 012084 380 NNRTASASEIVASAL 394 (471)
Q Consensus 380 d~~TaSaaE~fa~~l 394 (471)
++.++|++=.++.+.
T Consensus 74 ~g~~~s~g~~lA~aa 88 (208)
T cd07023 74 GDVAASGGYYIAAAA 88 (208)
T ss_pred CCcchhHHHHHHhhC
Confidence 999999887777654
No 91
>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=50.83 E-value=96 Score=29.22 Aligned_cols=79 Identities=25% Similarity=0.308 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
...++.++++++.+ ..++++||++.. +||....+..+...+.. + .. .+|++..+
T Consensus 26 ~~~~l~~~l~~a~~d~~i~~Vvl~~~s-~gg~~~~~~~l~~~l~~------------------~-----~~-~KpViA~v 80 (214)
T cd07022 26 SYEGIAAAIRAALADPDVRAIVLDIDS-PGGEVAGVFELADAIRA------------------A-----RA-GKPIVAFV 80 (214)
T ss_pred cHHHHHHHHHHHhhCCCCcEEEEEEeC-CCCcHHHHHHHHHHHHH------------------H-----hc-CCCEEEEE
Confidence 45678888887754 469999999844 67776655444443311 0 01 47999999
Q ss_pred CCCCCChHHHHHHHHhcCCCeEEEccCCCC
Q 012084 380 NNRTASASEIVASALHDNCRAVLVGEKTFG 409 (471)
Q Consensus 380 d~~TaSaaE~fa~~lk~~~~a~vVGe~T~G 409 (471)
++.++|++=.++.+.. .++-.+++-
T Consensus 81 ~g~a~s~gy~lA~~aD-----~i~a~~~a~ 105 (214)
T cd07022 81 NGLAASAAYWIASAAD-----RIVVTPTAG 105 (214)
T ss_pred CCchhhHHHHHHhcCC-----EEEEcCCCe
Confidence 9999988887777553 345555544
No 92
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=47.91 E-value=19 Score=37.21 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=29.0
Q ss_pred EEEEEEEcCCCchhh-cCCCCCCEEEEECCEEcCCC
Q 012084 197 TLKVLGLILDGPAHS-AGVRQGDEVLAVNGVDVRGK 231 (471)
Q Consensus 197 ~~~V~~v~~~spA~~-aGl~~GD~Il~InG~~v~~~ 231 (471)
++.|++|...||+.- -||.+||.|.++||-++...
T Consensus 221 gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v 256 (484)
T KOG2921|consen 221 GVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKV 256 (484)
T ss_pred eEEEEeccccCCCcCcccCCccceEEecCCcccCCH
Confidence 677888888888643 28999999999999999874
No 93
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=42.04 E-value=84 Score=29.46 Aligned_cols=67 Identities=19% Similarity=0.211 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHHHhc-CCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEE
Q 012084 300 LARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (471)
Q Consensus 300 ~~~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VL 378 (471)
...+.+...+..+... +.+.+.|.+ +-+||.+..+..+.+.+-. .+.|++.+
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 3456667777666543 356788888 7788999888888775521 12468888
Q ss_pred ECCCCCChHHHHHHH
Q 012084 379 VNNRTASASEIVASA 393 (471)
Q Consensus 379 vd~~TaSaaE~fa~~ 393 (471)
+++.++|++-+++.+
T Consensus 96 ~~G~aaS~a~~I~~a 110 (200)
T PRK00277 96 CIGQAASMGAFLLAA 110 (200)
T ss_pred EEeEeccHHHHHHhc
Confidence 899999999988887
No 94
>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=41.39 E-value=83 Score=29.62 Aligned_cols=69 Identities=16% Similarity=0.177 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHhc-CCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEEC
Q 012084 302 RKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (471)
Q Consensus 302 ~~~l~~~l~~l~~~-~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLvd 380 (471)
..++.++++++... .++++||++ +.+||++....++...+. .+ ....+|++..++
T Consensus 23 ~~~l~~~l~~a~~d~~v~~ivL~~-~s~Gg~~~~~~~~~~~l~------------------~~-----~~~~kpVia~v~ 78 (211)
T cd07019 23 GDTTAAQIRDARLDPKVKAIVLRV-NSPGGSVTASEVIRAELA------------------AA-----RAAGKPVVVSAG 78 (211)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEE-cCCCcCHHHHHHHHHHHH------------------HH-----HhCCCCEEEEEC
Confidence 46788888887654 689999995 458888876555543220 00 012579999999
Q ss_pred CCCCChHHHHHHHH
Q 012084 381 NRTASASEIVASAL 394 (471)
Q Consensus 381 ~~TaSaaE~fa~~l 394 (471)
+.++|++=.++.+.
