Query 016195
Match_columns 393
No_of_seqs 242 out of 2980
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 04:40:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016195.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016195hhsearch_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 7.6E-50 1.6E-54 403.0 33.8 287 99-392 3-299 (389)
2 COG0793 Prc Periplasmic protea 100.0 2.2E-45 4.7E-50 370.9 28.6 245 142-391 59-306 (406)
3 PRK11186 carboxy-terminal prot 100.0 1.5E-43 3.2E-48 374.0 30.8 281 100-392 155-457 (667)
4 TIGR00225 prc C-terminal pepti 100.0 3.9E-41 8.5E-46 333.6 29.4 248 136-392 4-254 (334)
5 cd06567 Peptidase_S41 C-termin 99.9 2.1E-24 4.5E-29 202.0 16.2 161 105-392 1-164 (224)
6 cd07562 Peptidase_S41_TRI Tric 99.9 1.2E-24 2.5E-29 209.4 11.8 178 101-392 2-183 (266)
7 cd07563 Peptidase_S41_IRBP Int 99.9 1.5E-21 3.3E-26 186.0 15.8 163 104-392 1-177 (250)
8 smart00245 TSPc tail specific 99.8 3.4E-20 7.5E-25 170.1 14.1 129 260-392 3-132 (192)
9 cd07560 Peptidase_S41_CPP C-te 99.8 2.1E-19 4.6E-24 167.3 15.5 102 289-392 50-151 (211)
10 cd07561 Peptidase_S41_CPP_like 99.8 1.6E-19 3.6E-24 172.6 11.3 108 285-392 62-180 (256)
11 PF03572 Peptidase_S41: Peptid 99.6 1.3E-15 2.7E-20 135.7 9.3 104 288-392 1-110 (169)
12 PF14684 Tricorn_C1: Tricorn p 99.4 2.5E-13 5.5E-18 104.5 4.4 66 99-167 2-69 (70)
13 PF13180 PDZ_2: PDZ domain; PD 99.3 1.4E-11 2.9E-16 97.5 10.5 78 181-265 2-80 (82)
14 cd00988 PDZ_CTP_protease PDZ d 99.2 3.5E-10 7.6E-15 89.4 12.6 83 179-267 1-83 (85)
15 cd00136 PDZ PDZ domain, also c 99.0 3E-09 6.5E-14 80.9 8.9 68 181-252 2-69 (70)
16 PF00595 PDZ: PDZ domain (Also 98.9 4.8E-09 1.1E-13 82.4 8.5 74 178-253 8-81 (81)
17 cd00991 PDZ_archaeal_metallopr 98.8 5.1E-08 1.1E-12 76.5 10.4 65 198-266 12-77 (79)
18 cd00989 PDZ_metalloprotease PD 98.8 4.2E-08 9.1E-13 76.2 9.8 58 197-256 13-70 (79)
19 cd00990 PDZ_glycyl_aminopeptid 98.7 1.2E-07 2.5E-12 74.0 10.2 74 182-266 3-76 (80)
20 PF14685 Tricorn_PDZ: Tricorn 98.7 1.9E-07 4.2E-12 74.9 9.9 76 181-264 2-87 (88)
21 smart00228 PDZ Domain present 98.7 1.9E-07 4.1E-12 73.0 9.7 74 180-256 12-85 (85)
22 cd00992 PDZ_signaling PDZ doma 98.7 1.2E-07 2.7E-12 73.9 8.3 71 179-252 11-81 (82)
23 cd00986 PDZ_LON_protease PDZ d 98.6 2.6E-07 5.7E-12 72.2 9.5 57 198-257 10-67 (79)
24 cd00987 PDZ_serine_protease PD 98.5 7.6E-07 1.6E-11 70.7 9.3 58 197-256 25-83 (90)
25 TIGR01713 typeII_sec_gspC gene 98.3 6.2E-06 1.4E-10 79.2 11.6 58 197-256 192-250 (259)
26 TIGR00054 RIP metalloprotease 98.3 3.3E-06 7.2E-11 86.6 9.5 66 198-267 205-270 (420)
27 KOG3550 Receptor targeting pro 98.2 7.1E-06 1.5E-10 71.1 9.3 98 146-253 74-172 (207)
28 TIGR02037 degP_htrA_DO peripla 98.2 5.1E-06 1.1E-10 85.4 10.0 66 197-266 258-324 (428)
29 PF04495 GRASP55_65: GRASP55/6 98.2 8.2E-06 1.8E-10 71.0 8.9 70 197-268 44-114 (138)
30 TIGR02038 protease_degS peripl 98.2 4.8E-06 1E-10 83.5 8.6 66 197-266 279-345 (351)
31 PRK10779 zinc metallopeptidase 98.2 6.6E-06 1.4E-10 85.1 9.9 67 197-267 222-288 (449)
32 PRK10779 zinc metallopeptidase 98.2 3.8E-06 8.2E-11 86.9 8.0 66 198-265 128-194 (449)
33 PRK10139 serine endoprotease; 98.2 7.4E-06 1.6E-10 84.9 10.0 66 197-266 291-357 (455)
34 PRK10898 serine endoprotease; 98.2 8.3E-06 1.8E-10 81.8 9.5 66 197-266 280-346 (353)
35 PRK10942 serine endoprotease; 98.1 2.2E-05 4.8E-10 81.8 12.1 66 197-266 312-378 (473)
36 COG3975 Predicted protease wit 98.1 2E-05 4.3E-10 80.9 11.0 144 100-266 376-521 (558)
37 KOG3209 WW domain-containing p 98.0 7.2E-06 1.6E-10 86.0 6.5 76 177-256 762-838 (984)
38 TIGR02860 spore_IV_B stage IV 97.9 8.6E-05 1.9E-09 75.1 11.4 58 206-267 123-180 (402)
39 TIGR02037 degP_htrA_DO peripla 97.9 4.2E-05 9.1E-10 78.7 9.1 58 197-256 363-421 (428)
40 KOG3605 Beta amyloid precursor 97.9 2.2E-05 4.9E-10 81.7 7.0 147 102-267 592-744 (829)
41 PRK10139 serine endoprotease; 97.9 5.4E-05 1.2E-09 78.5 9.5 57 197-256 391-447 (455)
42 PRK10942 serine endoprotease; 97.8 8.7E-05 1.9E-09 77.3 10.1 57 197-256 409-465 (473)
43 TIGR03279 cyano_FeS_chp putati 97.8 5.5E-05 1.2E-09 77.1 7.9 61 200-267 2-63 (433)
44 KOG3209 WW domain-containing p 97.7 0.00012 2.7E-09 77.0 8.2 76 178-255 658-735 (984)
45 KOG3553 Tax interaction protei 97.6 5.7E-05 1.2E-09 61.2 4.0 45 197-241 60-104 (124)
46 TIGR00054 RIP metalloprotease 97.6 0.00014 3E-09 74.8 6.8 58 198-258 130-187 (420)
47 KOG3129 26S proteasome regulat 97.4 0.00046 9.9E-09 63.2 7.7 69 198-268 141-210 (231)
48 KOG3549 Syntrophins (type gamm 97.4 0.00021 4.5E-09 69.8 5.2 76 176-254 62-138 (505)
49 KOG3551 Syntrophins (type beta 97.4 0.00016 3.6E-09 71.4 3.9 75 176-253 92-167 (506)
50 COG0265 DegQ Trypsin-like seri 97.3 0.00084 1.8E-08 67.1 8.7 65 198-266 272-337 (347)
51 KOG3580 Tight junction protein 97.1 0.0011 2.3E-08 69.0 6.7 69 181-253 418-487 (1027)
52 PRK09681 putative type II secr 96.8 0.0043 9.2E-08 60.0 8.2 52 203-256 211-266 (276)
53 KOG1892 Actin filament-binding 96.8 0.0025 5.5E-08 69.3 6.8 76 180-256 943-1020(1629)
54 KOG3651 Protein kinase C, alph 96.7 0.0025 5.4E-08 61.4 5.7 56 197-253 31-87 (429)
55 KOG3552 FERM domain protein FR 96.6 0.0025 5.4E-08 69.2 5.0 57 197-255 76-132 (1298)
56 KOG3580 Tight junction protein 96.5 0.0047 1E-07 64.4 5.9 77 178-256 18-98 (1027)
57 COG3480 SdrC Predicted secrete 96.4 0.023 5E-07 55.5 10.0 77 179-265 120-198 (342)
58 KOG3542 cAMP-regulated guanine 96.3 0.0051 1.1E-07 64.9 5.4 56 197-254 563-618 (1283)
59 KOG1421 Predicted signaling-as 96.2 0.018 3.9E-07 61.1 8.2 65 197-266 304-368 (955)
60 KOG3532 Predicted protein kina 96.0 0.021 4.6E-07 60.5 8.0 67 179-251 385-451 (1051)
61 KOG0609 Calcium/calmodulin-dep 95.7 0.019 4.2E-07 59.5 6.1 71 180-255 134-205 (542)
62 COG3031 PulC Type II secretory 95.5 0.066 1.4E-06 50.4 8.2 50 206-257 217-267 (275)
63 KOG3606 Cell polarity protein 95.4 0.03 6.5E-07 53.4 5.6 59 197-256 195-254 (358)
64 KOG3571 Dishevelled 3 and rela 95.1 0.041 9E-07 56.6 5.9 72 182-255 263-339 (626)
65 cd07021 Clp_protease_NfeD_like 94.9 0.067 1.5E-06 48.6 6.4 49 300-349 13-61 (178)
66 KOG0606 Microtubule-associated 94.5 0.048 1E-06 61.0 5.0 55 198-253 660-714 (1205)
67 KOG1320 Serine protease [Postt 94.4 0.14 3E-06 53.2 8.0 65 198-266 400-465 (473)
68 KOG3834 Golgi reassembly stack 93.2 0.24 5.3E-06 50.2 7.0 69 198-269 111-181 (462)
