Query 012890
Match_columns 454
No_of_seqs 303 out of 2714
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 07:22:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012890.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012890hhsearch_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 6.8E-61 1.5E-65 490.1 41.7 347 100-453 4-360 (389)
2 COG0793 Prc Periplasmic protea 100.0 7.7E-57 1.7E-61 459.5 37.4 307 142-453 59-368 (406)
3 PRK11186 carboxy-terminal prot 100.0 2.9E-54 6.3E-59 460.2 38.0 347 95-453 150-526 (667)
4 TIGR00225 prc C-terminal pepti 100.0 3.7E-53 8E-58 426.0 38.5 303 142-453 10-315 (334)
5 cd06567 Peptidase_S41 C-termin 100.0 2.5E-38 5.4E-43 301.2 25.8 221 105-452 1-224 (224)
6 cd07562 Peptidase_S41_TRI Tric 100.0 6.3E-38 1.4E-42 306.0 20.5 240 100-453 1-244 (266)
7 cd07563 Peptidase_S41_IRBP Int 100.0 3.6E-36 7.8E-41 291.1 23.8 224 104-453 1-239 (250)
8 smart00245 TSPc tail specific 100.0 3E-35 6.5E-40 273.5 23.9 190 260-452 3-192 (192)
9 cd07560 Peptidase_S41_CPP C-te 100.0 4.4E-34 9.5E-39 268.9 25.8 162 289-452 50-211 (211)
10 cd07561 Peptidase_S41_CPP_like 100.0 8.7E-33 1.9E-37 267.1 20.7 168 285-452 62-242 (256)
11 PF03572 Peptidase_S41: Peptid 100.0 1.1E-30 2.4E-35 237.1 19.3 164 288-451 1-169 (169)
12 COG3480 SdrC Predicted secrete 99.4 1.3E-11 2.7E-16 118.8 14.0 181 48-265 15-198 (342)
13 PF13180 PDZ_2: PDZ domain; PD 99.3 1.7E-11 3.7E-16 97.9 8.8 76 180-260 1-77 (82)
14 PF14684 Tricorn_C1: Tricorn p 99.3 4.9E-12 1.1E-16 97.8 4.5 66 99-167 2-69 (70)
15 cd00988 PDZ_CTP_protease PDZ d 99.1 1.8E-09 3.9E-14 86.4 12.5 82 179-266 1-82 (85)
16 cd00136 PDZ PDZ domain, also c 98.9 8.4E-09 1.8E-13 79.3 8.3 69 181-253 2-70 (70)
17 PF00595 PDZ: PDZ domain (Also 98.9 9.7E-09 2.1E-13 81.6 8.1 74 178-253 8-81 (81)
18 cd00991 PDZ_archaeal_metallopr 98.8 2.6E-08 5.5E-13 78.9 7.8 58 197-256 11-69 (79)
19 cd00990 PDZ_glycyl_aminopeptid 98.7 5.3E-08 1.1E-12 76.9 8.3 66 182-256 3-68 (80)
20 cd00989 PDZ_metalloprotease PD 98.7 4E-08 8.7E-13 77.3 7.3 58 197-256 13-70 (79)
21 cd00986 PDZ_LON_protease PDZ d 98.6 1.1E-07 2.3E-12 75.2 7.8 65 197-264 9-74 (79)
22 PF14685 Tricorn_PDZ: Tricorn 98.6 5.1E-07 1.1E-11 72.6 9.5 76 181-264 2-87 (88)
23 cd00992 PDZ_signaling PDZ doma 98.6 3.1E-07 6.6E-12 72.7 8.1 71 179-252 11-81 (82)
24 smart00228 PDZ Domain present 98.5 5.9E-07 1.3E-11 71.2 8.9 73 180-255 12-84 (85)
25 cd00987 PDZ_serine_protease PD 98.4 7.2E-07 1.6E-11 71.8 7.0 58 197-256 25-83 (90)
26 PRK10139 serine endoprotease; 98.3 1.8E-06 3.9E-11 90.6 8.9 77 179-257 266-350 (455)
27 TIGR01713 typeII_sec_gspC gene 98.3 3.6E-06 7.9E-11 81.7 9.0 74 180-257 177-251 (259)
28 COG3975 Predicted protease wit 98.2 6.1E-06 1.3E-10 85.1 10.6 141 95-256 370-513 (558)
29 PRK10942 serine endoprotease; 98.2 4.5E-06 9.7E-11 88.1 9.9 76 180-257 288-371 (473)
30 TIGR02037 degP_htrA_DO peripla 98.2 3.7E-06 8.1E-11 87.8 9.0 77 179-257 233-317 (428)
31 PRK10779 zinc metallopeptidase 98.2 2.3E-06 5.1E-11 89.8 6.9 67 198-266 128-195 (449)
32 TIGR00054 RIP metalloprotease 98.2 3.2E-06 7E-11 88.0 7.1 59 197-257 204-262 (420)
33 PRK10898 serine endoprotease; 98.1 5.6E-06 1.2E-10 84.2 8.0 60 196-257 279-339 (353)
34 TIGR02038 protease_degS peripl 98.1 4.4E-06 9.5E-11 85.0 7.1 59 197-257 279-338 (351)
35 PRK10779 zinc metallopeptidase 98.1 5.7E-06 1.2E-10 86.9 7.5 59 197-257 222-280 (449)
36 PF04495 GRASP55_65: GRASP55/6 98.0 2.6E-05 5.5E-10 68.4 8.5 83 181-266 29-112 (138)
37 KOG3550 Receptor targeting pro 98.0 4.8E-05 1E-09 65.9 9.4 96 148-253 76-172 (207)
38 TIGR02860 spore_IV_B stage IV 97.9 4.1E-05 9E-10 78.1 9.0 74 181-265 97-178 (402)
39 PRK10942 serine endoprotease; 97.8 4.2E-05 9.1E-10 80.8 7.9 57 197-256 409-465 (473)
40 PRK10139 serine endoprotease; 97.8 3.7E-05 8E-10 80.8 7.2 57 197-256 391-447 (455)
41 KOG3209 WW domain-containing p 97.8 3.6E-05 7.8E-10 81.3 6.6 75 177-255 762-837 (984)
42 TIGR02037 degP_htrA_DO peripla 97.8 3.8E-05 8.2E-10 80.3 6.9 58 197-256 363-421 (428)
43 TIGR03279 cyano_FeS_chp putati 97.8 4.6E-05 1E-09 78.3 6.6 61 200-267 2-63 (433)
44 TIGR00054 RIP metalloprotease 97.5 9.5E-05 2.1E-09 77.0 5.2 59 197-258 129-187 (420)
45 KOG3553 Tax interaction protei 97.5 8.5E-05 1.9E-09 59.9 3.5 46 196-241 59-104 (124)
46 KOG3209 WW domain-containing p 97.5 0.0003 6.5E-09 74.6 7.7 78 178-255 353-432 (984)
47 COG0265 DegQ Trypsin-like seri 97.4 0.0006 1.3E-08 69.3 9.0 66 197-264 271-337 (347)
48 KOG3129 26S proteasome regulat 97.3 0.00059 1.3E-08 62.6 6.5 61 197-257 140-201 (231)
49 KOG3580 Tight junction protein 97.1 0.00087 1.9E-08 69.9 6.5 68 181-252 418-486 (1027)
50 KOG3605 Beta amyloid precursor 97.0 0.0009 1.9E-08 70.5 5.6 87 180-268 657-745 (829)
51 KOG3532 Predicted protein kina 96.6 0.0067 1.5E-07 64.4 7.9 68 180-253 386-453 (1051)
52 PRK09681 putative type II secr 96.5 0.0077 1.7E-07 58.7 7.1 47 209-257 220-267 (276)
53 KOG3549 Syntrophins (type gamm 96.4 0.0041 8.9E-08 61.2 5.0 75 176-253 62-137 (505)
54 KOG3551 Syntrophins (type beta 96.2 0.005 1.1E-07 61.4 4.0 75 176-253 92-167 (506)
55 KOG1421 Predicted signaling-as 96.1 0.011 2.5E-07 62.9 6.3 66 197-265 304-369 (955)
56 KOG3542 cAMP-regulated guanine 96.0 0.0092 2E-07 63.3 5.0 58 196-255 562-619 (1283)
57 KOG3651 Protein kinase C, alph 95.9 0.014 3.1E-07 56.4 5.6 55 197-252 31-86 (429)
58 KOG3552 FERM domain protein FR 95.9 0.0085 1.8E-07 65.6 4.5 57 197-255 76-132 (1298)
59 KOG1892 Actin filament-binding 95.6 0.027 5.9E-07 62.0 7.0 75 180-255 943-1019(1629)
60 COG3031 PulC Type II secretory 95.4 0.05 1.1E-06 51.3 7.1 52 204-257 215-267 (275)
61 cd07021 Clp_protease_NfeD_like 95.3 0.084 1.8E-06 48.4 8.2 69 300-395 13-81 (178)
62 KOG3580 Tight junction protein 95.1 0.025 5.5E-07 59.4 4.5 59 197-256 220-279 (1027)
63 KOG0609 Calcium/calmodulin-dep 95.0 0.043 9.4E-07 57.3 6.0 69 180-253 134-203 (542)
64 KOG1320 Serine protease [Postt 94.9 0.085 1.8E-06 55.1 7.9 59 197-257 399-458 (473)
65 KOG3571 Dishevelled 3 and rela 94.6 0.055 1.2E-06 55.9 5.5 73 182-254 263-338 (626)
66 KOG3606 Cell polarity protein 93.6 0.14 3E-06 49.1 5.6 59 196-255 194-253 (358)
67 KOG0606 Microtubule-associated 92.5 0.23 4.9E-06 56.3 6.1 53 199-252 661-713 (1205)
68 KOG3938 RGS-GAIP interacting p 91.1 0.25 5.3E-06 47.3 3.9 72 180-255 137-210 (334)
69 cd07020 Clp_protease_NfeD_1 No 91.1 1.3 2.8E-05 40.8 8.7 68 301-395 14-84 (187)
70 KOG3605 Beta amyloid precursor 90.3 0.22 4.7E-06 53.2 3.0 47 199-245 759-805 (829)
71 KOG3834 Golgi reassembly stack 89.9 0.74 1.6E-05 47.1 6.3 70 196-267 15-85 (462)
72 PF12812 PDZ_1: PDZ-like domai 89.8 0.51 1.1E-05 37.1 4.1 43 198-242 32-74 (78)
73 COG0750 Predicted membrane-ass 89.6 0.68 1.5E-05 47.3 6.0 53 200-254 133-188 (375)
74 KOG3834 Golgi reassembly stack 89.6 0.8 1.7E-05 46.9 6.2 82 182-266 94-178 (462)
75 cd07015 Clp_protease_NfeD Nodu 86.2 3.8 8.3E-05 37.3 8.1 70 300-396 13-85 (172)
76 cd00394 Clp_protease_like Case 84.4 3.2 7E-05 36.9 6.7 67 301-394 12-79 (161)
77 KOG1738 Membrane-associated gu 82.0 2.2 4.7E-05 45.8 5.1 61 178-242 211-272 (638)
78 TIGR00706 SppA_dom signal pept 80.0 7.5 0.00016 36.3 7.7 68 302-394 15-83 (207)
79 COG1030 NfeD Membrane-bound se 78.9 14 0.00029 38.5 9.5 62 286-348 25-87 (436)
80 PF11874 DUF3394: Domain of un 76.2 4.3 9.2E-05 37.3 4.6 38 182-224 113-150 (183)
81 cd07016 S14_ClpP_1 Caseinolyti 76.0 4.8 0.0001 35.8 4.9 66 301-395 16-81 (160)
82 PF01972 SDH_sah: Serine dehyd 74.8 13 0.00028 36.3 7.6 72 302-406 77-148 (285)
83 COG0616 SppA Periplasmic serin 69.3 9.1 0.0002 38.4 5.5 70 302-396 82-152 (317)
84 PRK14512 ATP-dependent Clp pro 69.3 27 0.00058 32.5 8.3 82 287-396 23-105 (197)
85 cd07014 S49_SppA Signal peptid 61.9 23 0.00049 32.1 6.2 70 301-394 23-93 (177)
86 cd07013 S14_ClpP Caseinolytic 61.3 21 0.00046 31.9 5.9 69 300-395 12-81 (162)
87 PRK12553 ATP-dependent Clp pro 60.1 37 0.0008 31.8 7.4 70 299-395 46-116 (207)
88 cd07023 S49_Sppa_N_C Signal pe 59.6 32 0.0007 32.0 7.0 70 301-394 18-88 (208)
89 PF00574 CLP_protease: Clp pro 55.7 16 0.00036 33.1 4.2 82 287-396 16-98 (182)
90 cd07017 S14_ClpP_2 Caseinolyti 53.9 41 0.00088 30.3 6.4 68 301-395 22-90 (171)
91 cd07022 S49_Sppa_36K_type Sign 53.6 75 0.0016 29.7 8.5 80 301-410 26-106 (214)
92 KOG1421 Predicted signaling-as 46.3 49 0.0011 36.4 6.3 54 197-253 863-917 (955)
93 KOG2921 Intramembrane metallop 44.1 26 0.00057 35.9 3.7 35 197-231 221-256 (484)
94 PRK02576 psbZ photosystem II r 43.5 21 0.00046 26.7 2.3 24 46-69 10-33 (62)
95 CHL00082 psbZ photosystem II p 43.3 22 0.00047 26.6 2.3 26 45-70 9-34 (62)
96 cd07019 S49_SppA_1 Signal pept 43.2 70 0.0015 29.9 6.4 69 302-394 23-92 (211)
97 TIGR03043 PS_II_psbZ photosyst 39.4 30 0.00066 25.5 2.5 26 45-70 6-31 (58)
98 PRK00277 clpP ATP-dependent Cl 37.7 1E+02 0.0022 28.7 6.5 66 301-393 44-110 (200)
99 cd07041 STAS_RsbR_RsbS_like Su 35.3 82 0.0018 25.6 5.0 47 287-333 9-57 (109)
100 TIGR00493 clpP ATP-dependent C 32.2 1.4E+02 0.0031 27.4 6.5 66 302-394 40-106 (191)
101 TIGR00705 SppA_67K signal pept 29.6 3.5E+02 0.0076 29.6 10.0 95 286-409 307-410 (584)
102 cd07043 STAS_anti-anti-sigma_f 29.4 1.5E+02 0.0033 22.9 5.6 54 288-341 8-62 (99)
103 PF01740 STAS: STAS domain; I 28.4 1.5E+02 0.0032 24.3 5.5 65 287-351 8-85 (117)
104 KOG4407 Predicted Rho GTPase-a 28.1 28 0.00061 40.9 1.2 44 197-240 144-187 (1973)
105 PF03921 ICAM_N: Intercellular 27.4 25 0.00055 28.5 0.5 7 3-9 20-26 (91)
106 PRK12551 ATP-dependent Clp pro 27.0 1.7E+02 0.0036 27.3 6.0 81 287-395 25-106 (196)
107 PF04343 DUF488: Protein of un 26.5 1E+02 0.0022 26.0 4.2 29 305-334 2-34 (122)
108 PF01737 Ycf9: YCF9; InterPro 26.2 32 0.0007 25.5 0.8 23 45-67 6-28 (59)
109 PF06022 Cir_Bir_Yir: Plasmodi 25.5 88 0.0019 30.8 4.0 47 14-61 226-279 (280)
110 COG5233 GRH1 Peripheral Golgi 25.3 41 0.00088 33.5 1.6 33 197-229 64-96 (417)
111 PRK11778 putative inner membra 24.2 5.9E+02 0.013 25.7 9.7 44 372-420 154-197 (330)
112 PF07005 DUF1537: Protein of u 23.6 5.4E+02 0.012 23.8 9.0 105 286-398 3-118 (223)
113 TIGR00377 ant_ant_sig anti-ant 23.6 1.9E+02 0.004 23.2 5.2 49 287-335 11-61 (108)
114 PRK10949 protease 4; Provision 23.6 3E+02 0.0065 30.4 8.1 87 285-395 324-419 (618)
115 PRK13620 psbV cytochrome c-550 23.1 1.1E+02 0.0024 28.7 3.9 16 4-19 16-31 (215)
116 TIGR02886 spore_II_AA anti-sig 21.8 3.3E+02 0.0071 21.7 6.3 50 287-336 7-58 (106)
117 cd07042 STAS_SulP_like_sulfate 20.2 3.3E+02 0.0071 21.3 6.0 51 286-336 7-60 (107)
118 PF10779 XhlA: Haemolysin XhlA 20.1 81 0.0018 24.0 2.1 20 32-51 46-65 (71)
No 1
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=100.00 E-value=6.8e-61 Score=490.11 Aligned_cols=347 Identities=40% Similarity=0.661 Sum_probs=296.3
Q ss_pred chHHHHHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhc-cccChHHHHHHHHHHHHhcCCCCceecChHHhhhhc---
Q 012890 100 TNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS-SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA--- 175 (454)
Q Consensus 100 ~~~~~~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~-~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~--- 175 (454)
++.++|+++|+.++++|+|+. |++.||++++++|.+. .+.++++++.+++.|+++|+|+|++|++++++..+.
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 689999999999999999986 6899999999999764 457788999999999999999999999999876543
Q ss_pred cCcceeeeEEEEEeeCCCC-ceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEc
Q 012890 176 RYDMSGIGINLREVPDANG-VVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (454)
Q Consensus 176 ~~~~~glGi~~~~~~d~~g-~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r 254 (454)
+..+.|+|+.+......++ ..+++|..|.++|||+++||++||+|++|||+++.+++..++..++++..|+.+.++|.|
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 4678899999876322111 125889999999999999999999999999999998877778888899999999999998
Q ss_pred CCCCCeeEEEeeeeeeeeccceeeeee---ccCCCCeeEEEEechhhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcc
Q 012890 255 GNCGPIESIQVQRQLVARTPVFYRLEH---LDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGL 331 (454)
Q Consensus 255 ~~~~~~~~v~l~r~~~~~~~v~~~~~~---~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~ 331 (454)
++ ...+++++|..+...++.++... .+.++++||||+|++|...+.+++.+++++++.+++++||||||+|+||.