T Consensus 79 g~a~s~gy~la~~a 92 (211)
T cd07019 79 GAAASGGYWISTPA 92 (211)
T ss_pred CeehhHHHHHHHhC
Confidence 99999988888764
No 95
>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=39.41 E-value=97 Score=28.82 Aligned_cols=67 Identities=19% Similarity=0.217 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEecCCCCCCCCCEEEEE
Q 012084 301 ARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (471)
Q Consensus 301 ~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~pi~VLv 379 (471)
..+.+...|..+...+ .+.+.|.+ +-+||.+..+..+.+.+-. .+.|+..++
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 3456666666665432 46677777 6678999888888876521 124677788
Q ss_pred CCCCCChHHHHHHHH
Q 012084 380 NNRTASASEIVASAL 394 (471)
Q Consensus 380 d~~TaSaaE~fa~~l 394 (471)
.+.++|+|-+++++-
T Consensus 92 ~G~AaSaaslI~~aG 106 (191)
T TIGR00493 92 IGQAASMGAFLLSAG 106 (191)
T ss_pred EEeeccHHHHHHhcC
Confidence 899999998887653
No 96
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=39.12 E-value=77 Score=29.73 Aligned_cols=80 Identities=16% Similarity=0.158 Sum_probs=53.6
Q ss_pred CeEEEEEeCchhhhHHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEec
Q 012084 287 TSVGYMRLKEFNALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (471)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (471)
++|-||-- ..+....+++...|..|...+ .+.+.|=+ +-+||++..+..+.+.+-
T Consensus 25 ~Riifl~~-~i~~~~a~~ii~~Ll~l~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~---------------------- 80 (196)
T PRK12551 25 ERIIFLGE-PVTSDSANRIVAQLLFLEAEDPEKDIYLYI-NSPGGSVYDGLGIFDTMQ---------------------- 80 (196)
T ss_pred CcEEEECC-eecHHHHHHHHHHHHHhhccCCCCCEEEEE-eCCCcchhhHHHHHHHHH----------------------
Confidence 45545421 123335567777777776543 45666655 567899988887776552
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHH
Q 012084 366 DNSPLVTAPVIVLVNNRTASASEIVASAL 394 (471)
Q Consensus 366 ~~~~~~~~pi~VLvd~~TaSaaE~fa~~l 394 (471)
..+.||..++.+..+|+|-+++++=
T Consensus 81 ----~~~~~V~t~~~G~AaS~AslIl~aG 105 (196)
T PRK12551 81 ----HVKPDVHTVCVGLAASMGAFLLCAG 105 (196)
T ss_pred ----hcCCCEEEEEEEEehhHHHHHHhCC
Confidence 1235789999999999999888764
No 97
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=34.62 E-value=22 Score=35.58 Aligned_cols=33 Identities=36% Similarity=0.535 Sum_probs=29.0
Q ss_pred EEEEEEEcCCCchhhcCCCCCCEEEEECCEEcC
Q 012084 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVR 229 (471)
Q Consensus 197 ~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~ 229 (471)
-+-|.+|.+.+||+++|.-.||.|+.+|+-++.
T Consensus 64 ~l~~lrv~~~~~~e~~~~~~~dyilg~n~Dp~~ 96 (417)
T COG5233 64 LLEVLRVNPESPAEKAGMVVGDYILGINEDPLR 96 (417)
T ss_pred hhhheeccccChhHhhccccceeEEeecCCcHH
Confidence 356788899999999999999999999987764
No 98
>cd07041 STAS_RsbR_RsbS_like Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.