69 KOG3605 Beta amyloid precursor 91.7 0.13 2.9E-06 54.5 3.1 56 181-245 750-805 (829)
70 KOG3834 Golgi reassembly stack 91.3 0.57 1.2E-05 47.6 6.9 70 197-268 16-86 (462)
71 KOG3938 RGS-GAIP interacting p 90.8 0.42 9.2E-06 45.7 5.1 73 180-256 137-211 (334)
72 PF12812 PDZ_1: PDZ-like domai 90.5 0.56 1.2E-05 36.7 4.9 41 199-241 33-73 (78)
73 KOG1738 Membrane-associated gu 90.1 0.47 1E-05 50.3 5.3 62 177-242 210-272 (638)
74 COG0750 Predicted membrane-ass 89.6 0.98 2.1E-05 45.3 7.1 54 199-254 132-188 (375)
75 COG1030 NfeD Membrane-bound se 83.8 3.9 8.4E-05 42.1 7.6 70 286-356 25-96 (436)
76 cd07020 Clp_protease_NfeD_1 No 79.4 6.2 0.00014 35.8 6.7 50 300-350 13-62 (187)
77 cd00394 Clp_protease_like Case 78.7 4.2 9E-05 35.6 5.2 49 300-349 11-60 (161)
78 PF11874 DUF3394: Domain of un 75.1 5.5 0.00012 36.3 5.0 39 181-224 112-150 (183)
79 KOG2921 Intramembrane metallop 67.0 6.8 0.00015 39.7 4.0 42 198-241 222-264 (484)
80 cd07015 Clp_protease_NfeD Nodu 64.8 21 0.00045 32.2 6.4 51 299-350 12-62 (172)
81 KOG1421 Predicted signaling-as 59.6 38 0.00083 37.0 8.0 71 198-272 864-935 (955)
82 PRK14512 ATP-dependent Clp pro 58.4 28 0.00061 32.0 6.2 57 287-345 23-80 (197)
83 cd07016 S14_ClpP_1 Caseinolyti 52.4 22 0.00047 31.1 4.3 46 301-349 16-61 (160)
84 TIGR00706 SppA_dom signal pept 45.3 50 0.0011 30.4 5.7 42 301-343 14-56 (207)
85 PF01972 SDH_sah: Serine dehyd 43.4 37 0.00081 33.0 4.6 42 301-345 76-117 (285)
86 PRK12553 ATP-dependent Clp pro 42.0 94 0.002 28.7 7.0 47 298-345 45-92 (207)
87 COG5233 GRH1 Peripheral Golgi 41.5 12 0.00026 37.0 0.9 47 178-229 50-96 (417)
88 KOG4407 Predicted Rho GTPase-a 40.1 15 0.00034 42.5 1.6 46 197-242 144-189 (1973)
89 cd07013 S14_ClpP Caseinolytic 37.8 61 0.0013 28.7 4.8 45 299-344 11-56 (162)
90 PF00574 CLP_protease: Clp pro 37.1 84 0.0018 28.0 5.7 61 287-349 16-77 (182)
91 cd07017 S14_ClpP_2 Caseinolyti 35.8 1E+02 0.0022 27.4 5.9 46 299-345 20-66 (171)
92 KOG4371 Membrane-associated pr 35.0 33 0.00071 39.1 3.1 75 176-254 1253-1328(1332)
93 COG0616 SppA Periplasmic serin 34.5 76 0.0016 31.4 5.4 41 302-343 82-123 (317)
94 cd07041 STAS_RsbR_RsbS_like Su 34.0 1.1E+02 0.0023 24.5 5.4 41 288-328 10-52 (109)
95 PRK00277 clpP ATP-dependent Cl 32.5 1E+02 0.0022 28.4 5.5 45 299-344 42-87 (200)
96 TIGR02886 spore_II_AA anti-sig 26.1 2E+02 0.0043 22.8 5.7 42 288-329 8-51 (106)
97 PF03921 ICAM_N: Intercellular 23.8 32 0.0007 27.7 0.5 7 3-9 20-26 (91)
98 cd07014 S49_SppA Signal peptid 23.5 1.5E+02 0.0033 26.3 4.9 38 300-338 22-60 (177)
99 PF01740 STAS: STAS domain; I 23.4 1.6E+02 0.0035 23.7 4.7 45 287-331 8-62 (117)
100 cd07023 S49_Sppa_N_C Signal pe 23.4 2E+02 0.0043 26.3 5.8 40 300-340 17-57 (208)
101 cd00466 DHQase_II Dehydroquina 22.8 1.1E+02 0.0023 26.8 3.6 52 294-350 44-95 (140)
102 TIGR01088 aroQ 3-dehydroquinat 22.5 96 0.0021 27.1 3.2 53 293-350 43-95 (141)
103 cd07022 S49_Sppa_36K_type Sign 21.9 1.5E+02 0.0033 27.2 4.8 43 299-342 24-67 (214)
104 PRK13015 3-dehydroquinate dehy 21.7 1.2E+02 0.0026 26.7 3.7 54 293-351 45-98 (146)
105 PF04343 DUF488: Protein of un 21.2 1.6E+02 0.0035 24.4 4.4 29 307-336 4-36 (122)
106 TIGR03042 PS_II_psbQ_bact phot 20.4 51 0.0011 28.9 1.1 26 41-66 3-28 (142)
107 cd07042 STAS_SulP_like_sulfate 20.3 2.2E+02 0.0047 22.1 4.8 42 287-328 8-52 (107)
No 1
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=100.00 E-value=7.6e-50 Score=403.02 Aligned_cols=287 Identities=33% Similarity=0.561 Sum_probs=242.0
Q ss_pred cChHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhh-cccChHHHHHHHHHHHHhcCCCceeecCHHHHhhhc--
Q 016195 99 KTNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS-SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA-- 175 (393)
Q Consensus 99 ~~~~~~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~-~i~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~-- 175 (393)
+++.++|+++|++++++|||+. |+++||++++++|++. .+++.++++.+|++|+++|+|||++|++++++..+.
T Consensus 3 ~~~~~~f~e~w~~v~~~~~d~~---~~g~dW~~~~e~y~~~~~~~~~~~~~~~i~~ml~~L~D~hs~y~~~~~~~~~~~~ 79 (389)
T PLN00049 3 TEENLLFLEAWRTVDRAYVDKT---FNGQSWFRYRENALKNEPMNTREETYAAIRKMLATLDDPFTRFLEPEKFKSLRSG 79 (389)
T ss_pred ccHHHHHHHHHHHHHHHHcCcc---ccccCHHHHHHHHhhccCCCcHHHHHHHHHHHHhhCCCCcccCcCHHHHHHHHHh
Confidence 4789999999999999999994 8999999999999874 467888999999999999999999999999987543
Q ss_pred -cCceeeeEEEEEEeeCCCC-eeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 176 -RYDMSGIGINLREVPDANG-VVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 176 -~~~~~glGi~~~~~~~~~G-~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
++.+.|+|+.+...+..++ ...++|..|.++|||+++||++||+|++|||+++.+++..++..++++..|+.|.|++.
T Consensus 80 ~~~~~~GiG~~~~~~~~~~~~~~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~ 159 (389)
T PLN00049 80 TKGAVTGVGLEVGYPTGSDGPPAGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLR 159 (389)
T ss_pred ccCCceEEEEEEEEccCCCCccCcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEE
Confidence 5778999999876432110 01378999999999999999999999999999999988888888999999999999999
Q ss_pred eCCCCceEEEEEEeeccccCceeeeeee---ecCCCceEEEEEeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCC
Q 016195 254 HGNCGPIESIQVQRQLVARTPVFYRLEH---LDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGG 330 (393)
Q Consensus 254 r~~~~~~~~v~l~r~~~~~~~v~~~~~~---l~~~~~~igYI~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG 330 (393)
|++ ...+++++|+.+..++|.+.... .+.++++||||+|++|...+.+++.++|++++++++++||||||+|+||
T Consensus 160 r~g--~~~~~~l~r~~v~~~~v~~~~~~~~~~~~~~~~IgYi~i~~F~~~~~~~~~~~l~~l~~~~~~glIlDLR~N~GG 237 (389)
T PLN00049 160 RGP--ETRLVTLTREKVSLNPVKSRLCEVPGPGAGSPKIGYIKLTTFNQNASSAVKEAIETLRANGVDAFVLDLRDNSGG 237 (389)
T ss_pred ECC--EEEEEEEEeeeEeccceeeEEEeeccccCCCCCEEEEEeccccchhHHHHHHHHHHHHHCCCCEEEEEcCCCCCC
Confidence 976 57888999988887888765432 1223568999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHhccccCCcEEEEEeccCcccceeeecCCC--CCCCCcEEEEEcCCCcccccceec
Q 016195 331 LVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNS--PLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 331 ~l~~a~~ia~lfl~~g~~v~~~~~r~~~~~~~~~~~~~--~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
.+..++.++++|+++|. ++++..+.+.. ..+..++. ..+.+|++||||+.|+||||+|+.