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 46788888888877777665432 13345689999999999888899999999999999999999999999999
Q ss_pred hHHHHHHHHhcccCCceEEEEecCCcccceEEecCC--CCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCC
Q 012890 332 VQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADN--SPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (454)
Q Consensus 332 ~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~--~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G 409 (454)
+..+..++++|++++.. .+...+.+.. ..+.... ...+.+|++||||+.||||||+||.+||+++++++||++|+|
T Consensus 239 ~~~a~~ia~~f~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~PvvVLvn~~TaSasEi~a~alk~~~~~~vvG~~T~G 316 (389)
T PLN00049 239 FPAGIEIAKLWLDKGVI-VYIADSRGVR-DIYDADGSSAIATSEPLAVLVNKGTASASEILAGALKDNKRAVVLGEPTFG 316 (389)
T ss_pred HHHHHHHHHHhcCCCcE-EEEecCCCce-eEEecCCCccccCCCCEEEEECCCCccHHHHHHHHHhhCCCeEEEecCCcC
Confidence 99999999999998864 4444333221 1222222 224679999999999999999999999999999999999999
Q ss_pred CceeeeEEEcCCCCEEEEEEEEEEcCCCccccCCcccCCeEeCC
Q 012890 410 KGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLP 453 (454)
Q Consensus 410 ~~~~~~~~~L~~g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~p 453 (454)
++..|..+.|+||+.+++|+++|++|+|..+|+.||+||+.|.+
T Consensus 317 kg~~q~~~~L~dG~~l~lt~~~~~~p~G~~ie~~Gi~PDi~v~~ 360 (389)
T PLN00049 317 KGLIQSVFELSDGSGLAVTVARYQTPAGTDIDKVGITPDHPLPE 360 (389)
T ss_pred CcccceeEEeCCCCEEEEEEEEEECCCCCCcCCCCcCCCeECCC
Confidence 99999999999999999999999999999999999999999964
No 2
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=7.7e-57 Score=459.55 Aligned_cols=307 Identities=37% Similarity=0.571 Sum_probs=274.9
Q ss_pred cChHHHHHHHHHHHHhcCCCCceecChHHhhhhc---cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCC
Q 012890 142 QTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGD 218 (454)
Q Consensus 142 ~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~---~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD 218 (454)
.+...++.+++.|+++|.|||+.|++|++++.+. +..+.|+|+.+..-.+ + .+.|.++++++||++|||++||
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 4556789999999999999999999999887653 4678999999987321 3 5889999999999999999999
Q ss_pred EEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEeeeeeeeeccceeeeeeccCCCCeeEEEEechhh
Q 012890 219 EVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN 298 (454)
Q Consensus 219 ~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~ 298 (454)
+|++|||+++.++..+++...++|+.|+.|+|++.|.+.....++++.|+.+....+.+.....+.++++||||||++|+
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 99999999999998888899999999999999999986677899999999998777766533334445569999999999
Q ss_pred hhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEE
Q 012890 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (454)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VL 378 (454)
..+.++++.++.+|+++++++||||||+|+||.++++..++.+|++++ .+.++.+|.+.............+++|++||
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 5778888887655444444555789999999
Q ss_pred ECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcCCCCEEEEEEEEEEcCCCccccCCcccCCeEeCC
Q 012890 379 VNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLP 453 (454)
Q Consensus 379 v~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~~g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~p 453 (454)
||++||||||+||.+||+++||+|||++|+|++++|..++|+||+.+++|+++|++|+|+++|+.||.|||.|+.
T Consensus 294 vn~~SASAsEI~agalqd~~ra~lVG~~TfGkg~vQ~~~~L~dg~~lklT~a~yytp~G~~i~~~GI~PDI~v~~ 368 (406)
T COG0793 294 VNEGSASASEIFAGALQDYGRATLVGETTFGKGTVQTLRPLSDGSALKLTIAKYYTPSGRSIEGKGITPDIEVPQ 368 (406)
T ss_pred ECCCCccHHHHHHHHHHHcCCcEEEecccccceEEEeeEEcCCCCeEEEEEEEEECCCCccccccCcCCCEeccC
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999975
No 3
>PRK11186 carboxy-terminal protease; Provisional
Probab=100.00 E-value=2.9e-54 Score=460.20 Aligned_cols=347 Identities=25% Similarity=0.381 Sum_probs=283.0
Q ss_pred hhcccchHHHHHHHHH-HHHhhcCcCCCCCCCchhhHHHHH----HHhh---cc--ccChHHHHHHHHHHHHhcCCCCce
Q 012890 95 QVVAKTNEGIVEEAWQ-IVNDSFLDTGRHRWTPQNWQRKRE----DILS---SS--IQTRSKAHGIIKRMLASLGDPYTR 164 (454)
Q Consensus 95 ~~~~~~~~~~~~~~w~-~v~~~y~d~~~~~~~~~dW~~~~e----~~~~---~~--~~~~~~~~~~i~~ml~~L~D~Ht~ 164 (454)
+..+..+++.++++|+ .+++.|++.. +++.+|+++++ .|.. +. .+..+.+..+++.|+.++ ||||+
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 4566688999999999 6999999865 67899999884 3421 11 222344778888998888 99999
Q ss_pred ecChHHhhhhc---cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhc-CCCCCCEEEeeC--CE---EccCCCHHH
Q 012890 165 FLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSA-GVRQGDEVLAVN--GV---DVRGKSAFE 235 (454)
Q Consensus 165 ~l~~~~~~~~~---~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~a-GL~~GD~Il~In--G~---~v~~~~~~~ 235 (454)
|++|.+++.+. ...+.|||+.+.. .++ .++|.+|++||||+++ ||++||+|++|| |. ++.++..++
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 99999876532 4568899999986 333 5889999999999998 999999999999 44 556777788
Q ss_pred HHHhhCCCCCcEEEEEEEcCC-CCCeeEEEeeeeeeeec--cceeeeeeccCCCCeeEEEEechhhhhHHHHHHHHHHHH
Q 012890 236 VSSLLQGPSETFVTIEVKHGN-CGPIESIQVQRQLVART--PVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRL 312 (454)
Q Consensus 236 ~~~~l~g~~g~~v~l~v~r~~-~~~~~~v~l~r~~~~~~--~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l 312 (454)
+..+++|+.|++|+|+|.|++ .+...++++.|+.+... ++...+ .+.++++||||+|++|.....+++.+++.++
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 333322 2334679999999999988889999999999
Q ss_pred HhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEECCCCCChHHHHHH
Q 012890 313 QDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVAS 392 (454)
Q Consensus 313 ~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~ 392 (454)
+++++++||||||+|+||.+..+..++++|++++..+ ....+.+.........+...|.+|++||||++||||||+||+
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 9999999999999999999999999999999998644 333443332211223345578899999999999999999999
Q ss_pred HHhcCCCeEEEcccCCCCceeeeEEEcCC--------CCEEEEEEEEEEcCCCccccCCcccCCeEeCC
Q 012890 393 ALHDNCRAVLVGEKTFGKGLIQSVYELHD--------GSGVVVTIGKYVTPNHMDINGNGIEPDYRNLP 453 (454)
Q Consensus 393 ~lk~~~~a~vVGe~T~G~~~~~~~~~L~~--------g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~p 453 (454)
+||+++||+|||++|+|+|++|..+.|++ +..+.+|+++|++|+|..+++.||+|||.|..
T Consensus 458 alqd~~ra~vVG~~T~GKGtvQ~~~~L~~~~~~~~~~~G~lk~Tiak~y~p~G~s~q~~GV~PDi~vp~ 526 (667)
T PRK11186 458 AMQDYGRALIVGEPTFGKGTVQQHRSLNRIYDQMLRPLGSVQYTIQKFYRINGGSTQRKGVTPDIIFPT 526 (667)
T ss_pred HHHhcCCEEEEeccCCCccccccccccccccccccCCCCeeEEEEeEEECCCCCcccCCCCCCCeEcCC
Confidence 99999999999999999999998777653 34699999999999999999999999999864
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=3.7e-53 Score=426.04 Aligned_cols=303 Identities=38% Similarity=0.601 Sum_probs=265.7
Q ss_pred cChHHHHHHHHHHHHhcCCCCceecChHHhhhhc---cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCC
Q 012890 142 QTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGD 218 (454)
Q Consensus 142 ~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~---~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD 218 (454)
++..+++.++.+|+++|+|+|++|++++++..+. .....++|+.+... ++ +++|..|.++|||+++||++||
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 4456899999999999999999999999876532 35677899998762 22 6899999999999999999999
Q ss_pred EEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEeeeeeeeeccceeeeeeccCCCCeeEEEEechhh
Q 012890 219 EVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN 298 (454)
Q Consensus 219 ~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~ 298 (454)
+|++|||+++.+++..++..++.+..|+.+.+++.|++.....++++.+..+..+++.+++. +.++++||||+|++|.
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 99999999999987677878888888999999999987777788889888877777776543 4446789999999999
Q ss_pred hhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEE
Q 012890 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (454)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VL 378 (454)
....+++.++|++++++++++||||||+|+||++..+..++++|++++. +.+...|++... .+.......+++||+||
T Consensus 163 ~~~~~~~~~~l~~l~~~~~~~lIiDLR~N~GG~~~~a~~~a~~f~~~~~-~~~~~~~~g~~~-~~~~~~~~~~~~pv~vL 240 (334)
T TIGR00225 163 EHTTEDVKKALDKLEKKNAKGYILDLRGNPGGLLQSAVDISRLFITKGP-IVQTKDRNGSKR-HYKANGRQPYNLPLVVL 240 (334)
T ss_pred cchHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCc-EEEEEcCCCcce-EEecCCCccCCCCEEEE
Confidence 8888999999999998899999999999999999999999999999884 566666665433 34444455789999999
Q ss_pred ECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcCCCCEEEEEEEEEEcCCCccccCCcccCCeEeCC
Q 012890 379 VNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLP 453 (454)
Q Consensus 379 v~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~~g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~p 453 (454)
||+.|+||||+||++||+++++++||++|+|++..+..+.|++|+.+.+++.++++|+|..+++.||+|||.|.+
T Consensus 241 vn~~TaSaaE~~a~~l~~~~~a~viG~~T~G~~~~~~~~~l~~g~~l~~~~~~~~~~~g~~~e~~Gv~PDi~v~~ 315 (334)
T TIGR00225 241 VNRGSASASEIFAGALQDNGRATIVGEKTFGKGTVQQVRPLNDGSGIKVTIAKYYTPNGGSIHKKGIEPDIVIEQ 315 (334)
T ss_pred ECCCCCcHHHHHHHHHHhCCCeEEEeeCCccCceeeeEEEcCCCCEEEEEEEEEECCCCCCccCcCcCCCEEecC
Confidence 999999999999999999999999999999999989999999999999999999999999999999999999976
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=2.5e-38 Score=301.18 Aligned_cols=221 Identities=39% Similarity=0.696 Sum_probs=195.0
Q ss_pred HHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCCceecChHHhhhhccCcceee
Q 012890 105 VEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGI 182 (454)
Q Consensus 105 ~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~gl 182 (454)
|+++|+.++++|+++ ...+|..++++|... ..++..+++.++.+|+++|+|+|+.+++
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 578999999999765 4688899999999999999999998865
Q ss_pred eEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeE
Q 012890 183 GINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIES 262 (454)
Q Consensus 183 Gi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~~~ 262 (454)
T Consensus 61 -------------------------------------------------------------------------------- 60 (224)
T cd06567 61 -------------------------------------------------------------------------------- 60 (224)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEeeeeeeeeccceeeeeeccCCCCeeEEEEechhh-hhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHh
Q 012890 263 IQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN-ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKL 341 (454)
Q Consensus 263 v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~-~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~ 341 (454)
||||+|++|. ....+.+.+++.++++ ++++||||||+|+||++..+..++++
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 cccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcCC
Q 012890 342 FLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHD 421 (454)
Q Consensus 342 f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~~ 421 (454)
|++++..+.....+...............+.+||+||||+.|+||||+|+++||+++++++||++|+|++..+..+.|++
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 99998765554433322122233445567899999999999999999999999999999999999999999899999999
Q ss_pred CCEEEEEEEEEEcCCCccccCCcccCCeEeC
Q 012890 422 GSGVVVTIGKYVTPNHMDINGNGIEPDYRNL 452 (454)
Q Consensus 422 g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~ 452 (454)
|+.+.+|+.++++|+|..+++.||+|||.|.
T Consensus 194 g~~~~~~~~~~~~~~g~~~~~~Gv~PDi~v~ 224 (224)
T cd06567 194 GSALKLTTAKYYTPSGRSIEGKGVEPDIEVP 224 (224)
T ss_pred CCEEEEEEEEEECCCCCCccCCccCCCEECC
Confidence 9999999999999999999999999999874
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=6.3e-38 Score=305.95 Aligned_cols=240 Identities=24% Similarity=0.342 Sum_probs=187.3
Q ss_pred chHHHHHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCCceecChHHhhhhccC
Q 012890 100 TNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARY 177 (454)
Q Consensus 100 ~~~~~~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~ 177 (454)
++.++|+++|+.++++|+++. +++.||++++++|+++ .++++.+++.++++|+++|+|+|+++.+.. +.
T Consensus 1 ~~~~~fd~~w~~~~~~y~~~~---~~g~dW~~~~~~y~~~~~~~~~~~e~~~~l~~ml~~L~d~H~~~~~~~-~~----- 71 (266)
T cd07562 1 EWLQMFDEAWRLVRDNFYDPD---MHGVDWDAVRAEYRPLLPRAATRAELADVLNEMLGELNDSHTGVSGLR-YR----- 71 (266)
T ss_pred CHHHHHHHHHHHHHhhccCCC---CCCCCHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHcCCccchHHHH-HH-----
Confidence 367899999999999999976 6899999999999875 578999999999999999999999876500 00
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCC
Q 012890 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (454)
Q Consensus 178 ~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~ 257 (454)
.| +.. +
T Consensus 72 ----------------------------------------------------~~--------~~~-----------~--- 77 (266)
T cd07562 72 ----------------------------------------------------DW--------VES-----------N--- 77 (266)
T ss_pred ----------------------------------------------------HH--------HHH-----------H---
Confidence 00 000 0
Q ss_pred CCeeEEEeeeeeeeeccceeeeeeccCCCCeeEEEEechhhhhHHHHHHHHHHHHHhc-CCceeEEccCCCCCcchHHHH
Q 012890 258 GPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGI 336 (454)
Q Consensus 258 ~~~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~-~~~~LIiDLR~N~GG~~~~~~ 336 (454)
...+ .+ ..+++||||+|++|... .+.++++++... .+++||||||+|+||++. .
T Consensus 78 --------------~~~~-~~-----~~~~~igYi~i~~~~~~---~~~~~~~~~~~~~~~~glIiDlR~N~GG~~~--~ 132 (266)
T cd07562 78 --------------REYV-EE-----LSDGRIGYVHIPDMGDD---GFAEFLRDLLAEVDKDGLIIDVRFNGGGNVA--D 132 (266)
T ss_pred --------------HHHH-HH-----hcCCcEEEEEeCCCChH---HHHHHHHHHHhcCCCceEEEEecCCCCCcHH--H
Confidence 0000 00 12479999999999644 344555544432 289999999999999953 4
Q ss_pred HHHHhcccCCceEEEEecCC-cccceEEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeee
Q 012890 337 EIAKLFLNEGETITYTVGRD-PQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQS 415 (454)
Q Consensus 337 ~l~~~f~~~~~~~~~~~~r~-~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~ 415 (454)
.++++|.+. .+.+...|. ... ...+...|++||+||||+.|+||||+|+.+||+++++++||++|+|++..+.
T Consensus 133 ~l~~~~~~~--~~~~~~~r~~~~~----~~~p~~~~~~pv~vL~~~~t~SaaE~~a~~lk~~~~~~vvG~~T~G~~~~~~ 206 (266)
T cd07562 133 LLLDFLSRR--RYGYDIPRGGGKP----VTYPSGRWRGPVVVLVNEGSASDAEIFAYGFRALGLGPVVGTRTAGGVIISG 206 (266)
T ss_pred HHHHHhCCC--ceEEEccCCCCCC----CCCcccccCCCEEEEECCCCCchHHHHHHHHHHcCCeeEEeeccCCceeecC
Confidence 577777665 245555555 211 1112223789999999999999999999999999999999999999998888
Q ss_pred EEEcCCCCEEEEEEEEEEcCCCccccCCcccCCeEeCC
Q 012890 416 VYELHDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNLP 453 (454)
Q Consensus 416 ~~~L~~g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~p 453 (454)
.+.||+|+.+.++...+++++|..+|+.||+|||.|.+
T Consensus 207 ~~~L~~g~~~~~~~~~~~~~~g~~~e~~Gi~PDi~v~~ 244 (266)
T cd07562 207 RYRLPDGGSLTVPEFGVYLPDGGPLENRGVAPDIEVEN 244 (266)
T ss_pred ceecCCCCEEEeeceeEEcCCCCccccCCCCCCEEecC
Confidence 89999999999999999999999999999999999875
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=3.6e-36 Score=291.08 Aligned_cols=224 Identities=25% Similarity=0.322 Sum_probs=190.1
Q ss_pred HHHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhcc---ccChHHHHHHHHHHHHhcCCCCceecChHHhhhhccCcce
Q 012890 104 IVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSS---IQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMS 180 (454)
Q Consensus 104 ~~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~~---~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~ 180 (454)
.|+.+|+.++++|.++. +.+.+|+++++++.++. ..+..+++..+.+|+..++|+|+.+..
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 38999999999999876 45889999999997653 478899999999999999999997654
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCe
Q 012890 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPI 260 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~ 260 (454)
T Consensus 65 -------------------------------------------------------------------------------- 64 (250)
T cd07563 65 -------------------------------------------------------------------------------- 64 (250)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred eEEEeeeeeeeeccceeeeeeccCCCCeeEEEEechhhh----hHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHH
Q 012890 261 ESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNA----LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGI 336 (454)
Q Consensus 261 ~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~----~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~ 336 (454)
||||+|++|.. ...+.++++++++++ .++||||||+|+||+...+.