Probab=34.22 E-value=96 Score=25.36 Aligned_cols=45 Identities=16% Similarity=0.046 Sum_probs=28.7
Q ss_pred CeEEEEEeCc-hhhhHHHHHHHHH-HHHHhcCCcEEEEeccCCCCcc
Q 012084 287 TSVGYMRLKE-FNALARKDLVTAM-KRLQDMGASYFILDLRDNLGGL 331 (471)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l-~~l~~~~~~~LIIDLR~N~GG~ 331 (471)
+++..+++.. +.....+.+.+.+ ..+.+.+.+.+|||+++=+-=+
T Consensus 9 ~~~~v~~l~G~L~~~~a~~~~~~l~~~~~~~~~~~vvlDls~v~~iD 55 (109)
T cd07041 9 DGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVID 55 (109)
T ss_pred CCEEEEeeeeeECHHHHHHHHHHHHHHHHHcCCCEEEEECCCCchhc
Confidence 3466666653 4445566777755 4454457889999998654333
No 99
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=33.56 E-value=93 Score=34.63 Aligned_cols=55 Identities=22% Similarity=0.221 Sum_probs=43.8
Q ss_pred eEEEEEEEcCCCchhhcCCCCCCEEEEECCEEcCCCCHHHHHHhhC-CCCCcEEEEEEE
Q 012084 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVK 253 (471)
Q Consensus 196 ~~~~V~~v~~~spA~~aGl~~GD~Il~InG~~v~~~~~~~~~~ll~-g~~g~~v~l~v~ 253 (471)
.+++|...-.+|||.. +|+.--.|++|||..+..+ ++....++ -+.++.|+++..
T Consensus 862 ~gvyvt~rg~gspalq-~l~aa~fitavng~~t~~l--ddf~~~~~~ipdnsyv~v~~m 917 (955)
T KOG1421|consen 862 EGVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTL--DDFYHMLLEIPDNSYVQVKQM 917 (955)
T ss_pred CceEEeecccCChhHh-hcchheeEEEecccccCcH--HHHHHHHhhCCCCceEEEEEe
Confidence 3688999999999988 9999999999999999886 56555554 356667776654
No 100
>TIGR03043 PS_II_psbZ photosystem II core protein PsbZ. PsbZ is a core protein of photosystem II in thylakoid-containing Cyanobacteria and plant chloroplasts. The original Chlamydomonas gene symbol, ycf9, is a synonym. PsbZ controls the interaction of the reaction center core with the light-harvesting antenna.
Probab=31.42 E-value=40 Score=25.16 Aligned_cols=25 Identities=32% Similarity=0.396 Sum_probs=19.9
Q ss_pred HHHHHHHhhhhccCccccccCCCcC
Q 012084 46 VLTGALSFNLLLSSPLALESSSSVQ 70 (471)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (471)
.+.+++|+.+.++.|..+++|+.=+
T Consensus 7 ~aLi~~Sf~LVVgVPV~~Asp~~W~ 31 (58)
T TIGR03043 7 LALVLLSFVLVVGVPVALASPGGWS 31 (58)
T ss_pred HHHHHHHHHHHhhceeEEeCCCcch
Confidence 4455779999999999999986444
No 101
>CHL00082 psbZ photosystem II protein Z
Probab=30.65 E-value=41 Score=25.42 Aligned_cols=25 Identities=24% Similarity=0.282 Sum_probs=19.6
Q ss_pred HHHHHHHhhhhccCccccccCCCcC
Q 012084 46 VLTGALSFNLLLSSPLALESSSSVQ 70 (471)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (471)
++.+++|+.+.++.|..+++|+.=+
T Consensus 10 ~aLi~~Sf~LVVgVPV~~Asp~~W~ 34 (62)
T CHL00082 10 FALIATSFLLVIGVPVVFASPDGWS 34 (62)
T ss_pred HHHHHHHHHHHheeeeEEECCCcch
Confidence 3445779999999999999985443
No 102
>PRK02576 psbZ photosystem II reaction center protein Z; Provisional
Probab=30.58 E-value=41 Score=25.45 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=19.0
Q ss_pred HHHHHHHhhhhccCccccccCCCc
Q 012084 46 VLTGALSFNLLLSSPLALESSSSV 69 (471)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~ 69 (471)
.+.+++++.+.++.|..+++|+.=
T Consensus 10 ~aLi~~SfiLVVgVPV~~Asp~gW 33 (62)
T PRK02576 10 LALVVMSFVLVVGVPVAYASPQNW 33 (62)
T ss_pred HHHHHHHHHHHheeeeEEECCCcc
Confidence 344577999999999999998543
No 103
>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=28.34 E-value=3.8e+02 Score=29.56 Aligned_cols=95 Identities=20% Similarity=0.185 Sum_probs=60.2
Q ss_pred CCeEEEEEeCchhh--------hHHHHHHHHHHHHHh-cCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccC
Q 012084 286 TTSVGYMRLKEFNA--------LARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRD 356 (471)
Q Consensus 286 ~~~igYi~i~sF~~--------~~~~~l~~~l~~l~~-~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~ 356 (471)
+++|+.|.+..--. ...+.+.+.+++..+ ..++++||.+- .|||+...+..+.+.+..