T Consensus 238 ~~~~a~~ia~~f~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~PvvVLvn~~TaSasEi~a~ 299 (389)
T PLN00049 238 LFPAGIEIAKLWLDKGV-IVYIADSRGVR-DIYDADGSSAIATSEPLAVLVNKGTASASEILAG 299 (389)
T ss_pred CHHHHHHHHHHhcCCCc-EEEEecCCCce-eEEecCCCccccCCCCEEEEECCCCccHHHHHHH
Confidence 99999999999999986 44655444332 22333332 247899999999999999999973
No 2
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=2.2e-45 Score=370.93 Aligned_cols=245 Identities=30% Similarity=0.473 Sum_probs=219.7
Q ss_pred cChHHHHHHHHHHHHhcCCCceeecCHHHHhhhc---cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCC
Q 016195 142 QTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGD 218 (393)
Q Consensus 142 ~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~---~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD 218 (393)
.+...++.++++|++.|+|||+.|++|++++.+. ++.+.|+|+.+..... + .+.|..+++++||++|||++||
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 3556789999999999999999999999988754 6789999999987532 3 4789999999999999999999
Q ss_pred EEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEeeccccCceeeeeeeecCCCceEEEEEeCccc
Q 016195 219 EVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN 298 (393)
Q Consensus 219 ~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~~~~~~~v~~~~~~l~~~~~~igYI~i~~F~ 298 (393)
.|++|||+++.+...+++...++|++|+.|+|++.|.+.++.++++++|+.+...++.+.......+++.||||+|++|.
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 99999999999998888999999999999999999987678899999999999888887644444445679999999999
Q ss_pred hhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEEEEeccCcccceeeecCCCCCCCCcEEEE
Q 016195 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVC 378 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~~~~r~~~~~~~~~~~~~~~~~~PlvVL 378 (393)
..+.++|+.++.+|++++++|+|||||+||||++++|+.++++|+++|. ++++++|++.....+...+...+++|++||
T Consensus 215 ~~~~~~~~~al~~L~~~~~~GlIlDLR~N~GG~L~~av~i~~~f~~~g~-iv~~~~r~g~~~~~~~~~~~~~~~~PlvvL 293 (406)
T COG0793 215 EGTYEDLEKALDELKKQGAKGLILDLRNNPGGLLSQAVKLAGLFLPSGP-IVSTRGRNGKVNVYFSASGEALYDGPLVVL 293 (406)
T ss_pred cchHHHHHHHHHHHHhcCCcEEEEEeCCCCCccHHHHHHHHHcccCCCc-EEEEecCCCceeeccccccccCCCCCEEEE
Confidence 9999999999999999999999999999999999999999999999985 779999999776666566666889999999
Q ss_pred EcCCCccccccee
Q 016195 379 APAFKMRQQLFFY 391 (393)
Q Consensus 379 VN~~TaSaAE~fa 391 (393)
||++|+||+|+|+
T Consensus 294 vn~~SASAsEI~a 306 (406)
T COG0793 294 VNEGSASASEIFA 306 (406)
T ss_pred ECCCCccHHHHHH
Confidence 9999999999997
No 3
>PRK11186 carboxy-terminal protease; Provisional
Probab=100.00 E-value=1.5e-43 Score=373.99 Aligned_cols=281 Identities=21% Similarity=0.341 Sum_probs=229.9
Q ss_pred ChHHHHHHHHH-HHHHhcCCCCCCCCChhhHHHHHH----HHhh---hc--ccChHHHHHHHHHHHHhcCCCceeecCHH
Q 016195 100 TNEGIVEEAWQ-IVNDSFLDTGRHRWTPQNWQRKRE----DILS---SS--IQTRSKAHGIIKRMLASLGDPYTRFLSPA 169 (393)
Q Consensus 100 ~~~~~f~~~W~-~v~~~y~d~~~~~~~~~dW~~v~~----~y~~---~~--i~t~~~~~~~i~~ml~~L~D~ht~~~~~~ 169 (393)
.+...+++.|+ .|++.|++. .|++.+|.++++ .|.. .. .+..+.++.+++.|+.+| ||||+|++|+
T Consensus 155 ~~~~el~~~W~k~vk~~~l~~---~~~g~~w~~i~~~l~krY~~~l~~~~~~~~~d~~~~~i~~m~~~l-DphT~Y~sp~ 230 (667)
T PRK11186 155 KDEAELNELWDQRVKYDALNL---KLTGKTWPEIKETLTKRYNFAIKRLTQTNSEDVFQLAMNAFAREI-DPHTSYLSPR 230 (667)
T ss_pred CCHHHHHHHHHHHHHHHHhhh---hhcCCCHHHHHHHHHHHHHHHHhhhccCCHHHHHHHHHHHHHhCC-CCCccccChH
Confidence 57788899999 799999987 478999999884 4422 11 122445888899999998 9999999999
Q ss_pred HHhhhc---cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhc-CCCCCCEEEEEC--CE---EcCCCCHHHHHHHh
Q 016195 170 EFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSA-GVRQGDEVLAVN--GV---DVRGKSAFEVSSLL 240 (393)
Q Consensus 170 e~~~~~---~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~A-GL~~GD~IlsVn--G~---~v~~~~~~~v~~~L 240 (393)
+++.+. .+.+.|||+.+...+ + .++|..|++||||+++ ||++||+|++|| |. ++.+|..+++..+|
T Consensus 231 e~e~f~~~~~~~~~GIGa~l~~~~---~--~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~vv~li 305 (667)
T PRK11186 231 NAEQFNTEMNLSLEGIGAVLQMDD---D--YTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALI 305 (667)
T ss_pred HHHHhhhccCCceeEEEEEEEEeC---C--eEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHHHHHh
Confidence 987543 567899999997642 3 4789999999999998 899999999999 43 55678888999999
Q ss_pred cCCCCCeEEEEEEeCC-CCceEEEEEEeeccccCc--eeeeeeeecCCCceEEEEEeCccchhHHHHHHHHHHHHHHCCC
Q 016195 241 QGPSETFVTIEVKHGN-CGPIESIQVQRQLVARTP--VFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGA 317 (393)
Q Consensus 241 ~g~~G~~V~Ltv~r~~-~~~~~~v~l~r~~~~~~~--v~~~~~~l~~~~~~igYI~i~~F~~~~~~~l~~al~~l~~~g~ 317 (393)
+|++|++|+|+|.|++ .++.++++++|+.+..+. +.+.+ ++.++++||||+|++|.....+++.+++.+|+++|+
T Consensus 306 rG~~Gt~V~LtV~r~~~~~~~~~vtl~R~~i~l~~~~~k~~v--~~~~~~kIGYI~I~sF~~~~~~d~~~~l~~l~~~~v 383 (667)
T PRK11186 306 KGPKGSKVRLEILPAGKGTKTRIVTLTRDKIRLEDRAVKMSV--KTVGGEKVGVLDIPGFYVGLTDDVKKQLQKLEKQNV 383 (667)
T ss_pred cCCCCCEEEEEEEeCCCCCceEEEEEEeeeecccccceEEEE--EecCCCcEEEEEecccccchHHHHHHHHHHHHHCCC
Confidence 9999999999999854 356789999998775543 33333 333467999999999999989999999999999999
Q ss_pred CeEEEEccCCCCCcHHHHHHHHhccccCCcEEEEEeccCcccceeeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 318 SYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 318 ~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~~~~r~~~~~~~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
++||||||+||||.+..|+.++++|+++|. +++...+++........++...|.+|++||||+.|+||||+|+.
T Consensus 384 ~gLIlDLR~NgGG~l~~a~~la~lFi~~g~-vv~~~~~~g~~~~~~~~~~~~~~~gPlvVLVN~~SASASEIfA~ 457 (667)
T PRK11186 384 SGIIIDLRGNGGGALTEAVSLSGLFIPSGP-VVQVRDNNGRVRVDSDTDGVVYYKGPLVVLVDRYSASASEIFAA 457 (667)
T ss_pred CEEEEEcCCCCCCcHHHHHHHHHHHhcCCc-eEEEecCCCceeccccCCcccccCCCEEEEeCCCCccHHHHHHH
Confidence 999999999999999999999999999985 45666666653222223445678999999999999999999974
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=3.9e-41 Score=333.64 Aligned_cols=248 Identities=29% Similarity=0.470 Sum_probs=213.4
Q ss_pred HhhhcccChHHHHHHHHHHHHhcCCCceeecCHHHHhhhc---cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhc
Q 016195 136 ILSSSIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMA---RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSA 212 (393)
Q Consensus 136 y~~~~i~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~---~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~A 212 (393)
|+.....+.++++.++++|+++|+|||++|++++++..+. ++.+.|+|+.+...+ + .++|..|.++|||++|
T Consensus 4 ~~~~~~~~~~~~~~~l~~m~~~l~D~h~~~~~~~~~~~~~~~~~~~~~~lG~~~~~~~---~--~~~V~~V~~~spA~~a 78 (334)
T TIGR00225 4 YVKRVLDETEEIYGAIKGMLASLNDPYTRYLSPETAKSFSETTSGSLEGIGIQVGMDD---G--EIVIVSPFEGSPAEKA 78 (334)
T ss_pred hhccccccHHHHHHHHHHHHHhCCCCCccccCHHHHHHHHHhccCceEEEEEEEEEEC---C--EEEEEEeCCCChHHHc
Confidence 3333344567899999999999999999999999877643 467889999997642 3 5889999999999999
Q ss_pred CCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEeeccccCceeeeeeeecCCCceEEEE
Q 016195 213 GVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYM 292 (393)
Q Consensus 213 GL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~~~~~~~v~~~~~~l~~~~~~igYI 292 (393)
||++||+|++|||+++..++..++...+++..|+.+.+++.|++.....++++.+..+..+++.+++ ++.++++||||
T Consensus 79 GL~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~R~g~~~~~~v~l~~~~~~~~~v~~~~--~~~~~~~igYi 156 (334)
T TIGR00225 79 GIKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAGKSKPLTFTLKRDRIELQTVKASV--KKVGGKSVGYI 156 (334)
T ss_pred CCCCCCEEEEECCEECCCCCHHHHHHhccCCCCCEEEEEEEeCCCCceEEEEEEEEEeeccceEEEE--EcCCCcEEEEE
Confidence 9999999999999999998777888888888999999999998866778888888888778887654 34456789999
Q ss_pred EeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEEEEeccCcccceeeecCCCCCCC
Q 016195 293 RLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNSPLVT 372 (393)
Q Consensus 293 ~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~~~~r~~~~~~~~~~~~~~~~~ 372 (393)
++.+|.....+++.++|++|+++++++||||||+|+||.+..+..++++|++++. ++++..|++... .+..++...++
T Consensus 157 ~i~~f~~~~~~~~~~~l~~l~~~~~~~lIiDLR~N~GG~~~~a~~~a~~f~~~~~-~~~~~~~~g~~~-~~~~~~~~~~~ 234 (334)
T TIGR00225 157 RISSFSEHTTEDVKKALDKLEKKNAKGYILDLRGNPGGLLQSAVDISRLFITKGP-IVQTKDRNGSKR-HYKANGRQPYN 234 (334)
T ss_pred EEEecccchHHHHHHHHHHHHhccCceEEEEcCCCCCCCHHHHHHHHHHhcCCCc-EEEEEcCCCcce-EEecCCCccCC
Confidence 9999999999999999999999999999999999999999999999999999885 668888877643 45555566889
Q ss_pred CcEEEEEcCCCcccccceec
Q 016195 373 APVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 373 ~PlvVLVN~~TaSaAE~fa~ 392 (393)
+|++||||+.|+||||+|+.