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 356778889998876 59999999999999999999
Q ss_pred HHHHhcccCCceEEE--EecCCcccce-----EEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCC
Q 012890 337 EIAKLFLNEGETITY--TVGRDPQYQK-----TIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (454)
Q Consensus 337 ~l~~~f~~~~~~~~~--~~~r~~~~~~-----~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G 409 (454)
.++++|++++..+.+ ...|...... ...+.....+++||+||||+.|+||||+|+++||+++++++||++|+|
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 999999975543332 2223222111 112233456889999999999999999999999999999999999999
Q ss_pred CceeeeEEEcCCCCEEEEEEEEEEcCC-CccccCCcccCCeEeCC
Q 012890 410 KGLIQSVYELHDGSGVVVTIGKYVTPN-HMDINGNGIEPDYRNLP 453 (454)
Q Consensus 410 ~~~~~~~~~L~~g~~l~~t~~~~~~p~-g~~~e~~GV~PDi~V~p 453 (454)
++..+..+.||+|+.+.+++.++++|+ |..+|+.||.|||.|.+
T Consensus 195 ~~~~~~~~~Lp~g~~~~~~~~~~~~~~~g~~~e~~Gv~PDi~v~~ 239 (250)
T cd07563 195 GASPVLPFPLPNGLYLTVPTSRSVDPITGTNWEGVGVPPDIEVPA 239 (250)
T ss_pred CCCCceEEEcCCCeEEEEecceeEeCCCCCcccccCcCCCeeecC
Confidence 998888999999999999999999998 99999999999999865
No 8
>smart00245 TSPc tail specific protease. tail specific protease
Probab=100.00 E-value=3e-35 Score=273.46 Aligned_cols=190 Identities=39% Similarity=0.585 Sum_probs=160.3
Q ss_pred eeEEEeeeeeeeeccceeeeeeccCCCCeeEEEEechhhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHH
Q 012890 260 IESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIA 339 (454)
Q Consensus 260 ~~~v~l~r~~~~~~~v~~~~~~~~~~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~ 339 (454)
..++.+.|..+..+++...+.... .++||||+|++|...+.+++++++++|++.++++||||||+|+||.+..+..++
T Consensus 3 ~~~~~~~r~~~~~~~~~~~~~~~~--~~~igYi~i~~f~~~~~~~~~~~~~~l~~~~~~~lIiDLR~N~GG~~~~~~~~~ 80 (192)
T smart00245 3 ERTIALIRAKIKIETLEGNVGYLR--FGNIGYIRIPEFSEHTSNLVEKAWKKLEKTNVEGLILDLRNNPGGLLSAAIDVS 80 (192)
T ss_pred cEEEEEEEeEEEeeEEeEEEeecC--CCcEEEEEEeEEChhhHHHHHHHHHHHHhCCCcEEEEEecCCCCCCHHHHHHHH
Confidence 355677777776666655443221 369999999999988889999999999998999999999999999999999999
Q ss_pred HhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEc
Q 012890 340 KLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYEL 419 (454)
Q Consensus 340 ~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L 419 (454)
++|++++. +.+...+.......+.....+.+.+|++||+|+.|+||||+||++||+++++++||++|+|++..+..+.|
T Consensus 81 ~~f~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~TaSaaE~~a~~lk~~~~a~viG~~T~G~~~~~~~~~l 159 (192)
T smart00245 81 SLFLDKGV-IVYTIYRRTGELETYPANLGRKYSKPLVVLVNEGTASASEIFAGALKDLGRALIVGERTFGKGLVQQTVPL 159 (192)
T ss_pred HHhcCCCc-EEEEEecCCCceEEEecCCCcccCCCEEEEECCCCeeHHHHHHHHHhhCCCEEEEecCCcCCcceeeEEEe
Confidence 99999874 44544443112222334445567899999999999999999999999999999999999999999999999
Q ss_pred CCCCEEEEEEEEEEcCCCccccCCcccCCeEeC
Q 012890 420 HDGSGVVVTIGKYVTPNHMDINGNGIEPDYRNL 452 (454)
Q Consensus 420 ~~g~~l~~t~~~~~~p~g~~~e~~GV~PDi~V~ 452 (454)
++|+.+.+++.++++|+|+.+|+.||+|||.|.
T Consensus 160 ~~g~~l~it~~~~~~~~g~~~e~~Gv~PDi~v~ 192 (192)
T smart00245 160 GDGSGLKLTVAKYYTPSGKSIEKKGVEPDIQVP 192 (192)
T ss_pred CCCCEEEEEEEEEECCCCCEecCCCcCCCEECc
Confidence 999999999999999999999999999999874
No 9
>cd07560 Peptidase_S41_CPP C-terminal processing peptidase; serine protease family S41. The C-terminal processing peptidase (CPP, EC 3.4.21.102) also known as tail-specific protease (tsp), the photosystem II D1 C-terminal processing protease (D1P), and other related S41 protease family members are present in this CD. CPP is synthesized as a precursor form with a carboxyl-terminal extension. It specifically recognizes a C-terminal tripeptide, Xaa-Yaa-Zaa, in which Xaa is preferably Ala or Leu, Yaa is preferably Ala or Tyr and Zaa is preferably Ala, but then cleaves at a variable distance from the C-terminus. The C-terminal carboxylate group is essential, and proteins where this group is amidated are not substrates. This family of proteases contains the PDZ domain that promotes protein-protein interactions and is important for substrate recognition. The active site consists of a serine/lysine catalytic dyad. The bacterial CCP-1 is believed to be important for the degradation of incorrectl
Probab=100.00 E-value=4.4e-34 Score=268.93 Aligned_cols=162 Identities=48% Similarity=0.749 Sum_probs=145.0
Q ss_pred eEEEEechhhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCC
Q 012890 289 VGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNS 368 (454)
Q Consensus 289 igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~ 368 (454)
||||+|++|.....+++.++|++++++++++||||||+|+||++..+..++++|++++ .+.+...|.+... .......
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 8999999999888889999999999988999999999999999999999999999965 4556666654332 2233334
Q ss_pred CCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcCCCCEEEEEEEEEEcCCCccccCCcccCC
Q 012890 369 PLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDINGNGIEPD 448 (454)
Q Consensus 369 ~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~~g~~l~~t~~~~~~p~g~~~e~~GV~PD 448 (454)
..+.+|++||||+.|+||||+||++||+++++++||++|+|++..+..+.||||+.+.+++.++++|+|..+|+.||+||
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 eEeC
Q 012890 449 YRNL 452 (454)
Q Consensus 449 i~V~ 452 (454)
|+|.
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=8.7e-33 Score=267.13 Aligned_cols=168 Identities=28% Similarity=0.365 Sum_probs=146.0
Q ss_pred CCCeeEEEEechhhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccC---CceEEEEecCCcc---
Q 012890 285 GTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNE---GETITYTVGRDPQ--- 358 (454)
Q Consensus 285 ~~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~---~~~~~~~~~r~~~--- 358 (454)
.+++||||+|++|...+.+++.+++++|+++++++||||||+|+||.+..+..++++|+++ +..+.+...|++.
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 4689999999999988889999999999999999999999999999999999999999983 5566555555432
Q ss_pred -cceEEecC----CCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcC--CCCEEEEEEEE
Q 012890 359 -YQKTIVAD----NSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELH--DGSGVVVTIGK 431 (454)
Q Consensus 359 -~~~~~~~~----~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~--~g~~l~~t~~~ 431 (454)
....+... ......+||+||||+.||||||+||.+||+++++++||++|+|++..+..+.++ +|+.+.+++.+
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 11122222 233456899999999999999999999999999999999999999999999998 88999999999
Q ss_pred EEcCCCccccCCcccCCeEeC
Q 012890 432 YVTPNHMDINGNGIEPDYRNL 452 (454)
Q Consensus 432 ~~~p~g~~~e~~GV~PDi~V~ 452 (454)
+++|+|..+++.||+||+.|.
T Consensus 222 ~~~~~G~~~~~~Gi~PDi~v~ 242 (256)
T cd07561 222 VVNADGQGDYSNGLTPDIEVN 242 (256)
T ss_pred EECCCCCCccCCCcCCceEeC
Confidence 999999999999999999986
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=1.1e-30 Score=237.14 Aligned_cols=164 Identities=32% Similarity=0.460 Sum_probs=126.0
Q ss_pred eeEEEEechhhh--hHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEec---CCcccceE
Q 012890 288 SVGYMRLKEFNA--LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVG---RDPQYQKT 362 (454)
Q Consensus 288 ~igYi~i~sF~~--~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~---r~~~~~~~ 362 (454)
+||||+|++|.. ...+.+.+++++++++++++||||||+|+||+...+..++++|.+++....+... +.......
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 6788999999999988999999999999999999999999999997643322211 11111111
Q ss_pred EecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcCCCCEEEEEEEEEEcCCCccccC
Q 012890 363 IVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELHDGSGVVVTIGKYVTPNHMDING 442 (454)
Q Consensus 363 ~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~~g~~l~~t~~~~~~p~g~~~e~ 442 (454)
........+++|++||+|+.|+||||+|+++||+++++++||++|+|++..+..+.|++|+.+.++..+++.++|..+|+
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 CcccCCeEe
Q 012890 443 NGIEPDYRN 451 (454)
Q Consensus 443 ~GV~PDi~V 451 (454)
.||+|||+|
T Consensus 161 ~Gi~PDi~V 169 (169)
T PF03572_consen 161 IGIEPDIEV 169 (169)
T ss_dssp TS---SEE-
T ss_pred CcEEccEEC
Confidence 999999987
No 12
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=99.35 E-value=1.3e-11 Score=118.83 Aligned_cols=181 Identities=13% Similarity=0.173 Sum_probs=129.7
Q ss_pred HHHHHhhhhccCccccccCCccCCCCCCCCCCCccccC-CccCCCcchhhcccchHHHHHHHHHHHHhhcCcCCCCCCCc
Q 012890 48 TGALSFNLLLSSPLALESSSSVQSVPPSPSPSLTCHEG-EDAAESEPRQVVAKTNEGIVEEAWQIVNDSFLDTGRHRWTP 126 (454)
Q Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~w~~v~~~y~d~~~~~~~~ 126 (454)
+++++|++|+++|||+..||-.+ +.+..+.|++- +++.|++++.+|+......+..+|..+..+.--..
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 88899999993 46668999999999998888999988776532111
Q ss_pred hhhHHHHHHHhhccccChHHHHHHHHHHHHhcCCCCceecChHHhhhhccCcceeeeEEEEEeeCCCCceEEEEEEEcCC
Q 012890 127 QNWQRKREDILSSSIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGIGINLREVPDANGVVTLKVLGLILD 206 (454)
Q Consensus 127 ~dW~~~~e~~~~~~~~~~~~~~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~ 206 (454)
+++..++. .+++++.+.=+.|+..- ++.+..+.+.+.+..+.+.. .++++..|..+
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 34455554444444222 13334445567788888876 26899999999
Q ss_pred ChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEc-CCCCCeeEEEe
Q 012890 207 GPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKH-GNCGPIESIQV 265 (454)
Q Consensus 207 spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r-~~~~~~~~v~l 265 (454)
+|+.. -|+.||.|++|||+++... +++..++.. +.|++|+|+++| ++.....++++
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 99864 4999999999999999977 777777765 789999999986 44333334444
No 13
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=99.28 E-value=1.7e-11 Score=97.87 Aligned_cols=76 Identities=28% Similarity=0.473 Sum_probs=60.6
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhh-CCCCCcEEEEEEEcCCCC
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCG 258 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l-~g~~g~~v~l~v~r~~~~ 258 (454)
+++|+.+....+ ..+++|..|.++|||+++||++||+|++|||+++.++ .++...+ ....|+++++++.|++..
T Consensus 1 ~~lGv~~~~~~~---~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~--~~~~~~l~~~~~g~~v~l~v~R~g~~ 75 (82)
T PF13180_consen 1 GGLGVTVQNLSD---TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSS--EDLVNILSKGKPGDTVTLTVLRDGEE 75 (82)
T ss_dssp -E-SEEEEECSC---SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSH--HHHHHHHHCSSTTSEEEEEEEETTEE
T ss_pred CEECeEEEEccC---CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCH--HHHHHHHHhCCCCCEEEEEEEECCEE
Confidence 367888877432 1258999999999999999999999999999999877 6776666 778999999999997744
Q ss_pred Ce
Q 012890 259 PI 260 (454)
Q Consensus 259 ~~ 260 (454)
..
T Consensus 76 ~~ 77 (82)
T PF13180_consen 76 LT 77 (82)
T ss_dssp EE
T ss_pred EE
Confidence 33
No 14
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=99.26 E-value=4.9e-12 Score=97.82 Aligned_cols=66 Identities=21% Similarity=0.420 Sum_probs=52.3
Q ss_pred cchHHHHHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhc--cccChHHHHHHHHHHHHhcCCCCceecC
Q 012890 99 KTNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLS 167 (454)
Q Consensus 99 ~~~~~~~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~--~~~~~~~~~~~i~~ml~~L~D~Ht~~l~ 167 (454)
.+++++|+++|++++++|+++. +++.||++++++|.+. .++++.+++.++.+|+++|+|+|+++.+
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 4789999999999999999986 5899999999999874 6789999999999999999999999864
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=99.10 E-value=1.8e-09 Score=86.42 Aligned_cols=82 Identities=30% Similarity=0.528 Sum_probs=66.3
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012890 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (454)
Q Consensus 179 ~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~ 258 (454)
+.++|+.+.. ++ .++.|..|.++|||+++||++||+|++|||+++.+++..++..++....+..+.+++.|+ .+
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 3578888875 22 268999999999999999999999999999999998767788888777788999999887 23
Q ss_pred CeeEEEee
Q 012890 259 PIESIQVQ 266 (454)
Q Consensus 259 ~~~~v~l~ 266 (454)
...++++.
T Consensus 75 ~~~~~~~~ 82 (85)
T cd00988 75 EPREVTLT 82 (85)
T ss_pred CEEEEEEE
Confidence 44555543
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=98.89 E-value=8.4e-09 Score=79.31 Aligned_cols=69 Identities=35% Similarity=0.524 Sum_probs=58.5
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
++|+.+.... + .+++|..|.++|||+++||++||+|++|||+++.+++.+++..+++...|+.++|+++
T Consensus 2 ~~G~~~~~~~--~--~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~ 70 (70)
T cd00136 2 GLGFSIRGGT--E--GGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTVR 70 (70)
T ss_pred CccEEEecCC--C--CCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEEC
Confidence 5677776521 1 2589999999999999999999999999999999998888888998877888888763
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=98.86 E-value=9.7e-09 Score=81.59 Aligned_cols=74 Identities=35% Similarity=0.500 Sum_probs=61.6
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 178 ~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
...++|+.+....+.. ...++|.+|.++|||+++||++||+|++|||+++.+++..++..+++...+ .++|+|+
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 4567899998754322 147999999999999999999999999999999999998898888877655 7877763
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=98.78 E-value=2.6e-08 Score=78.93 Aligned_cols=58 Identities=21% Similarity=0.384 Sum_probs=51.2
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~ 256 (454)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+.+++.|++
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 58899999999999999999999999999999988 777777765 35889999999875
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=98.73 E-value=5.3e-08 Score=76.93 Aligned_cols=66 Identities=30% Similarity=0.360 Sum_probs=51.6
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012890 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (454)
Q Consensus 182 lGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~ 256 (454)
+|+.+.. .++ ++.|..|.++|||+++||++||+|++|||+++.++ .++...+ ..++.+.+++.|++
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 5666654 222 58999999999999999999999999999999875 4443332 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=98.72 E-value=4e-08 Score=77.31 Aligned_cols=58 Identities=22% Similarity=0.384 Sum_probs=50.7
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~ 256 (454)
.++|..|.++|||+++||++||+|++|||+++.++ .++...+....+..+.+++.|++
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 47899999999999999999999999999999988 67777776655778999998865
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=98.65 E-value=1.1e-07 Score=75.17 Aligned_cols=65 Identities=22% Similarity=0.299 Sum_probs=52.5
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCCCCeeEEE
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCGPIESIQ 264 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~~~~~~v~ 264 (454)
+++|..|.++|||+. ||++||+|++|||+++.++ +++..++.. ..|..+.+++.|++.....+++
T Consensus 9 Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~~~~~v~l~v~r~g~~~~~~v~ 74 (79)
T cd00986 9 GVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEA--EELIDYIQSKKEGDTVKLKVKREEKELPEDLI 74 (79)
T ss_pred CEEEEEECCCCchhh-CCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCCEEEEEEEECCEEEEEEEE
Confidence 478999999999987 8999999999999999987 677777764 5688999999987643333333
No 22
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.56 E-value=5.1e-07 Score=72.61 Aligned_cols=76 Identities=25% Similarity=0.393 Sum_probs=53.3
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCC--------ChhhhcC--CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEE
Q 012890 181 GIGINLREVPDANGVVTLKVLGLILD--------GPAHSAG--VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTI 250 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~~~--------spA~~aG--L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l 250 (454)
.+|..+.. +++ .+.|..++++ ||-.+.| +++||.|++|||+++..- .++..+|.++.|+.|.|
T Consensus 2 ~LGAd~~~---~~~--~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~--~~~~~lL~~~agk~V~L 74 (88)
T PF14685_consen 2 LLGADFSY---DNG--GYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTAD--ANPYRLLEGKAGKQVLL 74 (88)
T ss_dssp B-SEEEEE---ETT--EEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTT--B-HHHHHHTTTTSEEEE
T ss_pred ccceEEEE---cCC--EEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCC--CCHHHHhcccCCCEEEE
Confidence 36777776 233 6889999986 5667777 579999999999999976 66888999999999999
Q ss_pred EEEcCCCCCeeEEE
Q 012890 251 EVKHGNCGPIESIQ 264 (454)
Q Consensus 251 ~v~r~~~~~~~~v~ 264 (454)
+|.+.+. ..++++
T Consensus 75 tv~~~~~-~~R~v~ 87 (88)
T PF14685_consen 75 TVNRKPG-GARTVV 87 (88)
T ss_dssp EEE-STT--EEEEE
T ss_pred EEecCCC-CceEEE
Confidence 9998764 445544
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=98.56 E-value=3.1e-07 Score=72.66 Aligned_cols=71 Identities=37% Similarity=0.510 Sum_probs=55.4
Q ss_pred ceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEE
Q 012890 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (454)
Q Consensus 179 ~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v 252 (454)
..++|+.+....+. ..+++|..|.++|||+++||++||+|++|||+++.+++.+++...++...+ .+++++
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 45678887753211 125899999999999999999999999999999997777888888876444 556554
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=98.52 E-value=5.9e-07 Score=71.22 Aligned_cols=73 Identities=33% Similarity=0.495 Sum_probs=56.6
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
..+|+.+....... .+++|..|.++|||+++||++||+|++|||+++.+++..+....+... +..+.+++.|+
T Consensus 12 ~~~G~~~~~~~~~~--~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~ 84 (85)
T smart00228 12 GGLGFSLVGGKDEG--GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRG 84 (85)
T ss_pred CcccEEEECCCCCC--CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeC
Confidence 56788876521110 369999999999999999999999999999999988766665555554 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=98.41 E-value=7.2e-07 Score=71.83 Aligned_cols=58 Identities=31% Similarity=0.414 Sum_probs=49.5
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~ 256 (454)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..+..+.+++.|++
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 68899999999999999999999999999999987 566666654 34788999998865
No 26
>PRK10139 serine endoprotease; Provisional
Probab=98.31 E-value=1.8e-06 Score=90.62 Aligned_cols=77 Identities=19% Similarity=0.196 Sum_probs=61.2
Q ss_pred ceeeeEEEEEeeCC-------CCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEE
Q 012890 179 MSGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTI 250 (454)
Q Consensus 179 ~~glGi~~~~~~d~-------~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l 250 (454)
.+.+|+.+..++.+ +...+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+++.+
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 45678877665321 111368999999999999999999999999999999988 777776654 67889999
Q ss_pred EEEcCCC
Q 012890 251 EVKHGNC 257 (454)
Q Consensus 251 ~v~r~~~ 257 (454)
++.|+++
T Consensus 344 ~V~R~G~ 350 (455)
T PRK10139 344 GLLRNGK 350 (455)
T ss_pred EEEECCE
Confidence 9998763
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=98.26 E-value=3.6e-06 Score=81.70 Aligned_cols=74 Identities=20% Similarity=0.164 Sum_probs=57.8
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
..+|+...... +...++.|..+.+++||+++||+.||+|++|||+++.++ +++.+++.. ..++.++++|.|++.