T Consensus 307 ~~~vavI~~~G~I~~~~~~~~~~~~~~~~~~l~~a~~D~~VkaIVLrin-SpGGs~~ase~i~~~i~~------------ 373 (584)
T TIGR00705 307 QDKIGIVHLEGPIADGRDTEGNTGGDTVAALLRVARSDPDIKAVVLRIN-SPGGSVFASEIIRRELAR------------ 373 (584)
T ss_pred CCeEEEEEEEEEEcCCCCcccccCHHHHHHHHHHHhhCCCceEEEEEec-CCCCCHHHHHHHHHHHHH------------
Confidence 56788888764311 123456666666543 46899998875 566776665555443321
Q ss_pred cccceeEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCC
Q 012084 357 PQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (471)
Q Consensus 357 ~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G 409 (471)
+. ...+||++.+++.++|++=.++.+.. .++-+++.-
T Consensus 374 ------~~-----~~gKPVva~~~g~aaSggY~iA~aaD-----~I~a~p~t~ 410 (584)
T TIGR00705 374 ------AQ-----ARGKPVIVSMGAMAASGGYWIASAAD-----YIVASPNTI 410 (584)
T ss_pred ------HH-----hCCCcEEEEECCccccHHHHHHHhCC-----EEEECCCCe
Confidence 00 11379999999999999988888764 355566543
No 104
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=26.53 E-value=72 Score=27.14 Aligned_cols=29 Identities=17% Similarity=0.218 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCcEEEEeccCCCC----ccHHH
Q 012084 305 LVTAMKRLQDMGASYFILDLRDNLG----GLVQA 334 (471)
Q Consensus 305 l~~~l~~l~~~~~~~LIIDLR~N~G----G~~~~ 334 (471)
+++++..+++.+++ +++|+|.+|. |.-..
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 45666667777776 8999999999 86543
No 105
>COG4702 Uncharacterized conserved protein [Function unknown]
Probab=25.77 E-value=72 Score=28.66 Aligned_cols=37 Identities=16% Similarity=0.186 Sum_probs=30.4
Q ss_pred EEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCC
Q 012084 291 YMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDN 327 (471)
Q Consensus 291 Yi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N 327 (471)
-+.+++|+....=.+-..++++..++..+++||++=|
T Consensus 20 ~l~f~~fd~~dAf~LG~~IR~~a~k~~~piaIDItL~ 56 (168)
T COG4702 20 RLQFSSFDYADAFSLGTYIRRAAKKNKLPIAIDITLN 56 (168)
T ss_pred hhccccCcHHHHHHHHHHHHHHHHhcCCCEEEEEEEC
Confidence 3577889877777788888888777789999999988
No 106
>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=25.71 E-value=2.2e+02 Score=22.27 Aligned_cols=53 Identities=21% Similarity=0.122 Sum_probs=30.3
Q ss_pred eEEEEEeCc-hhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHh
Q 012084 288 SVGYMRLKE-FNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAK 340 (471)
Q Consensus 288 ~igYi~i~s-F~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~ 340 (471)
++..+++.. +.....+.+.+.+......+.+.+|||+++-..=+...+..+..