T Consensus 235 ~pv~vLvn~~TaSaaE~~a~ 254 (334)
T TIGR00225 235 LPLVVLVNRGSASASEIFAG 254 (334)
T ss_pred CCEEEEECCCCCcHHHHHHH
Confidence 99999999999999999974
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=99.92 E-value=2.1e-24 Score=202.05 Aligned_cols=161 Identities=29% Similarity=0.567 Sum_probs=137.3
Q ss_pred HHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhh--cccChHHHHHHHHHHHHhcCCCceeecCHHHHhhhccCceeee
Q 016195 105 VEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGI 182 (393)
Q Consensus 105 f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~--~i~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~~~~~~gl 182 (393)
|+++|+.++++|+++ .+.+|..++++|.+. ...+..+++.++++|+++|+|+|+.|++
T Consensus 1 ~~~~~~~~~~~y~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~D~hs~~~~--------------- 60 (224)
T cd06567 1 FDEAWRLLRENYYDP-----HGVDWDALRDRYVDLLDAVDDRELLAGALNGMLGELGDPHSRYLT--------------- 60 (224)
T ss_pred CHHHHHHHHHHhccc-----chhHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHhCCCCCceeEE---------------
Confidence 578999999999998 589999999999875 4678999999999999999999999885
Q ss_pred EEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEE
Q 016195 183 GINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIES 262 (393)
Q Consensus 183 Gi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~ 262 (393)
T Consensus 61 -------------------------------------------------------------------------------- 60 (224)
T cd06567 61 -------------------------------------------------------------------------------- 60 (224)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEEeeccccCceeeeeeeecCCCceEEEEEeCccc-hhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhc
Q 016195 263 IQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFN-ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKL 341 (393)
Q Consensus 263 v~l~r~~~~~~~v~~~~~~l~~~~~~igYI~i~~F~-~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~l 341 (393)
||||+|++|. ....+++.+++..+++ ++++||||||+|+||.+..+..++++
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 7999999998 6778889999999887 99999999999999999999999999
Q ss_pred cccCCcEEEEEeccCcccceeeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 342 FLNEGETITYTVGRDPQYQKTIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 342 fl~~g~~v~~~~~r~~~~~~~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
|++++..+.+...+...........+...+.+|++||||+.|+||||+|+.
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~taSaaE~~a~ 164 (224)
T cd06567 114 FLPKGKIVVTTRRRGGNETEYVAPGGGSLYDGPLVVLVNEGSASASEIFAG 164 (224)
T ss_pred hcCCCcEEEEEecCCCceeEEecCCCCcccCCCEEEEECCCCccHHHHHHH
Confidence 999987654444333221222233455678999999999999999999974
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=99.91 E-value=1.2e-24 Score=209.37 Aligned_cols=178 Identities=19% Similarity=0.266 Sum_probs=128.3
Q ss_pred hHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhhc--ccChHHHHHHHHHHHHhcCCCceeecCHHHHhhhccCc
Q 016195 101 NEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSS--IQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYD 178 (393)
Q Consensus 101 ~~~~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~~--i~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~~~~ 178 (393)
+.++|+++|++++++||+++ +++.||++++++|.+.. ++++.+++.+|++|+++|+|+|+++.+. .+
T Consensus 2 ~~~~fd~~w~~~~~~y~~~~---~~g~dW~~~~~~y~~~~~~~~~~~e~~~~l~~ml~~L~d~H~~~~~~-~~------- 70 (266)
T cd07562 2 WLQMFDEAWRLVRDNFYDPD---MHGVDWDAVRAEYRPLLPRAATRAELADVLNEMLGELNDSHTGVSGL-RY------- 70 (266)
T ss_pred HHHHHHHHHHHHHhhccCCC---CCCCCHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHcCCccchHHH-HH-------
Confidence 57899999999999999995 79999999999999853 6899999999999999999999987640 00
Q ss_pred eeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCC
Q 016195 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (393)
Q Consensus 179 ~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~ 258 (393)
.++.. . + .
T Consensus 71 -------------------------------------------------------~~~~~--~------------~-~-- 78 (266)
T cd07562 71 -------------------------------------------------------RDWVE--S------------N-R-- 78 (266)
T ss_pred -------------------------------------------------------HHHHH--H------------H-H--
Confidence 00000 0 0 0
Q ss_pred ceEEEEEEeeccccCceeeeeeeecCCCceEEEEEeCccchhHHHHHHHHHHHHHHC-CCCeEEEEccCCCCCcHHHHHH
Q 016195 259 PIESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIE 337 (393)
Q Consensus 259 ~~~~v~l~r~~~~~~~v~~~~~~l~~~~~~igYI~i~~F~~~~~~~l~~al~~l~~~-g~~~lIlDLR~N~GG~l~~a~~ 337 (393)
..+. ...+++||||+|++|.....++ +++++..+ .++++|||||+|+||.+. -.
T Consensus 79 --------------~~~~------~~~~~~igYi~i~~~~~~~~~~---~~~~~~~~~~~~glIiDlR~N~GG~~~--~~ 133 (266)
T cd07562 79 --------------EYVE------ELSDGRIGYVHIPDMGDDGFAE---FLRDLLAEVDKDGLIIDVRFNGGGNVA--DL 133 (266)
T ss_pred --------------HHHH------HhcCCcEEEEEeCCCChHHHHH---HHHHHHhcCCCceEEEEecCCCCCcHH--HH
Confidence 0000 0013689999999996654444 44444433 289999999999999954 34
Q ss_pred HHhccccCCcEEEEEeccC-cccceeeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 338 IAKLFLNEGETITYTVGRD-PQYQKTIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 338 ia~lfl~~g~~v~~~~~r~-~~~~~~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
+++.|.+. .+.+...|+ +... ..+...|++|++||||+.|+|+||+|+.
T Consensus 134 l~~~~~~~--~~~~~~~r~~~~~~----~~p~~~~~~pv~vL~~~~t~SaaE~~a~ 183 (266)
T cd07562 134 LLDFLSRR--RYGYDIPRGGGKPV----TYPSGRWRGPVVVLVNEGSASDAEIFAY 183 (266)
T ss_pred HHHHhCCC--ceEEEccCCCCCCC----CCcccccCCCEEEEECCCCCchHHHHHH
Confidence 57766654 355666776 3211 1122238999999999999999999974
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=99.87 E-value=1.5e-21 Score=186.03 Aligned_cols=163 Identities=21% Similarity=0.300 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhhc---ccChHHHHHHHHHHHHhcCCCceeecCHHHHhhhccCcee
Q 016195 104 IVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSS---IQTRSKAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMS 180 (393)
Q Consensus 104 ~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~~---i~t~~~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~~~~~~ 180 (393)
.|+.+|++++++|+++. +.+.+|.+++++|.+.. ..+..+++.+|.+||..|+|+|+.+..
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 37899999999999985 57899999999998754 368899999999999999999998663
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCce
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPI 260 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~ 260 (393)
T Consensus 65 -------------------------------------------------------------------------------- 64 (250)
T cd07563 65 -------------------------------------------------------------------------------- 64 (250)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEEEEeeccccCceeeeeeeecCCCceEEEEEeCccch----hHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHH
Q 016195 261 ESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNA----LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGI 336 (393)
Q Consensus 261 ~~v~l~r~~~~~~~v~~~~~~l~~~~~~igYI~i~~F~~----~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~ 336 (393)
||||+|++|.. ...+.+++++..++. .++||||||+|+||....+.
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 69999999986 356678888888865 49999999999999999999
Q ss_pred HHHhccccCCcEEE-E-EeccCcccce-----eeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 337 EIAKLFLNEGETIT-Y-TVGRDPQYQK-----TIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 337 ~ia~lfl~~g~~v~-~-~~~r~~~~~~-----~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
.++++|++++..+. + ...|.+.... .........+++|++||+|+.|+|+||+|+.