T Consensus 177 ~~lgi~p~~~~--g~~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~--~~~~~~l~~~~~~~~v~l~V~R~G~ 251 (259)
T TIGR01713 177 DYIRLSPVMKN--DKLEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP--EQAFQALQMLREETNLTLTVERDGQ 251 (259)
T ss_pred heEeEEEEEeC--CceeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCeEEEEEEECCE
Confidence 34566554421 112478999999999999999999999999999999988 666666654 567899999999863
No 28
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=98.24 E-value=6.1e-06 Score=85.08 Aligned_cols=141 Identities=16% Similarity=0.261 Sum_probs=96.2
Q ss_pred hhcccch-HHHHHHHHHHHHhhcCcCCCCCCCchhhHHHHHHHhhccccChHHHHHHHHHHHHhcCCCCce-ecChHHhh
Q 012890 95 QVVAKTN-EGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSSIQTRSKAHGIIKRMLASLGDPYTR-FLSPAEFS 172 (454)
Q Consensus 95 ~~~~~~~-~~~~~~~w~~v~~~y~d~~~~~~~~~dW~~~~e~~~~~~~~~~~~~~~~i~~ml~~L~D~Ht~-~l~~~~~~ 172 (454)
....+.+ +..+|.+++.|...+-. ..+++...+|+++.+.... -++...+++++.+-.++-.. ++-+....
T Consensus 370 ~iR~r~~~~~SLDdvmram~~~~~~-~~~~~t~e~v~av~~~~tg------~dl~~f~~~~i~~~~~~~l~~~l~~~gL~ 442 (558)
T COG3975 370 LIRERGGGQKSLDDVMRALWKEFGR-AERGYTPEDVQAVLENVTG------LDLATFFDEYIEGTEPPPLNPLLERFGLT 442 (558)
T ss_pred HHHhcCCCcccHHHHHHHHHHHhCc-CccCCCHHHHHHHHHhhcc------ccHHHHHHHHhhcCCCCChhhhhhhcceE
Confidence 3343444 77899999999998776 4578999999999998865 34556677777766544221 11110000
Q ss_pred hhc-cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEE
Q 012890 173 KMA-RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIE 251 (454)
Q Consensus 173 ~~~-~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~ 251 (454)
... ..+..++|+.+.. ++| +..|+.|.++|||.+|||.+||+|++|||.+- ++.+-+.+..++++
T Consensus 443 ~~~~~~~~~~LGl~v~~---~~g--~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~s~---------~l~~~~~~d~i~v~ 508 (558)
T COG3975 443 FTPKPREAYYLGLKVKS---EGG--HEKITFVFPGGPAYKAGLSPGDKIVAINGISD---------QLDRYKVNDKIQVH 508 (558)
T ss_pred EEecCCCCcccceEecc---cCC--eeEEEecCCCChhHhccCCCccEEEEEcCccc---------cccccccccceEEE
Confidence 000 1124578888875 344 67899999999999999999999999999911 11223567788888
Q ss_pred EEcCC
Q 012890 252 VKHGN 256 (454)
Q Consensus 252 v~r~~ 256 (454)
+.|.+
T Consensus 509 ~~~~~ 513 (558)
T COG3975 509 VFREG 513 (558)
T ss_pred EccCC
Confidence 87755
No 29
>PRK10942 serine endoprotease; Provisional
Probab=98.24 E-value=4.5e-06 Score=88.08 Aligned_cols=76 Identities=17% Similarity=0.246 Sum_probs=59.7
Q ss_pred eeeeEEEEEeeCC-------CCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEE
Q 012890 180 SGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIE 251 (454)
Q Consensus 180 ~glGi~~~~~~d~-------~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~ 251 (454)
+.+|+.+..+..+ +...+++|..|.++|||+++||+.||+|++|||+++.++ .++...+.. ..|+.+.++
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 4577777654221 112368999999999999999999999999999999988 667666543 568899999
Q ss_pred EEcCCC
Q 012890 252 VKHGNC 257 (454)
Q Consensus 252 v~r~~~ 257 (454)
+.|+++
T Consensus 366 v~R~G~ 371 (473)
T PRK10942 366 LLRDGK 371 (473)
T ss_pred EEECCe
Confidence 998764
No 30
>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=98.22 E-value=3.7e-06 Score=87.81 Aligned_cols=77 Identities=21% Similarity=0.309 Sum_probs=59.9
Q ss_pred ceeeeEEEEEeeCC-------CCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEE
Q 012890 179 MSGIGINLREVPDA-------NGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTI 250 (454)
Q Consensus 179 ~~glGi~~~~~~d~-------~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l 250 (454)
.+.+|+.++.+..+ ....+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+++
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 45677777664311 001368999999999999999999999999999999987 666665543 67899999
Q ss_pred EEEcCCC
Q 012890 251 EVKHGNC 257 (454)
Q Consensus 251 ~v~r~~~ 257 (454)
++.|++.
T Consensus 311 ~v~R~g~ 317 (428)
T TIGR02037 311 GILRKGK 317 (428)
T ss_pred EEEECCE
Confidence 9999764
No 31
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.20 E-value=2.3e-06 Score=89.81 Aligned_cols=67 Identities=19% Similarity=0.122 Sum_probs=54.7
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhh-CCCCCcEEEEEEEcCCCCCeeEEEee
Q 012890 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCGPIESIQVQ 266 (454)
Q Consensus 198 ~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l-~g~~g~~v~l~v~r~~~~~~~~v~l~ 266 (454)
.+|..|.++|||++||||+||+|++|||+++.++ +++...+ ....|+++++++.|+++....++++.
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~--~~l~~~v~~~~~g~~v~v~v~R~gk~~~~~v~l~ 195 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDW--DAVRLALVSKIGDESTTITVAPFGSDQRRDKTLD 195 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhccCCceEEEEEeCCccceEEEEec
Confidence 4688999999999999999999999999999998 5665444 34567889999999876655555553
No 32
>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=98.17 E-value=3.2e-06 Score=87.97 Aligned_cols=59 Identities=20% Similarity=0.332 Sum_probs=52.9
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~ 257 (454)
+++|.+|.++|||+++||++||+|++|||+++.++ +++...+....++.+.++++|++.
T Consensus 204 g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g~ 262 (420)
T TIGR00054 204 EPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSW--TDFVSAVKENPGKSMDIKVERNGE 262 (420)
T ss_pred CcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCceEEEEEECCE
Confidence 47889999999999999999999999999999988 788888877778889999999763
No 33
>PRK10898 serine endoprotease; Provisional
Probab=98.14 E-value=5.6e-06 Score=84.19 Aligned_cols=60 Identities=20% Similarity=0.287 Sum_probs=51.8
Q ss_pred eEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 196 ~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
.+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+.+++.|+++
T Consensus 279 ~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~~l~~~l~~~~~g~~v~l~v~R~g~ 339 (353)
T PRK10898 279 QGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISA--LETMDQVAEIRPGSVIPVVVMRDDK 339 (353)
T ss_pred CeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECCE
Confidence 378999999999999999999999999999999987 566555544 678899999998763
No 34
>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=98.14 E-value=4.4e-06 Score=84.95 Aligned_cols=59 Identities=25% Similarity=0.330 Sum_probs=52.0
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
+++|..|.++|||+++||++||+|++|||+++.++ .++...+.. ..|+.+.+++.|+++
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 68899999999999999999999999999999988 677666654 678899999999764
No 35
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.11 E-value=5.7e-06 Score=86.90 Aligned_cols=59 Identities=15% Similarity=0.270 Sum_probs=52.9
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~ 257 (454)
+.+|..|.++|||++|||++||+|++|||+++.++ +++.+.+....++.+.+++.|++.
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 47899999999999999999999999999999988 778777777778899999999874
No 36
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=98.01 E-value=2.6e-05 Score=68.40 Aligned_cols=83 Identities=16% Similarity=0.280 Sum_probs=57.1
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCC-CCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCC
Q 012890 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGP 259 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~-GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~ 259 (454)
|+.+++...... ....+.|.+|.|+|||++|||++ .|.|+.+|+..+++. +++..++....++.+.|.|.+.....
T Consensus 29 G~sv~~~~~~~~-~~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~--~~l~~~v~~~~~~~l~L~Vyns~~~~ 105 (138)
T PF04495_consen 29 GISVRFESFEGA-EEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDE--DDLFELVEANENKPLQLYVYNSKTDS 105 (138)
T ss_dssp -EEEEEEE-TTG-CCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--ST--CHHHHHHHHTTTS-EEEEEEETTTTC
T ss_pred cEEEEEeccccc-ccceEEEeEecCCCHHHHCCccccccEEEEccceecCCH--HHHHHHHHHcCCCcEEEEEEECCCCe
Confidence 444555543211 12368899999999999999998 699999999888866 67888888888999999998766556
Q ss_pred eeEEEee
Q 012890 260 IESIQVQ 266 (454)
Q Consensus 260 ~~~v~l~ 266 (454)
.+.+++.
T Consensus 106 vR~V~i~ 112 (138)
T PF04495_consen 106 VREVTIT 112 (138)
T ss_dssp EEEEEE-
T ss_pred EEEEEEE
Confidence 6666663
No 37
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=97.99 E-value=4.8e-05 Score=65.92 Aligned_cols=96 Identities=26% Similarity=0.403 Sum_probs=69.3
Q ss_pred HHHHHHHHHhcCCCCceecChHHhhhhccCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCE
Q 012890 148 HGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGV 226 (454)
Q Consensus 148 ~~~i~~ml~~L~D~Ht~~l~~~~~~~~~~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~ 226 (454)
...+..+.++-+..|-++..- .....|+||.+.--.+.+ +.++|++++||+-|++-| |++||.+++|||.
T Consensus 76 katvaafaaseghahprvvel-------pktdeglgfnvmggkeqn--spiyisriipggvadrhgglkrgdqllsvngv 146 (207)
T KOG3550|consen 76 KATVAAFAASEGHAHPRVVEL-------PKTDEGLGFNVMGGKEQN--SPIYISRIIPGGVADRHGGLKRGDQLLSVNGV 146 (207)
T ss_pred HHHHHHHHHhccCCCCceeec-------CccccccceeeccCcccC--CceEEEeecCCccccccCcccccceeEeecce
Confidence 345566667777777666421 112358888886533233 379999999999999875 9999999999999
Q ss_pred EccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 227 DVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 227 ~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
++++.-.+....+|+...| .|.+.|+
T Consensus 147 svege~hekavellkaa~g-svklvvr 172 (207)
T KOG3550|consen 147 SVEGEHHEKAVELLKAAVG-SVKLVVR 172 (207)
T ss_pred eecchhhHHHHHHHHHhcC-cEEEEEe
Confidence 9998877778888876554 5566554
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=4.1e-05 Score=78.07 Aligned_cols=74 Identities=23% Similarity=0.511 Sum_probs=57.1
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEc--------CCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEE
Q 012890 181 GIGINLREVPDANGVVTLKVLGLI--------LDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~--------~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v 252 (454)
.+|+.+.. + +++|.... .+|||+++||+.||+|++|||+++..+ +++.+.+....++.+.+++
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----K---GVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNM--DDLANLINKAGGEKLTLTI 167 (402)
T ss_pred EEEEEEec----C---EEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCeEEEEE
Confidence 36777654 2 56666542 258999999999999999999999988 7888888776688999999
Q ss_pred EcCCCCCeeEEEe
Q 012890 253 KHGNCGPIESIQV 265 (454)
Q Consensus 253 ~r~~~~~~~~v~l 265 (454)
+|++. ..++++
T Consensus 168 ~R~Ge--~~tv~V 178 (402)
T TIGR02860 168 ERGGK--IIETVI 178 (402)
T ss_pred EECCE--EEEEEE
Confidence 99763 334444
No 39
>PRK10942 serine endoprotease; Provisional
Probab=97.83 E-value=4.2e-05 Score=80.76 Aligned_cols=57 Identities=19% Similarity=0.405 Sum_probs=50.6
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~ 256 (454)
+++|..|.++|||+++||++||+|++|||++|.++ +++.+.+... +..+.|+|+|++
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 58999999999999999999999999999999988 7777777654 368999999876
No 40
>PRK10139 serine endoprotease; Provisional
Probab=97.82 E-value=3.7e-05 Score=80.81 Aligned_cols=57 Identities=23% Similarity=0.439 Sum_probs=50.4
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~ 256 (454)
+++|..|.++|||+++||++||+|++|||+++.++ +++.+.+.... +.+.+++.|++
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 58899999999999999999999999999999988 77877776543 68889998876
No 41
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.80 E-value=3.6e-05 Score=81.32 Aligned_cols=75 Identities=24% Similarity=0.362 Sum_probs=61.3
Q ss_pred CcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 177 YDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 177 ~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
.+..||||.+.......+ --|-.+++||||++.| |++||+|++|||++|.+++..++.++++ ..|-+|+|+|...
T Consensus 762 ~ENeGFGFVi~sS~~kp~---sgiGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIK-daGlsVtLtIip~ 837 (984)
T KOG3209|consen 762 KENEGFGFVIMSSQNKPE---SGIGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIK-DAGLSVTLTIIPP 837 (984)
T ss_pred ccCCceeEEEEecccCCC---CCccccccCChhHhhccccccceEEEecCeeeeccCchhHHHHHH-hcCceEEEEEcCh
Confidence 345788988876433333 2277899999999998 9999999999999999999999998886 4688999999754
No 42
>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=97.80 E-value=3.8e-05 Score=80.28 Aligned_cols=58 Identities=26% Similarity=0.367 Sum_probs=52.0
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~ 256 (454)
+++|..|.++|||+++||++||+|++|||+++.++ .++.+.+.. +.++.+.+++.|++
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 68999999999999999999999999999999987 777777765 46889999999876
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=97.76 E-value=4.6e-05 Score=78.26 Aligned_cols=61 Identities=20% Similarity=0.361 Sum_probs=47.4
Q ss_pred EEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE-cCCCCCeeEEEeee
Q 012890 200 VLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK-HGNCGPIESIQVQR 267 (454)
Q Consensus 200 V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~-r~~~~~~~~v~l~r 267 (454)
|..|.++|||+++||++||+|++|||+++.+| .++...+. +..+.+++. |++ ...++.+.+
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 56789999999999999999999999999999 66665553 356888886 444 445555543
No 44
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=97.54 E-value=9.5e-05 Score=77.03 Aligned_cols=59 Identities=24% Similarity=0.236 Sum_probs=48.3
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~ 258 (454)
+.+|..|.++|||++||+++||+|++|||+++.++ .++...+.... .++.+++.|+++.