T Consensus 8 ~~~ii~l~G~l~~~~~~~~~~~~~~~~~~~~~~viid~~~v~~iDs~g~~~L~~ 61 (99)
T cd07043 8 GVLVVRLSGELDAATAPELREALEELLAEGPRRLVLDLSGVTFIDSSGLGVLLG 61 (99)
T ss_pred CEEEEEEeceecccchHHHHHHHHHHHHcCCCEEEEECCCCCEEcchhHHHHHH
Confidence 344444432 22223455666666554445789999999977666554443333
No 107
>PF03921 ICAM_N: Intercellular adhesion molecule (ICAM), N-terminal domain; InterPro: IPR013768 Intercellular adhesion molecules (ICAMs) and vascular cell adhesion molecule-1 (VCAM-1) are part of the immunoglobulin superfamily. They are important in inflammation, immune responses and in intracellular signalling events []. The ICAM family consists of five members, designated ICAM-1 to ICAM-5. They are known to bind to leucocyte integrins CD11/CD18 during inflammation and in immune responses. In addition, ICAMs may exist in soluble forms in human plasma, due to activation and proteolysis mechanisms at cell surfaces. ICAM-1 (CD54) contains five Ig-like domains. It is expressed on leucocytes, endothelial and epithelial cells, and is upregulated in response to bacterial invasion. The protein is a ligand for lymphocyte-function associated (LFA) antigens and also a receptor for CD11a,b/CD18, fibrinogen, human rhinovirus and Plasmodium falciparum-infected erythrocytes. ICAM-1 binding sites for CD11a/CD18 and its other binding partners are located in the first domain and are overlapping. ICAM-1 domain 2 seems to play an important role in maintaining the conformation of domain 1 and particularly the structural integrity of the LFA-1 ligand-binding site []. The 3-dimensional atomic structure of the tandem N-terminal Ig-like domains (D1 and D2) of ICAM-1 has been determined to 2.2A resolution and fitted into a cryoelectron microscopy reconstruction of a rhinovirus-ICAM-1 complex []. Extensive charge interactions between ICAM-1 and human rhinovirusesare largely conserved in major and minor receptor groups of rhinoviruses. The interaction of ICAMs with LFA-1 is mediated by a divalent cation bound to the insertion (I)-domain on the alpha chain of LFA-1 and the carboxyl group of a conserved glutamic acid residue on ICAMs. ICAM-2 (CD102) has two Ig-like domains. It is expressed on endothelial cells, leucocytes and platelets, and binds to CD11a'b/CD18. The protein is refractory to proinflammatory cytokines, and plays an important role in the adhesion of leucocytes to the uninduced endothelium []. ICAM-3 (CD50) contains five Ig-like domains and binds to leucocyte integrins CD11a'd/CD18. The protein plays an important role in the immune response and perhaps in signal transduction []. ICAM-4 (LW blood group Ag) is red blood cell (RBC) specific and binds to CD11a'b/CD18. It is associated with the RBC Rh antigens and could be important in retaining immature red cells in the bone marrow, or in the uptake of senescent cells into the spleen []. ICAM-5 (telencephalin) has nine Ig-like domains and is confined to the telencephalon of the brain. The role of this CD11a/CD18 binding molecule is not yet known []. VCAM-1 was first described as a cytokine-inducible endothelial adhesion molecule. It can bind to leucocyte integrin VL-4 (very late antigen-4) to recruit leucocytes to sites of inflammation []. The predominant form of VCAM-1 in vivo has an N-terminal extracellular region comprising seven Ig-like domains []. A conserved integrin-binding motif has been identified in domains 1 and 4, variants of which are present in the N-terminal domain of all members of the integrin-binding subgroup of the immunoglobulin superfamily. The structure of a VLA-4-binding fragment comprising the first two domains of VCAM-1 has been determined to 1.8A resolution. The integrin-binding motif is exposed and forms the N-terminal region of the loop between beta-strands C and D of domain 1 []. VCAM-1 domains 1 and 2 are structurally similar to ICAM-1 and ICAM-2 []. This entry represents the N-terminal domain of ICAM proteins such as ICAM-2, ICAM-3 and ICAM-4.; PDB: 3BN3_B 1T0P_B 1ZXQ_A 3TCX_A 1MQ8_A 1Z7Z_I 1IC1_A 1IAM_A.