T Consensus 115 ~l~s~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pv~vL~~~~T~SaaE~~a~ 177 (250)
T cd07563 115 YLASYFTDEDKPVHLYTIYKRPGNTTTELWTLPVVPGGRYGYTKPVYVLTSPVTFSAAEEFAY 177 (250)
T ss_pred HHHHHcCCCCCcEEEEEEEECCCCCCcccceeeecCCCcccCCCCEEEEeCCCcCcHHHHHHH
Confidence 99999997544333 2 2333332111 1112234568999999999999999999974
No 8
>smart00245 TSPc tail specific protease. tail specific protease
Probab=99.84 E-value=3.4e-20 Score=170.09 Aligned_cols=129 Identities=27% Similarity=0.385 Sum_probs=103.7
Q ss_pred eEEEEEEeeccccCceeeeeeeecCCCceEEEEEeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHH
Q 016195 260 IESIQVQRQLVARTPVFYRLEHLDNGTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIA 339 (393)
Q Consensus 260 ~~~v~l~r~~~~~~~v~~~~~~l~~~~~~igYI~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia 339 (393)
..++.++|+.+..+++.+.+... ..++||||+|.+|...+.+++++++++|++++++++|||||+|+||.+..+..++
T Consensus 3 ~~~~~~~r~~~~~~~~~~~~~~~--~~~~igYi~i~~f~~~~~~~~~~~~~~l~~~~~~~lIiDLR~N~GG~~~~~~~~~ 80 (192)
T smart00245 3 ERTIALIRAKIKIETLEGNVGYL--RFGNIGYIRIPEFSEHTSNLVEKAWKKLEKTNVEGLILDLRNNPGGLLSAAIDVS 80 (192)
T ss_pred cEEEEEEEeEEEeeEEeEEEeec--CCCcEEEEEEeEEChhhHHHHHHHHHHHHhCCCcEEEEEecCCCCCCHHHHHHHH
Confidence 45667777777777776654322 2468999999999998889999999999999999999999999999999999999
Q ss_pred hccccCCcEEEEEeccC-cccceeeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 340 KLFLNEGETITYTVGRD-PQYQKTIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 340 ~lfl~~g~~v~~~~~r~-~~~~~~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
++|++++. +.++..+. +. ...+.......+.+|++||+|+.|+||||+|+.
T Consensus 81 ~~f~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~pv~vL~~~~TaSaaE~~a~ 132 (192)
T smart00245 81 SLFLDKGV-IVYTIYRRTGE-LETYPANLGRKYSKPLVVLVNEGTASASEIFAG 132 (192)
T ss_pred HHhcCCCc-EEEEEecCCCc-eEEEecCCCcccCCCEEEEECCCCeeHHHHHHH
Confidence 99999885 44555554 33 223334445677999999999999999999974
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=99.82 E-value=2.1e-19 Score=167.25 Aligned_cols=102 Identities=32% Similarity=0.530 Sum_probs=88.6
Q ss_pred EEEEEeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEEEEeccCcccceeeecCCC
Q 016195 289 VGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQYQKTIVADNS 368 (393)
Q Consensus 289 igYI~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~~~~r~~~~~~~~~~~~~ 368 (393)
||||++++|.....++|.++|+++++++++++|||||+|+||.+..+..++++|++++ .+++++.|++... .+.....
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 6999999999888899999999999999999999999999999999999999999966 4667777876532 2333444
Q ss_pred CCCCCcEEEEEcCCCcccccceec
Q 016195 369 PLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 369 ~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
..+.+|++||||+.|+|+||+|+.
T Consensus 128 ~~~~~pvvVLvn~~TaSaaE~~a~ 151 (211)
T cd07560 128 GLYDGPLVVLVNGGSASASEIVAG 151 (211)
T ss_pred ccCCCCEEEEeCCCcccHHHHHHH
Confidence 578999999999999999999975
No 10
>cd07561 Peptidase_S41_CPP_like C-terminal processing peptidase-like; serine protease family S41. Bacterial protease homologs of the S41 family related to C-terminal processing peptidase (CPP). CPP-1 is believed to be important for the degradation of incorrectly synthesized proteins as well as protection from thermal and osmotic stresses. CPP is synthesized with an extension on its carboxyl-terminus and specifically recognizes a C-terminal tripeptide, but cleaves at variable distance from the C-terminus. The CPP active site consists of a serine/lysine catalytic dyad. Conservation of these residues is seen in the CPP-like proteins of this group. CPP proteins contain a PDZ domain that promotes protein-protein interactions and is important for substrate recognition however, most of CPP-like proteins only have an internal fragment or lack the PDZ domain.
Probab=99.80 E-value=1.6e-19 Score=172.63 Aligned_cols=108 Identities=22% Similarity=0.280 Sum_probs=90.1
Q ss_pred CCceEEEEEeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhcccc---CCcEEEEEeccCcc---
Q 016195 285 GTTSVGYMRLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLN---EGETITYTVGRDPQ--- 358 (393)
Q Consensus 285 ~~~~igYI~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~---~g~~v~~~~~r~~~--- 358 (393)
.+++||||++++|...+.+++.+++++|+++++++||||||+|+||.+..|..++++|++ .|.++.++..|++.
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 367899999999999999999999999999999999999999999999999999999999 46677677666542
Q ss_pred -cceeeecC----CCCCCCCcEEEEEcCCCcccccceec
Q 016195 359 -YQKTIVAD----NSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 359 -~~~~~~~~----~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
....+... ......+||+||||+.|+||||+|+.
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~pv~VL~~~~TASAaE~~a~ 180 (256)
T cd07561 142 NEDLLFSSKTLAGGNSLNLSKVYVLTSGSTASASELVIN 180 (256)
T ss_pred CceeecccccccccCcCCcccEEEEECCCcccHHHHHHH
Confidence 11223222 23455789999999999999999974
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=99.62 E-value=1.3e-15 Score=135.66 Aligned_cols=104 Identities=20% Similarity=0.279 Sum_probs=75.9
Q ss_pred eEEEEEeCccch--hHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEEEEeccCccc----ce
Q 016195 288 SVGYMRLKEFNA--LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITYTVGRDPQY----QK 361 (393)
Q Consensus 288 ~igYI~i~~F~~--~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~~~~r~~~~----~~ 361 (393)
+||||+|++|.. ...+++.+.+++++++++++||||||+|+||....+..++.+|++++..+ +...+.+.. ..
T Consensus 1 ~i~yl~i~sf~~~~~~~~~~~~~~~~~~~~~~~~lIIDlR~N~GG~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~ 79 (169)
T PF03572_consen 1 NIGYLRIPSFSENKSFDEELDEFLDKLKSKDTDGLIIDLRGNGGGSDEYAIELLSYLIPKPIIF-YYRDRIGSNKKWVST 79 (169)
T ss_dssp EEEEEEES-BCCGHHHHHHHHHHHHHHHHTTSSEEEEE-TTB--BSHHHHHHHHHCHSSSSEEE-EEEEEEEEETTCCHE
T ss_pred CEEEEEeCcccCccccHHHHHHHHHHHHHCCCCEEEEEcccCCCcchHHHHHHHhcccCCCcEE-EEecccccccccccC
Confidence 589999999954 67889999999999899999999999999999999999999999976533 322221110 11
Q ss_pred eeecCCCCCCCCcEEEEEcCCCcccccceec
Q 016195 362 TIVADNSPLVTAPVIVCAPAFKMRQQLFFYI 392 (393)
Q Consensus 362 ~~~~~~~~~~~~PlvVLVN~~TaSaAE~fa~ 392 (393)
.........+++|++||+|+.|+|+||+|+.
T Consensus 80 ~~~~~~~~~~~~~v~vL~~~~t~Saae~fa~ 110 (169)
T PF03572_consen 80 IKWSTPKNRFNGPVYVLTDENTASAAEIFAS 110 (169)
T ss_dssp EEECSSTT-SSSEEEEEE-TTBBTHHHHHHH
T ss_pred CCCccccccCCCCEEEEeCCCCCChhHHHHH
Confidence 0011125678999999999999999999974
No 12
>PF14684 Tricorn_C1: Tricorn protease C1 domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=99.39 E-value=2.5e-13 Score=104.53 Aligned_cols=66 Identities=21% Similarity=0.420 Sum_probs=52.3
Q ss_pred cChHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhh--cccChHHHHHHHHHHHHhcCCCceeecC
Q 016195 99 KTNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSS--SIQTRSKAHGIIKRMLASLGDPYTRFLS 167 (393)
Q Consensus 99 ~~~~~~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~--~i~t~~~~~~~i~~ml~~L~D~ht~~~~ 167 (393)
++.+++|+++|++++++||++. +++.||++++++|.+. .++++.+++++|++|+++|+|+|+++.+
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 3678999999999999999994 8999999999999985 4679999999999999999999999864
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=99.32 E-value=1.4e-11 Score=97.46 Aligned_cols=78 Identities=29% Similarity=0.549 Sum_probs=61.9
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHh-cCCCCCeEEEEEEeCCCCc
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCGP 259 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L-~g~~G~~V~Ltv~r~~~~~ 259 (393)
+||+.+....+..| ++|..|.++|||+++||++||+|++|||+++.. ..++...+ +..+|++++|++.|++.