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 46789999999999999999999999999999988 66665555444 5778888776543
No 45
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.52 E-value=8.5e-05 Score=59.93 Aligned_cols=46 Identities=26% Similarity=0.281 Sum_probs=39.2
Q ss_pred eEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhC
Q 012890 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (454)
Q Consensus 196 ~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~ 241 (454)
.+++|++|.+||||+.|||+.+|+|+.|||.+.+-...++..+.++
T Consensus 59 ~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i~ 104 (124)
T KOG3553|consen 59 KGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRIT 104 (124)
T ss_pred ccEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHhh
Confidence 3699999999999999999999999999999887666666655553
No 46
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.47 E-value=0.0003 Score=74.61 Aligned_cols=78 Identities=28% Similarity=0.410 Sum_probs=65.1
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhC-CCCCcEEEEEEEcC
Q 012890 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVKHG 255 (454)
Q Consensus 178 ~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~-g~~g~~v~l~v~r~ 255 (454)
...||||.+.--.|..+...+.|.+|+.++||++.| |+.||+|+.|||.-+-+.+..++.+.++ .+.|..|.|++.|+
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 467899998753322344578899999999999999 9999999999999999999888887775 48899999999873
No 47
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.41 E-value=0.0006 Score=69.25 Aligned_cols=66 Identities=24% Similarity=0.349 Sum_probs=53.2
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhC-CCCCcEEEEEEEcCCCCCeeEEE
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVKHGNCGPIESIQ 264 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~-g~~g~~v~l~v~r~~~~~~~~v~ 264 (454)
+++|..|.+++||+++|++.||+|+++||+++.+. .++...+. ...|+.+.+++.|+++....+++
T Consensus 271 G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~--~~l~~~v~~~~~g~~v~~~~~r~g~~~~~~v~ 337 (347)
T COG0265 271 GAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASL--SDLVAAVASNRPGDEVALKLLRGGKERELAVT 337 (347)
T ss_pred ceEEEecCCCChHHHcCCCCCCEEEEECCEEccCH--HHHHHHHhccCCCCEEEEEEEECCEEEEEEEE
Confidence 58899999999999999999999999999999987 55555443 45799999999998543333333
No 48
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00059 Score=62.64 Aligned_cols=61 Identities=21% Similarity=0.296 Sum_probs=49.7
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCC-HHHHHHhhCCCCCcEEEEEEEcCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKS-AFEVSSLLQGPSETFVTIEVKHGNC 257 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~-~~~~~~~l~g~~g~~v~l~v~r~~~ 257 (454)
..+|..|.++|||++|||+.||+|+++....--+.. ...+....+...++.+.++|.|.+.
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 467899999999999999999999999987765553 3455555666788899999998764
No 49
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.13 E-value=0.00087 Score=69.91 Aligned_cols=68 Identities=34% Similarity=0.450 Sum_probs=55.0
Q ss_pred eeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHH-hhCCCCCcEEEEEE
Q 012890 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSS-LLQGPSETFVTIEV 252 (454)
Q Consensus 181 glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~-~l~g~~g~~v~l~v 252 (454)
.+|+++.- .+..+++|..|..++||++.||+.||.|+.||.++..++.-++... +|.-++|..++|.-
T Consensus 418 SvGLRLAG----GNDVGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtila 486 (1027)
T KOG3580|consen 418 SVGLRLAG----GNDVGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILA 486 (1027)
T ss_pred eeeeEecc----CCceeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehh
Confidence 46777753 3346899999999999999999999999999999999886555444 45558899988854
No 50
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=97.03 E-value=0.0009 Score=70.51 Aligned_cols=87 Identities=21% Similarity=0.429 Sum_probs=68.0
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
..+|+.+.+...+.--..++|.+...++||++.| |..||.|++|||.++.++.+...+.++++ +..+.|+++|.+-
T Consensus 657 EiLGVViVESGWGSmLPTVViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~c-- 734 (829)
T KOG3605|consen 657 EILGVVIVESGWGSILPTVVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSC-- 734 (829)
T ss_pred ceeeEEEEecCccccchHHHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecC--
Confidence 4688888763222112346788999999999999 99999999999999999988888888887 5567799999873
Q ss_pred CCeeEEEeeee
Q 012890 258 GPIESIQVQRQ 268 (454)
Q Consensus 258 ~~~~~v~l~r~ 268 (454)
.+..++.+.|.
T Consensus 735 pPV~~V~I~RP 745 (829)
T KOG3605|consen 735 PPVTTVLIRRP 745 (829)
T ss_pred CCceEEEeecc
Confidence 45677777664
No 51
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=96.58 E-value=0.0067 Score=64.40 Aligned_cols=68 Identities=24% Similarity=0.353 Sum_probs=55.0
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
..||+.+.. ++...+.|-.|.+++||.++.+++||++++|||+||+.. .++.+.++...|+-..|.++
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 468888875 454567899999999999999999999999999999987 77777777766665555443
No 52
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=96.46 E-value=0.0077 Score=58.66 Aligned_cols=47 Identities=21% Similarity=0.356 Sum_probs=36.9
Q ss_pred hhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 209 AHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 209 A~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
-..+|||.||++++|||.++.+. ++..+++.. ...+.++|+|.|++.
T Consensus 220 F~~~GLq~GDva~sING~dL~D~--~qa~~l~~~L~~~tei~ltVeRdGq 267 (276)
T PRK09681 220 FDASGFKEGDIAIALNQQDFTDP--RAMIALMRQLPSMDSIQLTVLRKGA 267 (276)
T ss_pred HHHcCCCCCCEEEEeCCeeCCCH--HHHHHHHHHhccCCeEEEEEEECCE
Confidence 35689999999999999999987 444444432 567899999999874
No 53
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=96.44 E-value=0.0041 Score=61.15 Aligned_cols=75 Identities=27% Similarity=0.416 Sum_probs=62.2
Q ss_pred cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 176 ~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
+...+|+|+.+.--.+ -...++|+.++.+-.|+..| |-.||.|+.|||..|+....+++..+|++ .|+.|+|+|.
T Consensus 62 RQ~vGGlGLSIKGGaE--Hn~PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLRN-AGdeVtlTV~ 137 (505)
T KOG3549|consen 62 RQKVGGLGLSIKGGAE--HNLPVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILRN-AGDEVTLTVK 137 (505)
T ss_pred eeecCcceeeeccccc--cCccEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHHh-cCCEEEEEeH
Confidence 3456899999874211 12358899999999999999 78999999999999999999999998885 5899999985
No 54
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=96.16 E-value=0.005 Score=61.41 Aligned_cols=75 Identities=27% Similarity=0.409 Sum_probs=59.8
Q ss_pred cCcceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 176 ~~~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
+++..|+|+.++--.+ +.-.++|+.+.+|-.|++++ |..||.|++|||.++.+.+.++..+.|+ ..|+.|.++|+
T Consensus 92 K~d~gGLGISIKGGre--NkMPIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLK-raGkeV~levK 167 (506)
T KOG3551|consen 92 KQDAGGLGISIKGGRE--NKMPILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALK-RAGKEVLLEVK 167 (506)
T ss_pred EecCCcceEEeecCcc--cCCceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHH-hhCceeeeeee
Confidence 3566799999875222 22368899999999999998 9999999999999999998888777775 35778877763
No 55
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=96.08 E-value=0.011 Score=62.92 Aligned_cols=66 Identities=21% Similarity=0.288 Sum_probs=53.6
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEe
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQV 265 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~~~v~l 265 (454)
-++|..|+++|||++ -|++||.+++||+.-+.++ .++-+.|....|+.++|+|.|++.....++++
T Consensus 304 mLvV~~vL~~gpa~k-~Le~GDillavN~t~l~df--~~l~~iLDegvgk~l~LtI~Rggqelel~vtv 369 (955)
T KOG1421|consen 304 MLVVETVLPEGPAEK-KLEPGDILLAVNSTCLNDF--EALEQILDEGVGKNLELTIQRGGQELELTVTV 369 (955)
T ss_pred eEEEEEeccCCchhh-ccCCCcEEEEEcceehHHH--HHHHHHHhhccCceEEEEEEeCCEEEEEEEEe
Confidence 467889999999998 5999999999999888877 66777787778999999999987533333333
No 56
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=95.96 E-value=0.0092 Score=63.34 Aligned_cols=58 Identities=28% Similarity=0.430 Sum_probs=49.3
Q ss_pred eEEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 196 VTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 196 ~~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
.+++|.+|.||+.|+++||++||.|+.|||+..+.++...+..+|++. +..+|+|+.+
T Consensus 562 fgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrnn--thLtltvKtN 619 (1283)
T KOG3542|consen 562 FGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRNN--THLTLTVKTN 619 (1283)
T ss_pred ceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcCC--ceEEEEEecc
Confidence 468999999999999999999999999999999998777777788764 5677777643
No 57
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=95.89 E-value=0.014 Score=56.42 Aligned_cols=55 Identities=36% Similarity=0.585 Sum_probs=45.0
Q ss_pred EEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEE
Q 012890 197 TLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v 252 (454)
-++|..|..++||++.| ++.||+|++|||.+|++...-++.++++-..+ .|.|.+
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~~-eV~Ihy 86 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSLN-EVKIHY 86 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhcc-ceEEEe
Confidence 47899999999999998 99999999999999999877777777654332 455555
No 58
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=95.88 E-value=0.0085 Score=65.65 Aligned_cols=57 Identities=28% Similarity=0.361 Sum_probs=47.8
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
.++|..|-+|+|+.- .|++||.|++|||++|++...+.+..+++.- ...|.|+|-++
T Consensus 76 PviVr~VT~GGps~G-KL~PGDQIl~vN~Epv~daprervIdlvRac-e~sv~ltV~qP 132 (1298)
T KOG3552|consen 76 PVIVRFVTEGGPSIG-KLQPGDQILAVNGEPVKDAPRERVIDLVRAC-ESSVNLTVCQP 132 (1298)
T ss_pred ceEEEEecCCCCccc-cccCCCeEEEecCcccccccHHHHHHHHHHH-hhhcceEEecc
Confidence 689999999999863 4999999999999999998878888887753 45788888664
No 59
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=95.62 E-value=0.027 Score=62.00 Aligned_cols=75 Identities=23% Similarity=0.426 Sum_probs=57.9
Q ss_pred eeeeEEEEEeeC-CCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 180 SGIGINLREVPD-ANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 180 ~glGi~~~~~~d-~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
.|+|+.+.-... ++...+++|..|.+|++|+..| |+.||.+++|||.++-+++.+....++- ..|..|.++|...
T Consensus 943 nGmGLSIVAAkGaGq~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmt-rtg~vV~leVaKq 1019 (1629)
T KOG1892|consen 943 NGMGLSIVAAKGAGQRKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMT-RTGNVVHLEVAKQ 1019 (1629)
T ss_pred CCceEEEEeeccCCccccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHh-ccCCeEEEehhhh
Confidence 577777654221 1122468999999999999988 9999999999999999998777666554 4578899998643
No 60
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=95.41 E-value=0.05 Score=51.27 Aligned_cols=52 Identities=19% Similarity=0.200 Sum_probs=39.1
Q ss_pred cCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcCCC
Q 012890 204 ILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (454)
Q Consensus 204 ~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~~~ 257 (454)
.+++--++.|||+||+.++||+.++++- +++..+++. ..-+..++||.|+|.
T Consensus 215 kd~slF~~sglq~GDIavaiNnldltdp--~~m~~llq~l~~m~s~qlTv~R~G~ 267 (275)
T COG3031 215 KDGSLFYKSGLQRGDIAVAINNLDLTDP--EDMFRLLQMLRNMPSLQLTVIRRGK 267 (275)
T ss_pred CCcchhhhhcCCCcceEEEecCcccCCH--HHHHHHHHhhhcCcceEEEEEecCc
Confidence 3445567789999999999999999876 555444433 445788999998764
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=95.29 E-value=0.084 Score=48.42 Aligned_cols=69 Identities=36% Similarity=0.509 Sum_probs=57.3
Q ss_pred hHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 300 ~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
.....+.+.|++..+.+++.|||++ +.+||.+..+..+...+... ++|+++.+
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 89999999999998877531 26899999
Q ss_pred CCCCCChHHHHHHHHh
Q 012890 380 NNRTASASEIVASALH 395 (454)
Q Consensus 380 ~~~TaSaaE~~a~~lk 395 (454)
++..+|++-+++.+-.
T Consensus 66 ~g~AaSaG~~ia~a~d 81 (178)
T cd07021 66 NDRAASAGALIALAAD 81 (178)
T ss_pred CCchHHHHHHHHHhCC
Confidence 9999999999888654
No 62
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=95.07 E-value=0.025 Score=59.39 Aligned_cols=59 Identities=20% Similarity=0.300 Sum_probs=48.0
Q ss_pred EEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCC
Q 012890 197 TLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~ 256 (454)
.++|..+-..+-|++-| |+.||+|++|||....+++..+...++....| ++.+.|.|+.
T Consensus 220 qIFvKeit~~gLAardgnlqEGDiiLkINGtvteNmSLtDar~LIEkS~G-KL~lvVlRD~ 279 (1027)
T KOG3580|consen 220 QIFVKEITRTGLAARDGNLQEGDIILKINGTVTENMSLTDARKLIEKSRG-KLQLVVLRDS 279 (1027)
T ss_pred hhhhhhhcccchhhccCCcccccEEEEECcEeeccccchhHHHHHHhccC-ceEEEEEecC
Confidence 57788888888777765 99999999999999999999998888876665 5666676653
No 63
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=95.00 E-value=0.043 Score=57.34 Aligned_cols=69 Identities=29% Similarity=0.478 Sum_probs=56.4
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEE
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~ 253 (454)
..+|+.++. ..+. .++|.++..|+-+++.| |+.||+|..|||.++.+....++..++++..| .+++++.
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 356777776 2222 68999999999999999 89999999999999999988899988887764 6667664
No 64
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.92 E-value=0.085 Score=55.10 Aligned_cols=59 Identities=20% Similarity=0.258 Sum_probs=48.5
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCC-CCcEEEEEEEcCCC
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGP-SETFVTIEVKHGNC 257 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~-~g~~v~l~v~r~~~ 257 (454)
.++|..|++++++...++..||.|++|||++|.+. .++..+++.. .++++.+..+|..+
T Consensus 399 ~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~--~~l~~~i~~~~~~~~v~vl~~~~~e 458 (473)
T KOG1320|consen 399 LVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNL--KHLYELIEECSTEDKVAVLDRRSAE 458 (473)
T ss_pred EEEEEEeccCCCcccccccCCCEEEEECCEEeech--HHHHHHHHhcCcCceEEEEEecCcc
Confidence 47888999999999999999999999999999988 7788887653 34567666666543
No 65
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=94.62 E-value=0.055 Score=55.95 Aligned_cols=73 Identities=22% Similarity=0.314 Sum_probs=55.0
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCC--CcEEEEEEEc
Q 012890 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPS--ETFVTIEVKH 254 (454)
Q Consensus 182 lGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~--g~~v~l~v~r 254 (454)
+|+.+.-..+..|..+++|.++.+++..+.-| |.+||-|+.||.+..++++.+++...|+... --.++++|..
T Consensus 263 LGiSivgqsn~rgDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvAk 338 (626)
T KOG3571|consen 263 LGISIVGQSNARGDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVAK 338 (626)
T ss_pred ceeEeecccCcCCCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEee
Confidence 56665543333344589999999999888888 9999999999999999999888777776421 1236777754
No 66
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=93.58 E-value=0.14 Score=49.12 Aligned_cols=59 Identities=32% Similarity=0.456 Sum_probs=48.0
Q ss_pred eEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcC
Q 012890 196 VTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (454)
Q Consensus 196 ~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~ 255 (454)
.+++|++..+|+-|+..| |...|++++|||.+|.+.+.+++..++-.. ....-+||+..
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN-shNLIiTVkPA 253 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN-SHNLIITVKPA 253 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc-ccceEEEeccc
Confidence 368899999999999999 789999999999999999999988776543 23455666543
No 67
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=92.49 E-value=0.23 Score=56.30 Aligned_cols=53 Identities=36% Similarity=0.384 Sum_probs=44.5
Q ss_pred EEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEE
Q 012890 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (454)
Q Consensus 199 ~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v 252 (454)
.|..|.++|||..+|+++||.|+.|||+++.++...++.+++.. .|..+.+++
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll~-~gn~v~~~t 713 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLLK-SGNKVTLRT 713 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHHh-cCCeeEEEe
Confidence 57789999999999999999999999999999998888887753 345555544
No 68
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=91.09 E-value=0.25 Score=47.34 Aligned_cols=72 Identities=21% Similarity=0.368 Sum_probs=57.0
Q ss_pred eeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEEcC
Q 012890 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHG 255 (454)
Q Consensus 180 ~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~r~ 255 (454)
.-+|+.+.. ||.....|..+.++|--++.- +.+||.|.+|||+.+-++.+.++.++|+. +.|.+.++.+..+
T Consensus 137 dalGlTITD----NG~GyAFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrLieP 210 (334)
T KOG3938|consen 137 DALGLTITD----NGAGYAFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRLIEP 210 (334)
T ss_pred cccceEEee----CCcceeeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEeecc
Confidence 457877764 554457888888998766644 89999999999999999999999888875 6788888877544
No 69
>cd07020 Clp_protease_NfeD_1 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentially c
Probab=91.06 E-value=1.3 Score=40.80 Aligned_cols=68 Identities=34% Similarity=0.488 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 301 ~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
....+.+.|+.+.+.+++.++|++ +.+||.+..+..+...+.. .++|++..++
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 456788888888877789888854 6778899888887765531 2478999998
Q ss_pred ---CCCCChHHHHHHHHh
Q 012890 381 ---NRTASASEIVASALH 395 (454)
Q Consensus 381 ---~~TaSaaE~~a~~lk 395 (454)
+.++|++-.++.+-.