Probab=25.55 E-value=29 Score=28.42 Aligned_cols=7 Identities=57% Similarity=1.023 Sum_probs=3.5
Q ss_pred ccceecC
Q 012084 3 SLILNCS 9 (471)
Q Consensus 3 ~~~~~~~ 9 (471)
|+.+|||
T Consensus 20 Sv~VNCS 26 (91)
T PF03921_consen 20 SVWVNCS 26 (91)
T ss_dssp EEEEEEE
T ss_pred CEEEEEc
Confidence 4455554
No 108
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=24.61 E-value=63 Score=37.55 Aligned_cols=57 Identities=23% Similarity=0.395 Sum_probs=38.1
Q ss_pred ccceeeeEEEEEeeCCCCceEEEEEEEcCCCchhhcC-CCCCCEEEEECCEEcCCCCHHHH
Q 012084 177 YDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEV 236 (471)
Q Consensus 177 ~~~~giG~~~~~~~d~~g~~~~~V~~v~~~spA~~aG-l~~GD~Il~InG~~v~~~~~~~~ 236 (471)
...+++|+.+..-... .++++..+..++.|...| ++.||.++..+|+++.+....++
T Consensus 1254 ~p~~~~~~~~~~~~~s---~~~~~~~~~~~~~a~~~~~~r~g~~~~~~~~~~~~~~~p~~~ 1311 (1332)
T KOG4371|consen 1254 KPMATLGLSLAKRTMS---DGIFIRNIAQDSAASSEGTLRVGDRLVSLDGEPVDGFTPATI 1311 (1332)
T ss_pred cccccccccccccCcC---CceeeecccccccccccccccccceeeccCCccCCCCChHHH
Confidence 3456777776542212 245665555555555545 99999999999999998865444
No 109
>PF07005 DUF1537: Protein of unknown function, DUF1537; InterPro: IPR010737 This entry represents a conserved region found in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. This entry includes YgbK from Escherichia coli, which is dependent upon FlhDC, the master regulator of the flagellar genes. The ygbK gene appears to be regulated by sigmaF [].; PDB: 3DQQ_B 1YZY_B.
Probab=23.70 E-value=4.1e+02 Score=24.81 Aligned_cols=104 Identities=19% Similarity=0.249 Sum_probs=57.1
Q ss_pred CCeEEEEEeCchhhhHHHHHHHHHHHHHhcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcc-------
Q 012084 286 TTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQ------- 358 (471)
Q Consensus 286 ~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~------- 358 (471)
+.++++|.+.....+ .+.+.+.+.++.+.+.+-+|+|-..+ .....++..+...+..+++.. -.+-
T Consensus 3 ~~~v~~i~l~~v~~g-~~~l~~~l~~~~~~g~~ivV~Da~t~-----~DL~~ia~a~~~~~~~~l~vG-sagla~aL~~~ 75 (223)
T PF07005_consen 3 KRPVGLIDLEDVRRG-PEALSAALAALQAEGARIVVFDAETD-----EDLDAIAEALLELGRRVLWVG-SAGLAAALARA 75 (223)
T ss_dssp SSEEEEE-HHHHCC--HHHHHHHHHHHHHTTECEEEE-BSSC-----HHHHHHHHHCTT-S---EEEE-SCHHHHHHHHH
T ss_pred CCceEEEEHHHHhCc-HHHHHHHHHHHHhCCCcEEEEecCCH-----HHHHHHHHHHHhCCCceEEec-chHHHHHHHhh
Confidence 467889998888553 56788899999888889999995554 444567777766554433321 1100
Q ss_pred --cceeEec-CCCCC-CCCCEEEEECCCCCChHHHHHHHHhcC
Q 012084 359 --YQKTIVA-DNSPL-VTAPVIVLVNNRTASASEIVASALHDN 397 (471)
Q Consensus 359 --~~~~~~~-~~~~~-~~~pi~VLvd~~TaSaaE~fa~~lk~~ 397 (471)
....... ...+. ..+|+.++++..+.=..+.+..+ ++.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~Lvv~GS~s~~T~~Qi~~l-~~~ 117 (223)
T PF07005_consen 76 LASPPEQPSQPPLPSPSRGPVLVVVGSVSPVTRRQIAYL-EQA 117 (223)
T ss_dssp HHTT--C---CCCCS--SSEEEEEE---SHHHHHHHHHH--CC
T ss_pred hccCcccccccccccCCCCCeEEEEcCCCHHHHHHHHHH-HHC
Confidence 0000000 00111 17899999988777777777777 543
No 110
>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=23.25 E-value=2.2e+02 Score=23.37 Aligned_cols=65 Identities=17% Similarity=0.107 Sum_probs=40.2
Q ss_pred CeEEEEEeCc-hhhhHHHHHHHHHHHHHhcC---------CcEEEEeccCCCCccHHHHHH---HHhhcccCCceEEE
Q 012084 287 TSVGYMRLKE-FNALARKDLVTAMKRLQDMG---------ASYFILDLRDNLGGLVQAGIE---IAKLFLNEGETITY 351 (471)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l~~l~~~~---------~~~LIIDLR~N~GG~~~~~~~---la~~f~~~~~~~~~ 351 (471)
+++..+++.. +.....+.+.+.+.++...+ .+.+|||+++-..=+...+.. +...+-..+..+..