T Consensus 2 ~lGv~~~~~~~~~g---~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~--~~~~~~~l~~~~~g~~v~l~v~R~g~-- 74 (82)
T PF13180_consen 2 GLGVTVQNLSDTGG---VVVVSVIPGSPAAKAGLQPGDIILAINGKPVNS--SEDLVNILSKGKPGDTVTLTVLRDGE-- 74 (82)
T ss_dssp E-SEEEEECSCSSS---EEEEEESTTSHHHHTTS-TTEEEEEETTEESSS--HHHHHHHHHCSSTTSEEEEEEEETTE--
T ss_pred EECeEEEEccCCCe---EEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCC--HHHHHHHHHhCCCCCEEEEEEEECCE--
Confidence 57888876543224 889999999999999999999999999999977 46776666 78899999999999873
Q ss_pred eEEEEE
Q 016195 260 IESIQV 265 (393)
Q Consensus 260 ~~~v~l 265 (393)
..++++
T Consensus 75 ~~~~~v 80 (82)
T PF13180_consen 75 ELTVEV 80 (82)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 444444
No 14
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.20 E-value=3.5e-10 Score=89.39 Aligned_cols=83 Identities=31% Similarity=0.556 Sum_probs=68.7
Q ss_pred eeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCC
Q 016195 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (393)
Q Consensus 179 ~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~ 258 (393)
|.|+|+.+... .. .++|..+.++|||+++||++||+|++|||+++..++..++...++...|..+.+++.|++ +
T Consensus 1 ~~~lG~~~~~~--~~---~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~~-~ 74 (85)
T cd00988 1 FGGIGLELKYD--DG---GLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGD-G 74 (85)
T ss_pred CeEEEEEEEEc--CC---eEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcCC-C
Confidence 46899998653 22 488999999999999999999999999999999987778888888777889999999972 3
Q ss_pred ceEEEEEEe
Q 016195 259 PIESIQVQR 267 (393)
Q Consensus 259 ~~~~v~l~r 267 (393)
...++++++
T Consensus 75 ~~~~~~~~~ 83 (85)
T cd00988 75 EPREVTLTR 83 (85)
T ss_pred CEEEEEEEE
Confidence 566666654
No 15
>cd00136 PDZ PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. Heterodimerization through PDZ-PDZ domain interactions adds to the domain's versatility, and PDZ domain-mediated interactions may be modulated dynamically through target phosphorylation. Some PDZ domains play a role in scaffolding supramolecular complexes. PDZ domains are found in diverse signaling proteins in bacteria, archebacteria, and eurkayotes. This CD contains two distinct structural subgroups with either a N- or C-terminal beta-strand forming the peptide-binding groove base. The circular permutation placing the strand on the N-terminus appears to be found in Eumetazoa only, while the C-terminal variant is found in all three kingdoms of life, and seems to co-occur with protease domains. PDZ domains have been named after PSD95(pos
Probab=98.98 E-value=3e-09 Score=80.86 Aligned_cols=68 Identities=37% Similarity=0.567 Sum_probs=58.7
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEE
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv 252 (393)
++|+.+.... ++ .++|..|.++|||+++||++||+|++|||+++..++.+++..+++...|+.++|++
T Consensus 2 ~~G~~~~~~~--~~--~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 69 (70)
T cd00136 2 GLGFSIRGGT--EG--GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69 (70)
T ss_pred CccEEEecCC--CC--CEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEE
Confidence 5788876532 21 38999999999999999999999999999999999889999999988788888876
No 16
>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=98.93 E-value=4.8e-09 Score=82.40 Aligned_cols=74 Identities=35% Similarity=0.500 Sum_probs=61.5
Q ss_pred ceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 178 ~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
...++|+.+....+.. ...++|.++.++|||+++||++||+|++|||+++.+++..++..+++...+ .++|+|+
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 4467899988754321 125899999999999999999999999999999999999999999986554 8888764
No 17
>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=98.80 E-value=5.1e-08 Score=76.47 Aligned_cols=65 Identities=18% Similarity=0.308 Sum_probs=53.9
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCC-CCCeEEEEEEeCCCCceEEEEEE
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGP-SETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~-~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
++|..|.++|||+++||++||+|++|||+++..+ .++...+... .|+.+.+++.|++ +..+++++
T Consensus 12 v~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~--~d~~~~l~~~~~g~~v~l~v~r~g--~~~~~~~~ 77 (79)
T cd00991 12 VVIVGVIVGSPAENAVLHTGDVIYSINGTPITTL--EDFMEALKPTKPGEVITVTVLPST--TKLTNVST 77 (79)
T ss_pred EEEEEECCCChHHhcCCCCCCEEEEECCEEcCCH--HHHHHHHhcCCCCCEEEEEEEECC--EEEEEEEE
Confidence 7899999999999999999999999999999974 6777777653 5889999999976 34455443
No 18
>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=98.80 E-value=4.2e-08 Score=76.21 Aligned_cols=58 Identities=22% Similarity=0.384 Sum_probs=50.6
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.++|..+.++|||+++||++||+|++|||+++..+ .++...+....+..+.+++.|++
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 47899999999999999999999999999999974 67777776656788999999876
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=1.2e-07 Score=74.01 Aligned_cols=74 Identities=27% Similarity=0.335 Sum_probs=54.7
Q ss_pred eEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceE
Q 016195 182 IGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIE 261 (393)
Q Consensus 182 lGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~ 261 (393)
+|+.+... ++ .++|..|.++|||+++||++||+|++|||.++.. ..++...+ ..+..+.+++.|++ ...
T Consensus 3 ~G~~~~~~---~~--~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~--~~~~l~~~--~~~~~v~l~v~r~g--~~~ 71 (80)
T cd00990 3 LGLTLDKE---EG--LGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDA--LQDRLKEY--QAGDPVELTVFRDD--RLI 71 (80)
T ss_pred ccEEEEcc---CC--cEEEEEECCCChHHHhCCCCCCEEEEECCEEhHH--HHHHHHhc--CCCCEEEEEEEECC--EEE
Confidence 46666432 23 4889999999999999999999999999999987 33443333 36778999999976 344
Q ss_pred EEEEE
Q 016195 262 SIQVQ 266 (393)
Q Consensus 262 ~v~l~ 266 (393)
++.++
T Consensus 72 ~~~v~ 76 (80)
T cd00990 72 EVPLT 76 (80)
T ss_pred EEEEE
Confidence 44443
No 20
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.67 E-value=1.9e-07 Score=74.85 Aligned_cols=76 Identities=25% Similarity=0.382 Sum_probs=54.7
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCC--------ChhhhcC--CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEE
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILD--------GPAHSAG--VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTI 250 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~g--------sPA~~AG--L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~L 250 (393)
.||+.|... +| .+.|.+++++ ||..+.| ++.||.|++|||+++..- .++..+|.++.|+.|.|
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 LLGADFSYD---NG--GYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTAD--ANPYRLLEGKAGKQVLL 74 (88)
T ss_dssp B-SEEEEEE---TT--EEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTT--B-HHHHHHTTTTSEEEE
T ss_pred ccceEEEEc---CC--EEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCC--CCHHHHhcccCCCEEEE
Confidence 378888765 34 5889999986 7888888 679999999999999873 56888999999999999
Q ss_pred EEEeCCCCceEEEE
Q 016195 251 EVKHGNCGPIESIQ 264 (393)
Q Consensus 251 tv~r~~~~~~~~v~ 264 (393)
+|.+.+. ..+++.
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 9999775 455554
No 21
>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=98.67 E-value=1.9e-07 Score=72.99 Aligned_cols=74 Identities=34% Similarity=0.534 Sum_probs=58.2
Q ss_pred eeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 180 ~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.++|+.+........ .++|..|.++|||+++||++||+|++|||+++..+...+....++.. +..+.|++.|++
T Consensus 12 ~~~G~~~~~~~~~~~--~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~~ 85 (85)
T smart00228 12 GGLGFSLVGGKDEGG--GVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRGG 85 (85)
T ss_pred CcccEEEECCCCCCC--CEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeCC
Confidence 567888764321102 48999999999999999999999999999999998777777777654 558888888753
No 22
>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=98.66 E-value=1.2e-07 Score=73.94 Aligned_cols=71 Identities=38% Similarity=0.574 Sum_probs=55.6
Q ss_pred eeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEE
Q 016195 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEV 252 (393)
Q Consensus 179 ~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv 252 (393)
..++|+.+....+... .++|..+.++|||+++||++||+|++|||.++..++..++...++...+ .++|++
T Consensus 11 ~~~~G~~~~~~~~~~~--~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 11 GGGLGFSLRGGKDSGG--GIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCCcCEEEeCcccCCC--CeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 3567888764321111 3889999999999999999999999999999998888999988876444 666654
No 23
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.63 E-value=2.6e-07 Score=72.18 Aligned_cols=57 Identities=23% Similarity=0.351 Sum_probs=48.9
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCC
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~ 257 (393)
++|..|.++|||+. ||++||+|++|||.++..+ +++...+.. ..|..+.+++.|++.