T Consensus 67 ~~~G~AasgG~~iala~D 84 (187)
T cd07020 67 PSGARAASAGTYILLAAH 84 (187)
T ss_pred cCCCCchhHHHHHHHhCC
Confidence 899999988887654
No 70
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=90.29 E-value=0.22 Score=53.18 Aligned_cols=47 Identities=26% Similarity=0.420 Sum_probs=41.6
Q ss_pred EEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCC
Q 012890 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSE 245 (454)
Q Consensus 199 ~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g 245 (454)
+|-.++.|+-|++-|+++|-+|+.|||++|.....+.+.++|....|
T Consensus 759 iICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVG 805 (829)
T KOG3605|consen 759 IICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVG 805 (829)
T ss_pred EeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhh
Confidence 46678999999999999999999999999998888888888876555
No 71
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.93 E-value=0.74 Score=47.12 Aligned_cols=70 Identities=24% Similarity=0.392 Sum_probs=51.6
Q ss_pred eEEEEEEEcCCChhhhcCCCC-CCEEEeeCCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCCCeeEEEeee
Q 012890 196 VTLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQR 267 (454)
Q Consensus 196 ~~~~V~~V~~~spA~~aGL~~-GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~~~~~v~l~r 267 (454)
.++.|..|.++|||.+|||.. =|-|++|||..++..+ +.+..+++....+ |+++|..-.....+.+.+.+
T Consensus 15 eg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dn-d~Lk~llk~~sek-Vkltv~n~kt~~~R~v~I~p 85 (462)
T KOG3834|consen 15 EGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDN-DTLKALLKANSEK-VKLTVYNSKTQEVRIVEIVP 85 (462)
T ss_pred eeEEEEEeecCChHHhcCcchhhhhhheeCcccccCch-HHHHHHHHhcccc-eEEEEEecccceeEEEEecc
Confidence 467788999999999999865 5699999999998663 4466666665544 99999765444455555543
No 72
>PF12812 PDZ_1: PDZ-like domain
Probab=89.80 E-value=0.51 Score=37.14 Aligned_cols=43 Identities=14% Similarity=0.120 Sum_probs=33.2
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC
Q 012890 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG 242 (454)
Q Consensus 198 ~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g 242 (454)
.++...-.++++..-|+..|.+|.+|||+++.++ +++.+.+++
T Consensus 32 gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~L--d~f~~vvk~ 74 (78)
T PF12812_consen 32 GVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDL--DDFIKVVKK 74 (78)
T ss_pred EEEEEecCCChhhhCCCCCCeEEEeECCcCCcCH--HHHHHHHHh
Confidence 3445566788887766999999999999999988 666665543
No 73
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=89.58 E-value=0.68 Score=47.31 Aligned_cols=53 Identities=32% Similarity=0.371 Sum_probs=42.7
Q ss_pred EEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCCCCCcE---EEEEEEc
Q 012890 200 VLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETF---VTIEVKH 254 (454)
Q Consensus 200 V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g~~g~~---v~l~v~r 254 (454)
+.++..+++|..+|++.||+|+++|+.++..+ +++...+....+.. +.+.+.|
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 34688999999999999999999999999998 66665555544544 6777777
No 74
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.56 E-value=0.8 Score=46.89 Aligned_cols=82 Identities=16% Similarity=0.250 Sum_probs=58.6
Q ss_pred eeEEEEEeeCCC-CceEEEEEEEcCCChhhhcCCC-CCCEEEee-CCEEccCCCHHHHHHhhCCCCCcEEEEEEEcCCCC
Q 012890 182 IGINLREVPDAN-GVVTLKVLGLILDGPAHSAGVR-QGDEVLAV-NGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (454)
Q Consensus 182 lGi~~~~~~d~~-g~~~~~V~~V~~~spA~~aGL~-~GD~Il~I-nG~~v~~~~~~~~~~~l~g~~g~~v~l~v~r~~~~ 258 (454)
||+.++.-..+. ....+-|.+|.++|||++|||+ -+|.|+-+ |.+- .+. +++..++....++.+.+.|.+-+..
T Consensus 94 lGvsvrFcsf~~A~~~vwHvl~V~p~SPaalAgl~~~~DYivG~~~~~~-~~~--eDl~~lIeshe~kpLklyVYN~D~d 170 (462)
T KOG3834|consen 94 LGVSVRFCSFDGAVESVWHVLSVEPNSPAALAGLRPYTDYIVGIWDAVM-HEE--EDLFTLIESHEGKPLKLYVYNHDTD 170 (462)
T ss_pred cceEEEeccCccchhheeeeeecCCCCHHHhcccccccceEecchhhhc-cch--HHHHHHHHhccCCCcceeEeecCCC
Confidence 666666533211 1123558899999999999988 88999988 5443 222 6788889888999999988766555
Q ss_pred CeeEEEee
Q 012890 259 PIESIQVQ 266 (454)
Q Consensus 259 ~~~~v~l~ 266 (454)
..+.++++
T Consensus 171 ~~ReVti~ 178 (462)
T KOG3834|consen 171 SCREVTIT 178 (462)
T ss_pred ccceEEee
Confidence 66777775
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=86.24 E-value=3.8 Score=37.31 Aligned_cols=70 Identities=24% Similarity=0.275 Sum_probs=54.2
Q ss_pred hHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 300 ~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
.....+.+.+++..+.+++.++|++ +-+||.+..+..+.+.+.. .+.|+++.+
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 3456678888877777899999998 5678898888888766532 136899999
Q ss_pred C---CCCCChHHHHHHHHhc
Q 012890 380 N---NRTASASEIVASALHD 396 (454)
Q Consensus 380 ~---~~TaSaaE~~a~~lk~ 396 (454)
+ +..+|++-+++.+-..
T Consensus 66 ~p~g~~AaSag~~I~~a~~~ 85 (172)
T cd07015 66 YPPGASAASAGTYIALGSHL 85 (172)
T ss_pred ecCCCeehhHHHHHHHhcCc
Confidence 8 8889999999888654
No 76
>cd00394 Clp_protease_like Caseinolytic protease (ClpP) is an ATP-dependent protease. Clp protease (caseinolytic protease; ClpP; endopeptidase Clp; Peptidase S14; ATP-dependent protease, ClpAP)-like enzymes are highly conserved serine proteases and belong to the ClpP/Crotonase superfamily. Included in this family are Clp proteases that are involved in a number of cellular processes such as degradation of misfolded proteins, regulation of short-lived proteins and housekeeping removal of dysfunctional proteins. They are also implicated in the control of cell growth, targeting DNA-binding protein from starved cells. The functional Clp protease is comprised of two components: a proteolytic component and one of several regulatory ATPase components, both of which are required for effective levels of protease activity in the presence of ATP. Active site consists of the triad Ser, His and Asp, preferring hydrophobic or non-polar residues at P1 or P1' positions. The protease exists as a tetradec
Probab=84.37 E-value=3.2 Score=36.86 Aligned_cols=67 Identities=25% Similarity=0.391 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHhc-CCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~~~-~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
..+++.+.|+++... .+++++|++. .+||.+..+..+.+.+.. +++|++..+
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 456677888877654 4899999985 567887777766665421 237899999
Q ss_pred CCCCCChHHHHHHHH
Q 012890 380 NNRTASASEIVASAL 394 (454)
Q Consensus 380 ~~~TaSaaE~~a~~l 394 (454)
++.++|++=.++.+-
T Consensus 65 ~g~~~s~g~~la~~~ 79 (161)
T cd00394 65 GGQAASAGYYIATAA 79 (161)
T ss_pred CChhHHHHHHHHhCC
Confidence 999998886666544
No 77
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=82.00 E-value=2.2 Score=45.82 Aligned_cols=61 Identities=28% Similarity=0.340 Sum_probs=47.4
Q ss_pred cceeeeEEEEEeeCCCCceEEEEEEEcCCChhhhcC-CCCCCEEEeeCCEEccCCCHHHHHHhhCC
Q 012890 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG 242 (454)
Q Consensus 178 ~~~glGi~~~~~~d~~g~~~~~V~~V~~~spA~~aG-L~~GD~Il~InG~~v~~~~~~~~~~~l~g 242 (454)
...|+|+.+....| | .-+|..+.++|||+..+ |..||+|+.||++.+.+|....+...++.
T Consensus 211 p~eglg~~I~Ssyd--g--~h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwqlk~vV~sL~~ 272 (638)
T KOG1738|consen 211 PSEGLGLYIDSSYD--G--PHVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQLKVVVSSLRE 272 (638)
T ss_pred cccCCceEEeeecC--C--ceeccccccCChHHHhhcccCccceeeecccccccchhHhHHhhccc
Confidence 34577888776433 3 46789999999999877 99999999999999999976655555543
No 78
>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=79.96 E-value=7.5 Score=36.34 Aligned_cols=68 Identities=25% Similarity=0.317 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 302 RKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 302 ~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
.+++.+.++++.+ ..++++||++- .+||.+..+.++...+..- . -.+|++..++
T Consensus 15 ~~~l~~~l~~a~~d~~i~~vvl~~~-s~Gg~~~~~~~l~~~i~~~------------------~------~~kpvia~v~ 69 (207)
T TIGR00706 15 PEDFDKKIKRIKDDKSIKALLLRIN-SPGGTVVASEEIYEKLKKL------------------K------AKKPVVASMG 69 (207)
T ss_pred HHHHHHHHHHHhhCCCccEEEEEec-CCCCCHHHHHHHHHHHHHh------------------c------CCCCEEEEEC
Confidence 4567888887764 57999999884 5677776666655543210 0 1479999999
Q ss_pred CCCCChHHHHHHHH
Q 012890 381 NRTASASEIVASAL 394 (454)
Q Consensus 381 ~~TaSaaE~~a~~l 394 (454)
+.++|++=.++.+.
T Consensus 70 g~a~s~g~~la~aa 83 (207)
T TIGR00706 70 GVAASGGYYIAMAA 83 (207)
T ss_pred CccchHHHHHHhcC
Confidence 99998887777654
No 79
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=78.93 E-value=14 Score=38.53 Aligned_cols=62 Identities=21% Similarity=0.311 Sum_probs=51.4
Q ss_pred CCeeEEEEechh-hhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCce
Q 012890 286 TTSVGYMRLKEF-NALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGET 348 (454)
Q Consensus 286 ~~~igYi~i~sF-~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~ 348 (454)
.+++.++.++.= +..+.+.+.+.++..++.++..+||+| +-|||.++.+.++.+.|...+.+
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 357778888754 445678899999999988999999998 68999999999999999887654
No 80
>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=76.22 E-value=4.3 Score=37.29 Aligned_cols=38 Identities=29% Similarity=0.407 Sum_probs=31.6
Q ss_pred eeEEEEEeeCCCCceEEEEEEEcCCChhhhcCCCCCCEEEeeC
Q 012890 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVN 224 (454)
Q Consensus 182 lGi~~~~~~d~~g~~~~~V~~V~~~spA~~aGL~~GD~Il~In 224 (454)
.|+.+.. +++ ++.|..|..||||+++|+.-|++|++|-
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 4666665 344 7899999999999999999999998874
No 81
>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=76.03 E-value=4.8 Score=35.83 Aligned_cols=66 Identities=27% Similarity=0.327 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 301 ~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
..+.+.+.|..+... +.++|.+ +-+||++..+..+.+.+.. .++|++..++
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 356778888776653 7888888 7889999888887776532 1368999999
Q ss_pred CCCCChHHHHHHHHh
Q 012890 381 NRTASASEIVASALH 395 (454)
Q Consensus 381 ~~TaSaaE~~a~~lk 395 (454)
+.++|++-.++.+-.
T Consensus 67 g~a~s~g~~ia~a~d 81 (160)
T cd07016 67 GLAASAASVIAMAGD 81 (160)
T ss_pred chHHhHHHHHHhcCC
Confidence 999999988887665
No 82
>PF01972 SDH_sah: Serine dehydrogenase proteinase; InterPro: IPR002825 This family of archaebacterial proteins, formerly known as DUF114, has been found to be a serine dehydrogenase proteinase distantly related to ClpP proteinases that belong to the serine proteinase superfamily. The family belong to MEROPS peptidase family S49; they are mostly unassigned peptidases but include the archaean signal peptide peptidase 1 []. The family has a catalytic triad of Ser, Asp, His residues, which shows an altered residue ordering compared with the ClpP proteinases but similar to that of the carboxypeptidase clan []. ; GO: 0016021 integral to membrane
Probab=74.82 E-value=13 Score=36.33 Aligned_cols=72 Identities=25% Similarity=0.334 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEECC
Q 012890 302 RKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVNN 381 (454)
Q Consensus 302 ~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~~ 381 (454)
.+.+.++++...+. +++.|.+ +-+||.+.++..++.++... ..|+.|+|..
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 34566666655432 3344444 58999999999999987632 2468888899
Q ss_pred CCCChHHHHHHHHhcCCCeEEEccc
Q 012890 382 RTASASEIVASALHDNCRAVLVGEK 406 (454)
Q Consensus 382 ~TaSaaE~~a~~lk~~~~a~vVGe~ 406 (454)
...||+-++|.+... .++|..
T Consensus 128 ~A~SAGTlIALaADe----IvM~p~ 148 (285)
T PF01972_consen 128 YAMSAGTLIALAADE----IVMGPG 148 (285)
T ss_pred ccccHHHHHHHhCCe----EEECCC
Confidence 999999988877643 455543
No 83
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=69.32 E-value=9.1 Score=38.41 Aligned_cols=70 Identities=23% Similarity=0.268 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 302 RKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 302 ~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
.+.+.+.++.+.. .+++++||++ +-|||.+..+..+++.+-.-. .++||+|.++
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~i-nSPGG~v~as~~i~~~l~~l~------------------------~~~PV~v~v~ 136 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRI-NSPGGSVVASELIARALKRLR------------------------AKKPVVVSVG 136 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEE-ECcCCchhHHHHHHHHHHHHh------------------------hcCCEEEEEC
Confidence 3456666666654 4589888876 568999988888888765311 1239999999
Q ss_pred CCCCChHHHHHHHHhc
Q 012890 381 NRTASASEIVASALHD 396 (454)
Q Consensus 381 ~~TaSaaE~~a~~lk~ 396 (454)
..++|++=++|.+...
T Consensus 137 ~~AASGGY~IA~aAd~ 152 (317)
T COG0616 137 GYAASGGYYIALAADK 152 (317)
T ss_pred CeecchhhhhhccCCE
Confidence 9999999999887653
No 84
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=69.30 E-value=27 Score=32.53 Aligned_cols=82 Identities=17% Similarity=0.139 Sum_probs=56.7
Q ss_pred CeeEEEEechhhhhHHHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEec
Q 012890 287 TSVGYMRLKEFNALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (454)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (454)
.++-||. ...+......+.+.|..++. .+.+.++|.+- -+||++.++..+.+.+..
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 11223345677777777776 45788888886 788999999888877642
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHHhc
Q 012890 366 DNSPLVTAPVIVLVNNRTASASEIVASALHD 396 (454)
Q Consensus 366 ~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~ 396 (454)
.+.||++++++..+|+|-+++.+-..
T Consensus 80 -----~~~~V~t~v~G~AaSaaslIl~ag~~ 105 (197)
T PRK14512 80 -----VKPKVFTIGVGLVASAAALIFLAAKK 105 (197)
T ss_pred -----CCCCEEEEEEeeeHhHHHHHHhcCCc
Confidence 12478888888888888888777654
No 85
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=61.85 E-value=23 Score=32.06 Aligned_cols=70 Identities=14% Similarity=0.142 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
...++.++++++.+ ..++++||++. .+||.+.....+...+.. + ...++||+..+
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 34677888877754 46899999994 567776544333222110 0 01257899999
Q ss_pred CCCCCChHHHHHHHH
Q 012890 380 NNRTASASEIVASAL 394 (454)
Q Consensus 380 ~~~TaSaaE~~a~~l 394 (454)
++.++|++=.++.+.
T Consensus 79 ~G~a~g~g~~la~a~ 93 (177)
T cd07014 79 GGNAASGGYWISTPA 93 (177)
T ss_pred CCchhHHHHHHHHhC
Confidence 999988887777664
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=61.32 E-value=21 Score=31.93 Aligned_cols=69 Identities=20% Similarity=0.242 Sum_probs=50.4
Q ss_pred hHHHHHHHHHHHHHhc-CCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEE
Q 012890 300 LARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVL 378 (454)
Q Consensus 300 ~~~~~l~~~l~~l~~~-~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VL 378 (454)
...+.+.+.|..+... +.+.++|-+ +-+||++..+..+.+.+..- +.|++..
T Consensus 12 ~~~~~~~~~L~~l~~~~~~~~i~l~I-nSpGG~v~~~~~i~~~i~~~--------------------------~~~v~~~ 64 (162)
T cd07013 12 ISANQFAAQLLFLGAVNPEKDIYLYI-NSPGGDVFAGMAIYDTIKFI--------------------------KADVVTI 64 (162)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEE-ECCCCcHHHHHHHHHHHHhc--------------------------CCCceEE
Confidence 3456777888777654 568899988 77889998888877765421 2357777
Q ss_pred ECCCCCChHHHHHHHHh
Q 012890 379 VNNRTASASEIVASALH 395 (454)
Q Consensus 379 v~~~TaSaaE~~a~~lk 395 (454)
+.+.++|+|-+++.+-.
T Consensus 65 ~~g~aaS~~~~i~~a~~ 81 (162)
T cd07013 65 IDGLAASMGSVIAMAGA 81 (162)
T ss_pred EEeehhhHHHHHHHcCC
Confidence 78899999987776654
No 87
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=60.09 E-value=37 Score=31.79 Aligned_cols=70 Identities=20% Similarity=0.228 Sum_probs=51.0
Q ss_pred hhHHHHHHHHHHHHHhcC-CceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEE
Q 012890 299 ALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIV 377 (454)
Q Consensus 299 ~~~~~~l~~~l~~l~~~~-~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~V 377 (454)
....+++...|..+...+ .+.+.|-+ +-+||++..+..+.+.+..- +.|++.
T Consensus 46 ~~~~~~i~~~L~~l~~~~~~~~I~l~I-NSpGG~v~~g~~I~d~i~~~--------------------------~~~v~t 98 (207)
T PRK12553 46 DASANDVMAQLLVLESIDPDRDITLYI-NSPGGSVTAGDAIYDTIQFI--------------------------RPDVQT 98 (207)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCEEEEE-eCCCCcHHHHHHHHHHHHhc--------------------------CCCcEE
Confidence 345667777777777655 67888888 77889999888887765321 136777
Q ss_pred EECCCCCChHHHHHHHHh
Q 012890 378 LVNNRTASASEIVASALH 395 (454)
Q Consensus 378 Lv~~~TaSaaE~~a~~lk 395 (454)
++.+.++|+|-+++.+-.
T Consensus 99 ~~~G~aaSaa~lI~~ag~ 116 (207)
T PRK12553 99 VCTGQAASAGAVLLAAGT 116 (207)
T ss_pred EEEeehhhHHHHHHHcCC
Confidence 888888888888877754
No 88
>cd07023 S49_Sppa_N_C Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. This subfamily contains members with either a single domain (sometimes referred to as 36K type), such as sohB peptidase, protein C and archaeal signal peptide peptidase, or an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad
Probab=59.59 E-value=32 Score=31.95 Aligned_cols=70 Identities=21% Similarity=0.329 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHH-hcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~-~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
...++.++|..+. +..++++||++ +.+||++.....+...+.. + ....+|++..+
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 4566778888775 34699999999 4578887655444332110 0 01157999999
Q ss_pred CCCCCChHHHHHHHH
Q 012890 380 NNRTASASEIVASAL 394 (454)
Q Consensus 380 ~~~TaSaaE~~a~~l 394 (454)
++.++|++=.+|.+.