T Consensus 8 ~~v~ii~~~g~l~f~~~~~~~~~i~~~~~~~~~~~~~~~~~~~vIlD~s~v~~iDssgi~~L~~~~~~~~~~g~~~~l 85 (117)
T PF01740_consen 8 DGVLIIRLDGPLFFANAEEFRDRIRKLIDEDPERIKKRQTIKNVILDMSGVSFIDSSGIQALVDIIKELRRRGVQLVL 85 (117)
T ss_dssp TTEEEEEEESEESHHHHHHHHHHHHHHHCCSSS--HTSSSSSEEEEEETTESEESHHHHHHHHHHHHHHHHTTCEEEE
T ss_pred CCEEEEEEeeEEEHHHHHHHHHHHHHhhhcccccccccccceEEEEEEEeCCcCCHHHHHHHHHHHHHHHHCCCEEEE
Confidence 4566777753 33345677888877776655 589999999987666544333 33334444544444
No 111
>PRK14513 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=22.33 E-value=2.9e+02 Score=26.03 Aligned_cols=80 Identities=16% Similarity=0.213 Sum_probs=53.0
Q ss_pred CeEEEEEeCchhhhHHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEec
Q 012084 287 TSVGYMRLKEFNALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (471)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (471)
.+|.||-- ..+....+.+...|..|...+ .+.+-|=+ +-+||++..+..+.+.+-
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 56666622 333445667777776676543 34455544 668899988877776552
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHH
Q 012084 366 DNSPLVTAPVIVLVNNRTASASEIVASAL 394 (471)
Q Consensus 366 ~~~~~~~~pi~VLvd~~TaSaaE~fa~~l 394 (471)
..+.||..++.+..+|+|-+++++=
T Consensus 83 ----~~~~~V~Ti~~G~AaS~As~il~aG 107 (201)
T PRK14513 83 ----YIKAPVSTICVGIAMSMGSVLLMAG 107 (201)
T ss_pred ----hcCCCEEEEEEeeehhhHHHHHhcC
Confidence 1235799999999999998887543
No 112
>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=21.84 E-value=2.3e+02 Score=22.85 Aligned_cols=47 Identities=13% Similarity=0.046 Sum_probs=30.2
Q ss_pred CeEEEEEeCc-hhhhHHHHHHHHHHHHH-hcCCcEEEEeccCCCCccHH
Q 012084 287 TSVGYMRLKE-FNALARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQ 333 (471)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l~~l~-~~~~~~LIIDLR~N~GG~~~ 333 (471)
+++..+++.. +.....+.|.+.+.++- ..+.+.+|||+++-.-=+..
T Consensus 7 ~~~~vi~l~G~L~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~iDss 55 (106)
T TIGR02886 7 GDVLIVRLSGELDHHTAERVRRKIDDAIERRPIKHLILNLKNVTFMDSS 55 (106)
T ss_pred CCEEEEEEecccchhhHHHHHHHHHHHHHhCCCCEEEEECCCCcEecch
Confidence 4566666653 23335566777776543 34689999999988755543
No 113
>PRK10949 protease 4; Provisional
Probab=21.38 E-value=3.7e+02 Score=29.95 Aligned_cols=86 Identities=16% Similarity=0.189 Sum_probs=57.6
Q ss_pred CCeEEEEEeCchh-h-------hHHHHHHHHHHHHH-hcCCcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccC
Q 012084 286 TTSVGYMRLKEFN-A-------LARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRD 356 (471)
Q Consensus 286 ~~~igYi~i~sF~-~-------~~~~~l~~~l~~l~-~~~~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~ 356 (471)
.++|+.|.+..-- . ...+.+.+.|++.. +..++++||++- .|||....+..|.+.+..- |
T Consensus 325 ~~~Iavi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrIn-SpGGs~~ase~i~~~i~~~---------r- 393 (618)
T PRK10949 325 GGSIAVIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAAA---------R- 393 (618)
T ss_pred CCeEEEEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEec-CCCCcHHHHHHHHHHHHHH---------H-
Confidence 5678888886531 1 12345566666554 457999999986 5677776666666554310 0
Q ss_pred cccceeEecCCCCCCCCCEEEEECCCCCChHHHHHHHHh
Q 012084 357 PQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALH 395 (471)
Q Consensus 357 ~~~~~~~~~~~~~~~~~pi~VLvd~~TaSaaE~fa~~lk 395 (471)
...+||++-+++..+|++=.+|.+..