T Consensus 10 v~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~--~~~~~~l~~~~~~~~v~l~v~r~g~ 67 (79)
T cd00986 10 VYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEA--EELIDYIQSKKEGDTVKLKVKREEK 67 (79)
T ss_pred EEEEEECCCCchhh-CCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCCEEEEEEEECCE
Confidence 78999999999986 8999999999999999874 567777764 578899999999873
No 24
>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=98.51 E-value=7.6e-07 Score=70.67 Aligned_cols=58 Identities=31% Similarity=0.405 Sum_probs=49.1
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCC-CCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGP-SETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~-~G~~V~Ltv~r~~ 256 (393)
.++|..|.++|||+++||++||+|++|||+++..+ .++.+.+... .+..+.+++.|++
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 47899999999999999999999999999999874 4566666543 4788999999876
No 25
>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=98.30 E-value=6.2e-06 Score=79.23 Aligned_cols=58 Identities=24% Similarity=0.249 Sum_probs=49.6
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~ 256 (393)
.+.|..+.+++||+++||++||+|++|||+++..+ +++.+.+.. ..++.++|+|.|++
T Consensus 192 G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~--~~~~~~l~~~~~~~~v~l~V~R~G 250 (259)
T TIGR01713 192 GYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP--EQAFQALQMLREETNLTLTVERDG 250 (259)
T ss_pred EEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCeEEEEEEECC
Confidence 47899999999999999999999999999999984 555555543 46789999999987
No 26
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.27 E-value=3.3e-06 Score=86.63 Aligned_cols=66 Identities=21% Similarity=0.329 Sum_probs=56.9
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEe
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQR 267 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r 267 (393)
++|.+|.++|||+++||++||+|++|||+++.+ .+++...++...++++.+++.|++ +..++++++
T Consensus 205 ~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s--~~dl~~~l~~~~~~~v~l~v~R~g--~~~~~~v~~ 270 (420)
T TIGR00054 205 PVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRS--WTDFVSAVKENPGKSMDIKVERNG--ETLSISLTP 270 (420)
T ss_pred cEEEEECCCCHHHHcCCCCCCEEEEECCEECCC--HHHHHHHHHhCCCCceEEEEEECC--EEEEEEEEE
Confidence 689999999999999999999999999999987 477888887778888999999987 455666654
No 27
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=98.24 E-value=7.1e-06 Score=71.13 Aligned_cols=98 Identities=26% Similarity=0.389 Sum_probs=70.4
Q ss_pred HHHHHHHHHHHhcCCCceeecCHHHHhhhccCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEEC
Q 016195 146 KAHGIIKRMLASLGDPYTRFLSPAEFSKMARYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVN 224 (393)
Q Consensus 146 ~~~~~i~~ml~~L~D~ht~~~~~~e~~~~~~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVn 224 (393)
.....+..+.+.-+..|-+... . .....|+||++.-.. ....+++|.+++||+-|++-| |++||.+++||
T Consensus 74 takatvaafaaseghahprvve---l----pktdeglgfnvmggk--eqnspiyisriipggvadrhgglkrgdqllsvn 144 (207)
T KOG3550|consen 74 TAKATVAAFAASEGHAHPRVVE---L----PKTDEGLGFNVMGGK--EQNSPIYISRIIPGGVADRHGGLKRGDQLLSVN 144 (207)
T ss_pred hhHHHHHHHHHhccCCCCceee---c----CccccccceeeccCc--ccCCceEEEeecCCccccccCcccccceeEeec
Confidence 3445566676776666766542 1 123368899885322 222379999999999999865 99999999999
Q ss_pred CEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 225 GVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 225 G~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
|.++.+..++....+|+...| .|.|.|+
T Consensus 145 gvsvege~hekavellkaa~g-svklvvr 172 (207)
T KOG3550|consen 145 GVSVEGEHHEKAVELLKAAVG-SVKLVVR 172 (207)
T ss_pred ceeecchhhHHHHHHHHHhcC-cEEEEEe
Confidence 999999888889999986554 4555554
No 28
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=98.23 E-value=5.1e-06 Score=85.43 Aligned_cols=66 Identities=23% Similarity=0.314 Sum_probs=53.7
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhc-CCCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~-g~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
.++|..|.++|||+++||++||+|++|||+++..+ .++...+. ...|+.+++++.|++ +..+++++
T Consensus 258 Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~--~~~~~~l~~~~~g~~v~l~v~R~g--~~~~~~v~ 324 (428)
T TIGR02037 258 GALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSF--ADLRRAIGTLKPGKKVTLGILRKG--KEKTITVT 324 (428)
T ss_pred ceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECC--EEEEEEEE
Confidence 37899999999999999999999999999999874 55655554 367889999999987 34444443
No 29
>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=98.19 E-value=8.2e-06 Score=71.04 Aligned_cols=70 Identities=14% Similarity=0.254 Sum_probs=53.7
Q ss_pred EEEEEEEcCCChhhhcCCCC-CCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEee
Q 016195 197 TLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQ 268 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~-GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~ 268 (393)
.+.|.+|.|+|||++|||++ .|.|+.+|+..+.+ .+++.+.++...++++.|.|.+......+++++++.
T Consensus 44 ~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~--~~~l~~~v~~~~~~~l~L~Vyns~~~~vR~V~i~P~ 114 (138)
T PF04495_consen 44 GWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDD--EDDLFELVEANENKPLQLYVYNSKTDSVREVTITPS 114 (138)
T ss_dssp EEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--S--TCHHHHHHHHTTTS-EEEEEEETTTTCEEEEEE---
T ss_pred eEEEeEecCCCHHHHCCccccccEEEEccceecCC--HHHHHHHHHHcCCCcEEEEEEECCCCeEEEEEEEcC
Confidence 48899999999999999998 69999999988886 467788888888999999999887777888888764
No 30
>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=98.19 E-value=4.8e-06 Score=83.48 Aligned_cols=66 Identities=24% Similarity=0.314 Sum_probs=54.2
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
.++|..|.++|||+++||++||+|++|||+++..+ .++.+.+.. +.|+++.+++.|++ +..++.++
T Consensus 279 Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~dl~~~l~~~~~g~~v~l~v~R~g--~~~~~~v~ 345 (351)
T TIGR02038 279 GIVITGVDPNGPAARAGILVRDVILKYDGKDVIGA--EELMDRIAETRPGSKVMVTVLRQG--KQLELPVT 345 (351)
T ss_pred cceEeecCCCChHHHCCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECC--EEEEEEEE
Confidence 37899999999999999999999999999999884 566666653 67889999999987 34444443
No 31
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.19 E-value=6.6e-06 Score=85.14 Aligned_cols=67 Identities=15% Similarity=0.242 Sum_probs=56.4
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEe
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQR 267 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r 267 (393)
+.+|..|.++|||++|||++||+|++|||+++..+ +++.+.++...|+.+.+++.|++ ...+++++.
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~--~dl~~~l~~~~~~~v~l~v~R~g--~~~~~~v~~ 288 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQW--QTFVTLVRDNPGKPLALEIERQG--SPLSLTLTP 288 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhCCCCEEEEEEEECC--EEEEEEEEe
Confidence 36899999999999999999999999999999874 67777777677889999999987 345555544
No 32
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.19 E-value=3.8e-06 Score=86.94 Aligned_cols=66 Identities=20% Similarity=0.119 Sum_probs=53.2
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHh-cCCCCCeEEEEEEeCCCCceEEEEE
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCGPIESIQV 265 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L-~g~~G~~V~Ltv~r~~~~~~~~v~l 265 (393)
..|..|.++|||++|||++||+|++|||+++..+ +++...+ ....|+++++++.|+++..+.++++
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~--~~l~~~v~~~~~g~~v~v~v~R~gk~~~~~v~l 194 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDW--DAVRLALVSKIGDESTTITVAPFGSDQRRDKTL 194 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhccCCceEEEEEeCCccceEEEEe
Confidence 4688999999999999999999999999999986 4554443 3456788999999988655555555
No 33
>PRK10139 serine endoprotease; Provisional
Probab=98.18 E-value=7.4e-06 Score=84.87 Aligned_cols=66 Identities=20% Similarity=0.233 Sum_probs=55.3
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
.++|..|.++|||+++||++||+|++|||+++..| .++...+.. ..|+++.+++.|++ +..+++++
T Consensus 291 Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l~V~R~G--~~~~l~v~ 357 (455)
T PRK10139 291 GAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSF--AELRSRIATTEPGTKVKLGLLRNG--KPLEVEVT 357 (455)
T ss_pred ceEEEEECCCChHHHCCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECC--EEEEEEEE
Confidence 37899999999999999999999999999999985 677766654 67889999999987 44555554
No 34
>PRK10898 serine endoprotease; Provisional
Probab=98.16 E-value=8.3e-06 Score=81.85 Aligned_cols=66 Identities=21% Similarity=0.309 Sum_probs=53.7
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
.++|..|.++|||+++||++||+|++|||+++..+ .++...+.. +.|+.+.|++.|++ +..++.++
T Consensus 280 Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~--~~l~~~l~~~~~g~~v~l~v~R~g--~~~~~~v~ 346 (353)
T PRK10898 280 GIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISA--LETMDQVAEIRPGSVIPVVVMRDD--KQLTLQVT 346 (353)
T ss_pred eEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhcCCCCEEEEEEEECC--EEEEEEEE