T Consensus 74 ~g~~~s~g~~lA~aa 88 (208)
T cd07023 74 GDVAASGGYYIAAAA 88 (208)
T ss_pred CCcchhHHHHHHhhC
Confidence 999999887776653
No 89
>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=55.70 E-value=16 Score=33.12 Aligned_cols=82 Identities=20% Similarity=0.252 Sum_probs=54.8
Q ss_pred CeeEEEEechhhhhHHHHHHHHHHHHH-hcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEec
Q 012890 287 TSVGYMRLKEFNALARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (454)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~-~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (454)
+++-||.=+ -+......+.+.|..+. +...+.+.|-+ +.+||++..+..+.+.+..-
T Consensus 16 ~r~i~l~g~-I~~~~~~~~~~~L~~l~~~~~~~~i~i~I-NSpGG~v~~g~~i~~~i~~~-------------------- 73 (182)
T PF00574_consen 16 ERIIFLNGP-IDEESANRLISQLLYLENEDKNKPINIYI-NSPGGDVDAGLAIYDAIRSS-------------------- 73 (182)
T ss_dssp TTEEEEESS-BSHHHHHHHHHHHHHHHHHTSSSEEEEEE-EECEBCHHHHHHHHHHHHHS--------------------
T ss_pred CeEEEECCc-cCHHHHHHHHHHHHHHhccCCCceEEEEE-cCCCCccHHHHHHHHHHHhc--------------------
Confidence 444444422 12334556666666663 34567888888 77999999999998887642
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHHhc
Q 012890 366 DNSPLVTAPVIVLVNNRTASASEIVASALHD 396 (454)
Q Consensus 366 ~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~ 396 (454)
+.|+...+.+.++|+|-+++.+-+.
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 2356677778888888888776655
No 90
>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=53.90 E-value=41 Score=30.34 Aligned_cols=68 Identities=19% Similarity=0.224 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHhcC-CceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~~~~-~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
....+...+..+...+ .+.++|-+ +-+||++..+..+.+.+-.- +.|++..+
T Consensus 22 ~~~~i~~~l~~~~~~~~~~~i~l~i-nSpGG~v~~~~~i~~~l~~~--------------------------~~~v~t~~ 74 (171)
T cd07017 22 VANLIIAQLLYLESEDPKKPIYLYI-NSPGGSVTAGLAIYDTMQYI--------------------------KPPVSTIC 74 (171)
T ss_pred HHHHHHHHHHHHHccCCCCceEEEE-ECCCCCHHHHHHHHHHHHhc--------------------------CCCEEEEE
Confidence 3456777777666544 48888888 77888998888887775321 24677777
Q ss_pred CCCCCChHHHHHHHHh
Q 012890 380 NNRTASASEIVASALH 395 (454)
Q Consensus 380 ~~~TaSaaE~~a~~lk 395 (454)
.+.++|+|-+++.+-.
T Consensus 75 ~g~aaS~~~~i~~~g~ 90 (171)
T cd07017 75 LGLAASMGALLLAAGT 90 (171)
T ss_pred EeEehhHHHHHHHcCC
Confidence 7777777777666543
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=53.62 E-value=75 Score=29.69 Aligned_cols=80 Identities=25% Similarity=0.299 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
...++.++|+++.+ ..++++||++. .+||....+..+...+.. + .. .+||+..+
T Consensus 26 ~~~~l~~~l~~a~~d~~i~~Vvl~~~-s~gg~~~~~~~l~~~l~~------------------~-----~~-~KpViA~v 80 (214)
T cd07022 26 SYEGIAAAIRAALADPDVRAIVLDID-SPGGEVAGVFELADAIRA------------------A-----RA-GKPIVAFV 80 (214)
T ss_pred cHHHHHHHHHHHhhCCCCcEEEEEEe-CCCCcHHHHHHHHHHHHH------------------H-----hc-CCCEEEEE
Confidence 45677888887753 46999999984 467776655544443321 0 01 47999999
Q ss_pred CCCCCChHHHHHHHHhcCCCeEEEcccCCCC
Q 012890 380 NNRTASASEIVASALHDNCRAVLVGEKTFGK 410 (454)
Q Consensus 380 ~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~ 410 (454)
++.++|++=.+|.+.. .++-.+++--
T Consensus 81 ~g~a~s~gy~lA~~aD-----~i~a~~~a~~ 106 (214)
T cd07022 81 NGLAASAAYWIASAAD-----RIVVTPTAGV 106 (214)
T ss_pred CCchhhHHHHHHhcCC-----EEEEcCCCeE
Confidence 9999988877776543 3455555443
No 92
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=46.28 E-value=49 Score=36.41 Aligned_cols=54 Identities=22% Similarity=0.260 Sum_probs=45.0
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhhCC-CCCcEEEEEEE
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVK 253 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l~g-~~g~~v~l~v~ 253 (454)
+++|.....+|||.+ +|+.--.|++|||.++..+ ++....+.. +.++.+++...
T Consensus 863 gvyvt~rg~gspalq-~l~aa~fitavng~~t~~l--ddf~~~~~~ipdnsyv~v~~m 917 (955)
T KOG1421|consen 863 GVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTL--DDFYHMLLEIPDNSYVQVKQM 917 (955)
T ss_pred ceEEeecccCChhHh-hcchheeEEEecccccCcH--HHHHHHHhhCCCCceEEEEEe
Confidence 689999999999998 9999999999999999988 776665544 66777777664
No 93
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=44.12 E-value=26 Score=35.88 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=28.2
Q ss_pred EEEEEEEcCCChhhh-cCCCCCCEEEeeCCEEccCC
Q 012890 197 TLKVLGLILDGPAHS-AGVRQGDEVLAVNGVDVRGK 231 (454)
Q Consensus 197 ~~~V~~V~~~spA~~-aGL~~GD~Il~InG~~v~~~ 231 (454)
++.|++|...||+.- -||.+||.|.++||-+|+..
T Consensus 221 gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v 256 (484)
T KOG2921|consen 221 GVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKV 256 (484)
T ss_pred eEEEEeccccCCCcCcccCCccceEEecCCcccCCH
Confidence 567777777787642 28999999999999999866
No 94
>PRK02576 psbZ photosystem II reaction center protein Z; Provisional
Probab=43.52 E-value=21 Score=26.69 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=19.7
Q ss_pred HHHHHHHhhhhccCccccccCCcc
Q 012890 46 VLTGALSFNLLLSSPLALESSSSV 69 (454)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~~~~~~ 69 (454)
++++++++.+.+|.|..+++|+.=
T Consensus 10 ~aLi~~SfiLVVgVPV~~Asp~gW 33 (62)
T PRK02576 10 LALVVMSFVLVVGVPVAYASPQNW 33 (62)
T ss_pred HHHHHHHHHHHheeeeEEECCCcc
Confidence 455688999999999999998543
No 95
>CHL00082 psbZ photosystem II protein Z
Probab=43.29 E-value=22 Score=26.62 Aligned_cols=26 Identities=23% Similarity=0.243 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhhccCccccccCCccC
Q 012890 45 NVLTGALSFNLLLSSPLALESSSSVQ 70 (454)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (454)
.++++++++++.+|.|..+++|+.=+
T Consensus 9 v~aLi~~Sf~LVVgVPV~~Asp~~W~ 34 (62)
T CHL00082 9 VFALIATSFLLVIGVPVVFASPDGWS 34 (62)
T ss_pred HHHHHHHHHHHHheeeeEEECCCcch
Confidence 35566889999999999999985444
No 96
>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=43.17 E-value=70 Score=29.86 Aligned_cols=69 Identities=16% Similarity=0.173 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHhc-CCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 302 RKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 302 ~~~l~~~l~~l~~~-~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
..++.++++++... .++++||++ +++||++....++...+.. + ....+||+..++
T Consensus 23 ~~~l~~~l~~a~~d~~v~~ivL~~-~s~Gg~~~~~~~~~~~l~~------------------~-----~~~~kpVia~v~ 78 (211)
T cd07019 23 GDTTAAQIRDARLDPKVKAIVLRV-NSPGGSVTASEVIRAELAA------------------A-----RAAGKPVVVSAG 78 (211)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEE-cCCCcCHHHHHHHHHHHHH------------------H-----HhCCCCEEEEEC
Confidence 46788888887654 689999984 5688988766555432210 0 012589999999
Q ss_pred CCCCChHHHHHHHH
Q 012890 381 NRTASASEIVASAL 394 (454)
Q Consensus 381 ~~TaSaaE~~a~~l 394 (454)
+.++|++=.++.+-
T Consensus 79 g~a~s~gy~la~~a 92 (211)
T cd07019 79 GAAASGGYWISTPA 92 (211)
T ss_pred CeehhHHHHHHHhC
Confidence 99999888877754
No 97
>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=39.44 E-value=30 Score=25.51 Aligned_cols=26 Identities=31% Similarity=0.353 Sum_probs=21.0
Q ss_pred HHHHHHHHhhhhccCccccccCCccC
Q 012890 45 NVLTGALSFNLLLSSPLALESSSSVQ 70 (454)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (454)
.++++++++++.+|.|..+++|+.=+
T Consensus 6 v~aLi~~Sf~LVVgVPV~~Asp~~W~ 31 (58)
T TIGR03043 6 VLALVLLSFVLVVGVPVALASPGGWS 31 (58)
T ss_pred HHHHHHHHHHHHhhceeEEeCCCcch
Confidence 35566889999999999999986544
No 98
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=37.68 E-value=1e+02 Score=28.65 Aligned_cols=66 Identities=20% Similarity=0.224 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHhc-CCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEE
Q 012890 301 ARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLV 379 (454)
Q Consensus 301 ~~~~l~~~l~~l~~~-~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv 379 (454)
..+.+...+..+... +.+.+.|.+ +-+||.+..+..+.+.+-. .+.|++.++
T Consensus 44 ~~~~i~~~L~~l~~~~~~~~I~l~I-nSpGG~v~~g~~I~d~i~~--------------------------~~~~v~t~~ 96 (200)
T PRK00277 44 MANLIVAQLLFLEAEDPDKDIYLYI-NSPGGSVTAGLAIYDTMQF--------------------------IKPDVSTIC 96 (200)
T ss_pred HHHHHHHHHHHhhccCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh--------------------------cCCCEEEEE
Confidence 455666666666543 356688888 7788999988888776521 124678888
Q ss_pred CCCCCChHHHHHHH
Q 012890 380 NNRTASASEIVASA 393 (454)
Q Consensus 380 ~~~TaSaaE~~a~~ 393 (454)
.+.++|+|-+++.+
T Consensus 97 ~G~aaS~a~~I~~a 110 (200)
T PRK00277 97 IGQAASMGAFLLAA 110 (200)
T ss_pred EeEeccHHHHHHhc
Confidence 89999999888877
No 99
>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=35.33 E-value=82 Score=25.56 Aligned_cols=47 Identities=15% Similarity=0.036 Sum_probs=30.1
Q ss_pred CeeEEEEech-hhhhHHHHHHHHH-HHHHhcCCceeEEccCCCCCcchH
Q 012890 287 TSVGYMRLKE-FNALARKDLVTAM-KRLQDMGASYFILDLRDNLGGLVQ 333 (454)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l-~~l~~~~~~~LIiDLR~N~GG~~~ 333 (454)
+++..+++.. +.....+.+++.+ ..+.+.+.+.+|||+++=.-=+..
T Consensus 9 ~~~~v~~l~G~L~~~~a~~~~~~l~~~~~~~~~~~vvlDls~v~~iDss 57 (109)
T cd07041 9 DGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVIDSA 57 (109)
T ss_pred CCEEEEeeeeeECHHHHHHHHHHHHHHHHHcCCCEEEEECCCCchhcHH
Confidence 4566677664 4444566777765 445445788999999866544443
No 100
>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=32.16 E-value=1.4e+02 Score=27.40 Aligned_cols=66 Identities=20% Similarity=0.220 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHhcC-CceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEecCCCCCCCCCEEEEEC
Q 012890 302 RKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVLVN 380 (454)
Q Consensus 302 ~~~l~~~l~~l~~~~-~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~v~VLv~ 380 (454)
.+.+...|..+...+ .+.+.|.+ +-+||.+..+..+.+.+.. .+.|+..++.
T Consensus 40 ~~~ii~~L~~l~~~~~~~~i~l~I-nSpGG~v~~g~~I~d~l~~--------------------------~~~~v~t~~~ 92 (191)
T TIGR00493 40 ANLIVAQLLFLEAEDPEKDIYLYI-NSPGGSITAGLAIYDTMQF--------------------------IKPDVSTICI 92 (191)
T ss_pred HHHHHHHHHHhhccCCCCCEEEEE-ECCCCCHHHHHHHHHHHHh--------------------------cCCCEEEEEE
Confidence 455666666665432 45677777 6678999988888776532 1235677777
Q ss_pred CCCCChHHHHHHHH
Q 012890 381 NRTASASEIVASAL 394 (454)
Q Consensus 381 ~~TaSaaE~~a~~l 394 (454)
+..+|+|-+++++-
T Consensus 93 G~AaSaaslI~~aG 106 (191)
T TIGR00493 93 GQAASMGAFLLSAG 106 (191)
T ss_pred EeeccHHHHHHhcC
Confidence 88999888877653
No 101
>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=29.60 E-value=3.5e+02 Score=29.62 Aligned_cols=95 Identities=21% Similarity=0.213 Sum_probs=60.1
Q ss_pred CCeeEEEEechhhh--------hHHHHHHHHHHHHH-hcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCC
Q 012890 286 TTSVGYMRLKEFNA--------LARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRD 356 (454)
Q Consensus 286 ~~~igYi~i~sF~~--------~~~~~l~~~l~~l~-~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~ 356 (454)
.++|+.|.+..--. ...+.+.+.+++.. +..++++||.+- .+||....+..+...+..- |
T Consensus 307 ~~~vavI~~~G~I~~~~~~~~~~~~~~~~~~l~~a~~D~~VkaIVLrin-SpGGs~~ase~i~~~i~~~---------~- 375 (584)
T TIGR00705 307 QDKIGIVHLEGPIADGRDTEGNTGGDTVAALLRVARSDPDIKAVVLRIN-SPGGSVFASEIIRRELARA---------Q- 375 (584)
T ss_pred CCeEEEEEEEEEEcCCCCcccccCHHHHHHHHHHHhhCCCceEEEEEec-CCCCCHHHHHHHHHHHHHH---------H-
Confidence 57788888764311 12345666776664 346898888775 4567666665554433210 0
Q ss_pred cccceEEecCCCCCCCCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCC
Q 012890 357 PQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFG 409 (454)
Q Consensus 357 ~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G 409 (454)
...+||++.+++.++|++=.++.+.. .++-+++.-
T Consensus 376 -------------~~gKPVva~~~g~aaSggY~iA~aaD-----~I~a~p~t~ 410 (584)
T TIGR00705 376 -------------ARGKPVIVSMGAMAASGGYWIASAAD-----YIVASPNTI 410 (584)
T ss_pred -------------hCCCcEEEEECCccccHHHHHHHhCC-----EEEECCCCe
Confidence 01379999999999999988887664 355566553
No 102
>cd07043 STAS_anti-anti-sigma_factors Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.
Probab=29.42 E-value=1.5e+02 Score=22.94 Aligned_cols=54 Identities=20% Similarity=0.112 Sum_probs=32.0
Q ss_pred eeEEEEech-hhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHh
Q 012890 288 SVGYMRLKE-FNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKL 341 (454)
Q Consensus 288 ~igYi~i~s-F~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~ 341 (454)
++..+++.. +.....+.+.+.+......+.+.+|||+++-..=+...+..+.++
T Consensus 8 ~~~ii~l~G~l~~~~~~~~~~~~~~~~~~~~~~viid~~~v~~iDs~g~~~L~~l 62 (99)
T cd07043 8 GVLVVRLSGELDAATAPELREALEELLAEGPRRLVLDLSGVTFIDSSGLGVLLGA 62 (99)
T ss_pred CEEEEEEeceecccchHHHHHHHHHHHHcCCCEEEEECCCCCEEcchhHHHHHHH
Confidence 444555442 222234556666665544457899999999877766555544443
No 103
>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=28.40 E-value=1.5e+02 Score=24.31 Aligned_cols=65 Identities=14% Similarity=0.092 Sum_probs=41.1
Q ss_pred CeeEEEEech-hhhhHHHHHHHHHHHHHhcC---------CceeEEccCCCCCcchHHHHHHHH---hcccCCceEEE
Q 012890 287 TSVGYMRLKE-FNALARKDLVTAMKRLQDMG---------ASYFILDLRDNLGGLVQAGIEIAK---LFLNEGETITY 351 (454)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l~~l~~~~---------~~~LIiDLR~N~GG~~~~~~~l~~---~f~~~~~~~~~ 351 (454)
+++..+++.. +.....+.+.+.+.++...+ .+.+|||+++-..=+......|.+ .+-..+..+..
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 5667777764 33345677888877776655 589999999997766554443333 33444444444
No 104
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=28.10 E-value=28 Score=40.87 Aligned_cols=44 Identities=32% Similarity=0.505 Sum_probs=37.5
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEccCCCHHHHHHhh
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL 240 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~~~~~~~~~~~l 240 (454)
.++|..|.+++||..+.|+-||.++.||..++.++...+++..+
T Consensus 144 T~~~~eV~~n~~~~~a~LQ~~~~V~~v~~q~~A~i~~s~~~S~~ 187 (1973)
T KOG4407|consen 144 TIFIKEVQANGPAHYANLQTGDRVLMVNNQPIAGIAYSTIVSMI 187 (1973)
T ss_pred hhhhhhhccCChhHHHhhhccceeEEeecCcccchhhhhhhhhh
Confidence 57889999999999999999999999999999887655554443
No 105
>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=27.36 E-value=25 Score=28.45 Aligned_cols=7 Identities=57% Similarity=1.023 Sum_probs=3.8
Q ss_pred ccceecC
Q 012890 3 SLILNCS 9 (454)
Q Consensus 3 ~~~~~~~ 9 (454)
|+.+|||
T Consensus 20 Sv~VNCS 26 (91)
T PF03921_consen 20 SVWVNCS 26 (91)
T ss_dssp EEEEEEE
T ss_pred CEEEEEc
Confidence 4555555
No 106
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=27.04 E-value=1.7e+02 Score=27.26 Aligned_cols=81 Identities=16% Similarity=0.165 Sum_probs=52.1
Q ss_pred CeeEEEEechhhhhHHHHHHHHHHHHHhcC-CceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcccceEEec
Q 012890 287 TSVGYMRLKEFNALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVA 365 (454)
Q Consensus 287 ~~igYi~i~sF~~~~~~~l~~~l~~l~~~~-~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~~~~~~~~ 365 (454)
++|-||--. .+....+++...|..|...+ .+.+.|=+ +-+||++..+..+.+.+-.