T Consensus 394 -------------~~gKPVvas~~~~aASggY~iA~aad 419 (618)
T PRK10949 394 -------------AAGKPVVVSMGGMAASGGYWISTPAN 419 (618)
T ss_pred -------------hcCCcEEEEECCCCccHHHHHHHhcC
Confidence 11479999999999999888887763
No 114
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=21.29 E-value=75 Score=24.48 Aligned_cols=20 Identities=35% Similarity=0.699 Sum_probs=15.7
Q ss_pred ccccchhhHHHHHHHHHHHH
Q 012084 32 IQSNTNWAKKAVINVLTGAL 51 (471)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~ 51 (471)
|..+++|..++.+++++.++
T Consensus 46 I~~n~kW~~r~iiGaiI~~i 65 (71)
T PF10779_consen 46 IKSNTKWIWRTIIGAIITAI 65 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34568999999988888755
No 115
>PRK11778 putative inner membrane peptidase; Provisional
Probab=20.59 E-value=7.7e+02 Score=25.16 Aligned_cols=45 Identities=20% Similarity=0.220 Sum_probs=29.8
Q ss_pred CCCEEEEECCCCCChHHHHHHHHhcCCCeEEEccCCCCCceeceEEECCC
Q 012084 372 TAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHD 421 (471)
Q Consensus 372 ~~pi~VLvd~~TaSaaE~fa~~lk~~~~a~vVGe~T~G~g~~~~~~~L~~ 421 (471)
.+|+++.+++.++|++=++|.+.. .|+=.+++.-|........++
T Consensus 154 ~kpVva~v~~~AASggY~iAsaAD-----~I~A~P~a~vGSIGVi~~~~~ 198 (330)
T PRK11778 154 GIPLTVAVDKVAASGGYMMACVAD-----KIIAAPFAIVGSIGVVAQIPN 198 (330)
T ss_pred CCCEEEEECCchhhHHHHHHHhCC-----EEEECCCCeEEeeeeeeeccC
Confidence 369999999999999988887653 355555555444333334443
No 116
>CHL00028 clpP ATP-dependent Clp protease proteolytic subunit
Probab=20.16 E-value=2.5e+02 Score=26.35 Aligned_cols=80 Identities=16% Similarity=0.163 Sum_probs=52.5
Q ss_pred CeEEEEEeCchhhhHHHHHHHHHHHHHhcC-CcEEEEeccCCCCccHHHHHHHHhhcccCCceEEEEeccCcccceeEec
Q 012084 287 TSVGYMRLKEFNALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (471)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~~~-~~~LIIDLR~N~GG~~~~~~~la~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (471)
++|-||--+ .+....+++-..+-.|+..+ .+.+.|=+ +-+||++..+..+.+.+-.
T Consensus 30 ~Riifl~~~-i~~~~a~~ii~~ll~L~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~~--------------------- 86 (200)
T CHL00028 30 ERLLFLGQE-VDDEIANQLIGLMVYLSIEDDTKDLYLFI-NSPGGSVISGLAIYDTMQF--------------------- 86 (200)
T ss_pred CCEEEECCe-ecHHHHHHHHHHHHHHhccCCCCCEEEEE-eCCCcchhhHHHHHHHHHh---------------------
Confidence 555555321 23335567777777776543 56665555 5688888888777765521
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHH
Q 012084 366 DNSPLVTAPVIVLVNNRTASASEIVASAL 394 (471)
Q Consensus 366 ~~~~~~~~pi~VLvd~~TaSaaE~fa~~l 394 (471)
.+.|+...+.+..+|+|-+++++=
T Consensus 87 -----~~~~V~Tv~~G~AaS~aslIl~aG 110 (200)
T CHL00028 87 -----VKPDVHTICLGLAASMASFILAGG 110 (200)
T ss_pred -----cCCCEEEEEEEehHHHHHHHHhCC
Confidence 235788999999999998887754
Done!