T Consensus 25 ~Riifl~~~-i~~~~a~~ii~~Ll~l~~~~~~~~I~l~I-NSpGG~v~~g~aIyd~m~~--------------------- 81 (196)
T PRK12551 25 ERIIFLGEP-VTSDSANRIVAQLLFLEAEDPEKDIYLYI-NSPGGSVYDGLGIFDTMQH--------------------- 81 (196)
T ss_pred CcEEEECCe-ecHHHHHHHHHHHHHhhccCCCCCEEEEE-eCCCcchhhHHHHHHHHHh---------------------
Confidence 555555321 22334566777777666443 45555555 5678999988877766531
Q ss_pred CCCCCCCCCEEEEECCCCCChHHHHHHHHh
Q 012890 366 DNSPLVTAPVIVLVNNRTASASEIVASALH 395 (454)
Q Consensus 366 ~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk 395 (454)
.+.||..++.+..+|+|-+++++=.
T Consensus 82 -----~~~~V~t~~~G~AaS~AslIl~aG~ 106 (196)
T PRK12551 82 -----VKPDVHTVCVGLAASMGAFLLCAGA 106 (196)
T ss_pred -----cCCCEEEEEEEEehhHHHHHHhCCC
Confidence 2346888888999999988877753
No 107
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=26.55 E-value=1e+02 Score=25.97 Aligned_cols=29 Identities=17% Similarity=0.218 Sum_probs=22.5
Q ss_pred HHHHHHHHHhcCCceeEEccCCCCC----cchHH
Q 012890 305 LVTAMKRLQDMGASYFILDLRDNLG----GLVQA 334 (454)
Q Consensus 305 l~~~l~~l~~~~~~~LIiDLR~N~G----G~~~~ 334 (454)
+++++..+++.+++ +++|+|.++. |....
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 45666777777887 8999999999 86553
No 108
>PF01737 Ycf9: YCF9; InterPro: IPR002644 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents PsbZ (Ycf9), which is a core low molecular weight transmembrane protein of photosystem II in thylakoid-containing chloroplasts of cyanobacteria and plants. It is thought to be located at the interface of PSII and LHCII (light-harvesting complex II) complexes, the latter containing the light-harvesting antenna. PsbZ appears to act as a structural factor, or linker, that stabilises the PSII-LHCII supercomplexes, which fail to form in PsbZ-deficient mutants. This may in part be due to the marked decrease in two LHCII antenna proteins, CP26 and CP29, found in PsbZ-deficient mutants, which result in structural changes, as well as functional modifications in PSII []. PsbZ may also be involved in photo-protective processes under sub-optimal growth conditions.; GO: 0015979 photosynthesis, 0042549 photosystem II stabilization, 0009523 photosystem II, 0009539 photosystem II reaction center; PDB: 3A0B_Z 3ARC_Z 3A0H_Z 3PRQ_Z 4FBY_l 2AXT_z 3PRR_Z 3BZ1_Z 3KZI_Z 1S5L_Z ....
Probab=26.17 E-value=32 Score=25.46 Aligned_cols=23 Identities=30% Similarity=0.365 Sum_probs=19.2
Q ss_pred HHHHHHHHhhhhccCccccccCC
Q 012890 45 NVLTGALSFNLLLSSPLALESSS 67 (454)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~~~~ 67 (454)
.++++++++++.+|.|-.+++|+
T Consensus 6 v~aLi~~Sf~LVVgVPV~~Asp~ 28 (59)
T PF01737_consen 6 VFALIALSFLLVVGVPVVFASPD 28 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSTS
T ss_pred HHHHHHHHHHHHHHHHHhhcCCc
Confidence 35566889999999999999884
No 109
>PF06022 Cir_Bir_Yir: Plasmodium variant antigen protein Cir/Yir/Bir; InterPro: IPR006477 This group of sequences identifies a large paralogous family of variant antigens from several Plasmodium species (Plasmodium yoelii, Plasmodium berghei and Plasmodium chabaudi). It is not believed that there are any orthologs of this family in Plasmodium falciparum.
Probab=25.51 E-value=88 Score=30.85 Aligned_cols=47 Identities=23% Similarity=0.287 Sum_probs=27.7
Q ss_pred CCCCCCCCC-------CCCCccccccccccchhHHHHHHHHHHHHHhhhhccCcc
Q 012890 14 SSLPRLSPH-------KHSEQKAPIIQSNTNWAKKAVINVLTGALSFNLLLSSPL 61 (454)
Q Consensus 14 ~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (454)
++.|++.+. +.+.|.-.+++...... .+|+.++.+..++.+|+|..|
T Consensus 226 ~~lp~i~~~~~~~~~~~~~~~~s~~~sssssi~-nkLi~vl~if~aI~iflGIaY 279 (280)
T PF06022_consen 226 PSLPTIKTIKNSVKSSESSVQSSEVTSSSSSIA-NKLIPVLSIFGAIPIFLGIAY 279 (280)
T ss_pred ccCcccccccccccccccccccccccccccchh-hhHHHHHHHHHHHHHHhheec
Confidence 555555443 34455556666666654 445555555556777888755
No 110
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=25.28 E-value=41 Score=33.51 Aligned_cols=33 Identities=36% Similarity=0.535 Sum_probs=28.8
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEeeCCEEcc
Q 012890 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVR 229 (454)
Q Consensus 197 ~~~V~~V~~~spA~~aGL~~GD~Il~InG~~v~ 229 (454)
.+-+.+|.+.+||+++|.-.||.|+-+|+-++.
T Consensus 64 ~l~~lrv~~~~~~e~~~~~~~dyilg~n~Dp~~ 96 (417)
T COG5233 64 LLEVLRVNPESPAEKAGMVVGDYILGINEDPLR 96 (417)
T ss_pred hhhheeccccChhHhhccccceeEEeecCCcHH
Confidence 356788899999999999999999999977654
No 111
>PRK11778 putative inner membrane peptidase; Provisional
Probab=24.18 E-value=5.9e+02 Score=25.75 Aligned_cols=44 Identities=20% Similarity=0.209 Sum_probs=28.8
Q ss_pred CCCEEEEECCCCCChHHHHHHHHhcCCCeEEEcccCCCCceeeeEEEcC
Q 012890 372 TAPVIVLVNNRTASASEIVASALHDNCRAVLVGEKTFGKGLIQSVYELH 420 (454)
Q Consensus 372 ~~~v~VLv~~~TaSaaE~~a~~lk~~~~a~vVGe~T~G~~~~~~~~~L~ 420 (454)
.+||++.+++.++|++=++|.+.. .|+=.+++..|+.......+
T Consensus 154 ~kpVva~v~~~AASggY~iAsaAD-----~I~A~P~a~vGSIGVi~~~~ 197 (330)
T PRK11778 154 GIPLTVAVDKVAASGGYMMACVAD-----KIIAAPFAIVGSIGVVAQIP 197 (330)
T ss_pred CCCEEEEECCchhhHHHHHHHhCC-----EEEECCCCeEEeeeeeeecc
Confidence 369999999999999988887653 34555555444333333344
No 112
>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=23.65 E-value=5.4e+02 Score=23.79 Aligned_cols=105 Identities=20% Similarity=0.272 Sum_probs=57.5
Q ss_pred CCeeEEEEechhhhhHHHHHHHHHHHHHhcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecCCcc-------
Q 012890 286 TTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQ------- 358 (454)
Q Consensus 286 ~~~igYi~i~sF~~~~~~~l~~~l~~l~~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r~~~------- 358 (454)
+.++++|.+.....+ .+.+.+.+.++.+++...+|+|-..+ +....++..+...+....+. +-.+-
T Consensus 3 ~~~v~~i~l~~v~~g-~~~l~~~l~~~~~~g~~ivV~Da~t~-----~DL~~ia~a~~~~~~~~l~v-Gsagla~aL~~~ 75 (223)
T PF07005_consen 3 KRPVGLIDLEDVRRG-PEALSAALAALQAEGARIVVFDAETD-----EDLDAIAEALLELGRRVLWV-GSAGLAAALARA 75 (223)
T ss_dssp SSEEEEE-HHHHCC--HHHHHHHHHHHHHTTECEEEE-BSSC-----HHHHHHHHHCTT-S---EEE-ESCHHHHHHHHH
T ss_pred CCceEEEEHHHHhCc-HHHHHHHHHHHHhCCCcEEEEecCCH-----HHHHHHHHHHHhCCCceEEe-cchHHHHHHHhh
Confidence 467889998888544 56788999999988889999996554 44556777776655433222 21110
Q ss_pred --cceEEec-CCCCC-CCCCEEEEECCCCCChHHHHHHHHhcCC
Q 012890 359 --YQKTIVA-DNSPL-VTAPVIVLVNNRTASASEIVASALHDNC 398 (454)
Q Consensus 359 --~~~~~~~-~~~~~-~~~~v~VLv~~~TaSaaE~~a~~lk~~~ 398 (454)
....... ...+. ..+|+.++++..+.=+.+-+... +..+
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~Lvv~GS~s~~T~~Qi~~l-~~~~ 118 (223)
T PF07005_consen 76 LASPPEQPSQPPLPSPSRGPVLVVVGSVSPVTRRQIAYL-EQAG 118 (223)
T ss_dssp HHTT--C---CCCCS--SSEEEEEE---SHHHHHHHHHH--CCT
T ss_pred hccCcccccccccccCCCCCeEEEEcCCCHHHHHHHHHH-HHCC
Confidence 0000000 01111 17899999987777777777776 4433
No 113
>TIGR00377 ant_ant_sig anti-anti-sigma factor. This superfamily includes small (105-125 residue) proteins related to SpoIIAA of Bacillus subtilis, an anti-anti-sigma factor. SpoIIAA can bind to and inhibit the anti-sigma F factor SpoIIAB. Also, it can be phosphorylated by SpoIIAB on a Ser residue at position 59 of the seed alignment. A similar arrangement is inferred for RsbV, an anti-anti-sigma factor for sigma B. This Ser is fairly well conserved within a motif resembling MXS[STA]G[VIL]X[VIL][VILF] among homologous known or predicted anti-anti-sigma factors. Regions similar to SpoIIAA and apparently homologous, but differing considerably near the phosphorlated Ser of SpoIIAA, appear in a single copy in several longer proteins.
Probab=23.64 E-value=1.9e+02 Score=23.16 Aligned_cols=49 Identities=20% Similarity=0.102 Sum_probs=31.2
Q ss_pred CeeEEEEech-hhhhHHHHHHHHHHHHHh-cCCceeEEccCCCCCcchHHH
Q 012890 287 TSVGYMRLKE-FNALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAG 335 (454)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l~~l~~-~~~~~LIiDLR~N~GG~~~~~ 335 (454)
+++.++++.. +.......+.+.+.++.. .+.+.+|||+.+-..=+....
T Consensus 11 ~~~~vi~~~G~l~~~~~~~~~~~l~~~~~~~~~~~vvidls~v~~iDssgl 61 (108)
T TIGR00377 11 EGVVIVRLSGELDAHTAPLLREKVTPAAERTGPRPIVLDLEDLEFMDSSGL 61 (108)
T ss_pred CCEEEEEEecccccccHHHHHHHHHHHHHhcCCCeEEEECCCCeEEccccH
Confidence 4566666653 222335567777766654 478899999998876655433
No 114
>PRK10949 protease 4; Provisional
Probab=23.61 E-value=3e+02 Score=30.43 Aligned_cols=87 Identities=16% Similarity=0.183 Sum_probs=58.2
Q ss_pred CCCeeEEEEechhh-h-------hHHHHHHHHHHHHH-hcCCceeEEccCCCCCcchHHHHHHHHhcccCCceEEEEecC
Q 012890 285 GTTSVGYMRLKEFN-A-------LARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGR 355 (454)
Q Consensus 285 ~~~~igYi~i~sF~-~-------~~~~~l~~~l~~l~-~~~~~~LIiDLR~N~GG~~~~~~~l~~~f~~~~~~~~~~~~r 355 (454)
..++|+.|.+..-- . ...+.+.+.+++.. +..++++||++- .+||.......|...+..- |
T Consensus 324 ~~~~Iavi~~~G~I~~g~~~~g~~~~~~~~~~l~~a~~D~~vkaVvLrIn-SpGGs~~ase~i~~~i~~~---------r 393 (618)
T PRK10949 324 TGGSIAVIFANGAIMDGEETPGNVGGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVIRAELAAA---------R 393 (618)
T ss_pred CCCeEEEEEEEEEEcCCCCcCCCcCHHHHHHHHHHHHhCCCCcEEEEEec-CCCCcHHHHHHHHHHHHHH---------H
Confidence 35788988886532 1 12345666666654 457999999986 5677776666666555321 0
Q ss_pred CcccceEEecCCCCCCCCCEEEEECCCCCChHHHHHHHHh
Q 012890 356 DPQYQKTIVADNSPLVTAPVIVLVNNRTASASEIVASALH 395 (454)
Q Consensus 356 ~~~~~~~~~~~~~~~~~~~v~VLv~~~TaSaaE~~a~~lk 395 (454)
...+||++-+++..+|++=.+|.+..
T Consensus 394 --------------~~gKPVvas~~~~aASggY~iA~aad 419 (618)
T PRK10949 394 --------------AAGKPVVVSMGGMAASGGYWISTPAN 419 (618)
T ss_pred --------------hcCCcEEEEECCCCccHHHHHHHhcC
Confidence 01479999999999999888887763
No 115
>PRK13620 psbV cytochrome c-550; Provisional
Probab=23.10 E-value=1.1e+02 Score=28.65 Aligned_cols=16 Identities=38% Similarity=0.584 Sum_probs=11.9
Q ss_pred cceecCCCCCCCCCCC
Q 012890 4 LILNCSSCTSSSLPRL 19 (454)
Q Consensus 4 ~~~~~~~~~~~~~~~~ 19 (454)
+||.||.-.|.|++..
T Consensus 16 ~~~~~~~~~~~~~~~~ 31 (215)
T PRK13620 16 IILPCSQTASTSSSHW 31 (215)
T ss_pred HHhccccccccccccc
Confidence 5889998777776654
No 116
>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=21.78 E-value=3.3e+02 Score=21.72 Aligned_cols=50 Identities=12% Similarity=-0.013 Sum_probs=32.2
Q ss_pred CeeEEEEech-hhhhHHHHHHHHHHHHH-hcCCceeEEccCCCCCcchHHHH
Q 012890 287 TSVGYMRLKE-FNALARKDLVTAMKRLQ-DMGASYFILDLRDNLGGLVQAGI 336 (454)
Q Consensus 287 ~~igYi~i~s-F~~~~~~~l~~~l~~l~-~~~~~~LIiDLR~N~GG~~~~~~ 336 (454)
+++..+++.. +.....+.+.+.+.+.- ..+.+.+|||+++-.-=+.....
T Consensus 7 ~~~~vi~l~G~L~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~iDssgi~ 58 (106)
T TIGR02886 7 GDVLIVRLSGELDHHTAERVRRKIDDAIERRPIKHLILNLKNVTFMDSSGLG 58 (106)
T ss_pred CCEEEEEEecccchhhHHHHHHHHHHHHHhCCCCEEEEECCCCcEecchHHH
Confidence 4566777763 23334566777776543 34688999999998766554433
No 117
>cd07042 STAS_SulP_like_sulfate_transporter Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function. The SulP family is a large and diverse family of anion transporters, with members from eubacteria, plants, fungi, and mammals. They contain 10 to 14 transmembrane helices which form the catalytic core of the protein and a C-terminal extension, the STAS (Sulphate Transporter and AntiSigma factor antagonist) domain which plays a role in the function and regulation of the transport activity. The STAS domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.
Probab=20.19 E-value=3.3e+02 Score=21.35 Aligned_cols=51 Identities=20% Similarity=0.005 Sum_probs=29.4
Q ss_pred CCeeEEEEech-hhhhHHHHHHHHHHHHHhcC--CceeEEccCCCCCcchHHHH
Q 012890 286 TTSVGYMRLKE-FNALARKDLVTAMKRLQDMG--ASYFILDLRDNLGGLVQAGI 336 (454)
Q Consensus 286 ~~~igYi~i~s-F~~~~~~~l~~~l~~l~~~~--~~~LIiDLR~N~GG~~~~~~ 336 (454)
.+++.++++.. +.-...+.+.+.+.+..... .+.+|||+++-..=+...+.
T Consensus 7 ~~~~~v~~l~G~l~~~~~~~l~~~~~~~~~~~~~~~~lilD~~~v~~iDss~~~ 60 (107)
T cd07042 7 PPGVLIYRIDGPLFFGNAEYFKDRLLRLVDEDPPLKVVILDLSAVNFIDSTAAE 60 (107)
T ss_pred CCCEEEEEecCceEeehHHHHHHHHHHHhccCCCceEEEEECCCCchhhHHHHH
Confidence 35566666654 22223455666665555433 47899999987655444333
No 118
>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=20.12 E-value=81 Score=24.04 Aligned_cols=20 Identities=35% Similarity=0.699 Sum_probs=15.5
Q ss_pred cccccchhHHHHHHHHHHHH
Q 012890 32 IQSNTNWAKKAVINVLTGAL 51 (454)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~ 51 (454)
|..+++|..++.+++++.++
T Consensus 46 I~~n~kW~~r~iiGaiI~~i 65 (71)
T PF10779_consen 46 IKSNTKWIWRTIIGAIITAI 65 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34568999999988887755
Done!