Confidence 48899999999999999999999999999999874 455555543 67889999999987 34445444
No 35
>PRK10942 serine endoprotease; Provisional
Probab=98.13 E-value=2.2e-05 Score=81.76 Aligned_cols=66 Identities=17% Similarity=0.256 Sum_probs=53.9
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhc-CCCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ-GPSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~-g~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
.++|..|.++|||++|||++||+|++|||+++..+ .++...+. ...|+.+.+++.|++ +.+++.++
T Consensus 312 GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~--~dl~~~l~~~~~g~~v~l~v~R~G--~~~~v~v~ 378 (473)
T PRK10942 312 GAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSF--AALRAQVGTMPVGSKLTLGLLRDG--KPVNVNVE 378 (473)
T ss_pred ceEEEEECCCChHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhcCCCCEEEEEEEECC--eEEEEEEE
Confidence 37899999999999999999999999999999984 56665553 356889999999987 34455444
No 36
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=98.11 E-value=2e-05 Score=80.91 Aligned_cols=144 Identities=16% Similarity=0.259 Sum_probs=97.2
Q ss_pred ChHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhhcccChHHHHHHHHHHHHhcCCCc-eeecCHHHHhhh-ccC
Q 016195 100 TNEGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSSIQTRSKAHGIIKRMLASLGDPY-TRFLSPAEFSKM-ARY 177 (393)
Q Consensus 100 ~~~~~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~~i~t~~~~~~~i~~ml~~L~D~h-t~~~~~~e~~~~-~~~ 177 (393)
.+.+.||.+++.+...+-... +++...+|..+.+.... .++...+++++..-.++- ..++.+-...-. ..-
T Consensus 376 ~~~~SLDdvmram~~~~~~~~-~~~t~e~v~av~~~~tg------~dl~~f~~~~i~~~~~~~l~~~l~~~gL~~~~~~~ 448 (558)
T COG3975 376 GGQKSLDDVMRALWKEFGRAE-RGYTPEDVQAVLENVTG------LDLATFFDEYIEGTEPPPLNPLLERFGLTFTPKPR 448 (558)
T ss_pred CCcccHHHHHHHHHHHhCcCc-cCCCHHHHHHHHHhhcc------ccHHHHHHHHhhcCCCCChhhhhhhcceEEEecCC
Confidence 557789999999988888754 47899999999988864 245666777776654432 222211100000 011
Q ss_pred ceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCC
Q 016195 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNC 257 (393)
Q Consensus 178 ~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~ 257 (393)
....+|+.+... +| ..+|+.|.++|||.+|||.+||.|++|||.+- ++.+-+.+..+.+.+.|.+
T Consensus 449 ~~~~LGl~v~~~---~g--~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~s~---------~l~~~~~~d~i~v~~~~~~- 513 (558)
T COG3975 449 EAYYLGLKVKSE---GG--HEKITFVFPGGPAYKAGLSPGDKIVAINGISD---------QLDRYKVNDKIQVHVFREG- 513 (558)
T ss_pred CCcccceEeccc---CC--eeEEEecCCCChhHhccCCCccEEEEEcCccc---------cccccccccceEEEEccCC-
Confidence 235688887653 34 57899999999999999999999999999821 1223467788999988876
Q ss_pred CceEEEEEE
Q 016195 258 GPIESIQVQ 266 (393)
Q Consensus 258 ~~~~~v~l~ 266 (393)
..+++.++
T Consensus 514 -~L~e~~v~ 521 (558)
T COG3975 514 -RLREFLVK 521 (558)
T ss_pred -ceEEeecc
Confidence 45555443
No 37
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.05 E-value=7.2e-06 Score=86.02 Aligned_cols=76 Identities=24% Similarity=0.361 Sum_probs=62.8
Q ss_pred CceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeC
Q 016195 177 YDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (393)
Q Consensus 177 ~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~ 255 (393)
++..|+||.+.......+ --|.+|++||||++.| |+.||.|++|||++|..+++.+++++|+ .+|-+|+|++..+
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 455788888754322222 2388999999999999 9999999999999999999999999998 6889999999875
Q ss_pred C
Q 016195 256 N 256 (393)
Q Consensus 256 ~ 256 (393)
+
T Consensus 838 e 838 (984)
T KOG3209|consen 838 E 838 (984)
T ss_pred h
Confidence 5
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=97.92 E-value=8.6e-05 Score=75.14 Aligned_cols=58 Identities=21% Similarity=0.477 Sum_probs=48.6
Q ss_pred CChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEe
Q 016195 206 DGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQR 267 (393)
Q Consensus 206 gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r 267 (393)
+|||++|||++||+|++|||+++..+ +++.+.++...++.+.++++|++ ...++++++
T Consensus 123 ~SPAa~AGLq~GDiIvsING~~V~s~--~DL~~iL~~~~g~~V~LtV~R~G--e~~tv~V~P 180 (402)
T TIGR02860 123 HSPGEEAGIQIGDRILKINGEKIKNM--DDLANLINKAGGEKLTLTIERGG--KIIETVIKP 180 (402)
T ss_pred CCHHHHcCCCCCCEEEEECCEECCCH--HHHHHHHHhCCCCeEEEEEEECC--EEEEEEEEE
Confidence 58999999999999999999999884 67778887667889999999987 455566653
No 39
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=97.90 E-value=4.2e-05 Score=78.67 Aligned_cols=58 Identities=26% Similarity=0.377 Sum_probs=51.3
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~ 256 (393)
.++|..|.++|||+++||++||+|++|||+++.. .+++.+.++. +.|+.+.|++.|++
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 GVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSS--VAELRKVLDRAKKGGRVALLILRGG 421 (428)
T ss_pred ceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCC--HHHHHHHHHhcCCCCEEEEEEEECC
Confidence 3889999999999999999999999999999987 4677777765 46889999999987
No 40
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=97.90 E-value=2.2e-05 Score=81.73 Aligned_cols=147 Identities=18% Similarity=0.381 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHhhhcccChHHHHHHHH--HHHHhcCCCceeecCHHHHhhh--ccC
Q 016195 102 EGIVEEAWQIVNDSFLDTGRHRWTPQNWQRKREDILSSSIQTRSKAHGIIK--RMLASLGDPYTRFLSPAEFSKM--ARY 177 (393)
Q Consensus 102 ~~~f~~~W~~v~~~y~d~~~~~~~~~dW~~v~~~y~~~~i~t~~~~~~~i~--~ml~~L~D~ht~~~~~~e~~~~--~~~ 177 (393)
.|.+.+++++..-.|+.++ +..+.++ +. .-+|.++++ +|+ +|.--.|-..+.-+.. -+.
T Consensus 592 AQSIGQAFqVAY~EFLrAN--GI~~e~l-------~~-----q~dYqevlNsQei~---gDeLe~FakkE~qKEVvv~K~ 654 (829)
T KOG3605|consen 592 AQSIGQAFQVAYMEFLRAN--GIEPEDL-------VS-----QMDYQEVLNSQEIF---GDELEHFAKKENQKEVVLEKH 654 (829)
T ss_pred HHHHHHHHHHHHHHHHHHc--CCCchHh-------hh-----hcchhhccchhhhh---ccHHHHhhhhcccceeeeecc
Confidence 4667888888888888775 2344333 10 012222222 222 2322222222221211 122
Q ss_pred ceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCC-CeEEEEEEeC
Q 016195 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSE-TFVTIEVKHG 255 (393)
Q Consensus 178 ~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G-~~V~Ltv~r~ 255 (393)
....||+.+.+..|++-...++|.+...++||++.| |..||.|++|||.++.++.+......|++.+. +.|.++|.+-
T Consensus 655 kGEiLGVViVESGWGSmLPTVViAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLstcQs~Ik~~KnQT~VkltiV~c 734 (829)
T KOG3605|consen 655 KGEILGVVIVESGWGSILPTVVIANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLSTCQSIIKGLKNQTAVKLNIVSC 734 (829)
T ss_pred cCceeeEEEEecCccccchHHHHHhcccCChhhhcCCccccceeEeecCceeccccHHHHHHHHhcccccceEEEEEecC
Confidence 335689998887776554456788889999999999 99999999999999999999998888987554 5688988875
Q ss_pred CCCceEEEEEEe
Q 016195 256 NCGPIESIQVQR 267 (393)
Q Consensus 256 ~~~~~~~v~l~r 267 (393)
. +..++.|.|
T Consensus 735 p--PV~~V~I~R 744 (829)
T KOG3605|consen 735 P--PVTTVLIRR 744 (829)
T ss_pred C--CceEEEeec
Confidence 4 567777765
No 41
>PRK10139 serine endoprotease; Provisional
Probab=97.87 E-value=5.4e-05 Score=78.48 Aligned_cols=57 Identities=23% Similarity=0.439 Sum_probs=49.9
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.++|..|.++|||+++||++||+|++|||+++..| +++.+.++... +.+.|++.|++
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 37899999999999999999999999999999884 67777776543 68899999987
No 42
>PRK10942 serine endoprotease; Provisional
Probab=97.83 E-value=8.7e-05 Score=77.34 Aligned_cols=57 Identities=19% Similarity=0.412 Sum_probs=50.1
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.++|..|.++|||+++||++||+|++|||+++.. .+++.+.+... +..+.|+|+|++
T Consensus 409 gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s--~~dl~~~l~~~-~~~v~l~V~R~g 465 (473)
T PRK10942 409 GVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKN--IAELRKILDSK-PSVLALNIQRGD 465 (473)
T ss_pred CeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCC--HHHHHHHHHhC-CCeEEEEEEECC
Confidence 3789999999999999999999999999999998 46777777653 478999999987
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=97.81 E-value=5.5e-05 Score=77.08 Aligned_cols=61 Identities=20% Similarity=0.361 Sum_probs=48.0
Q ss_pred EEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE-eCCCCceEEEEEEe
Q 016195 200 VLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK-HGNCGPIESIQVQR 267 (393)
Q Consensus 200 V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~-r~~~~~~~~v~l~r 267 (393)
|..|.++|||+++||++||+|++|||+++..| .++...+. +..+.+++. |++ +.+++++.+
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 45689999999999999999999999999885 56665663 356888886 444 556677764
No 44
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.67 E-value=0.00012 Score=77.02 Aligned_cols=76 Identities=29% Similarity=0.521 Sum_probs=62.5
Q ss_pred ceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeC
Q 016195 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHG 255 (393)
Q Consensus 178 ~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~ 255 (393)
...|+||++.-. ++.|. .++|..|++.+.|++-| |+.||+|+-|||.++.++++.+++.++.. ..+..|.|+|+|.
T Consensus 658 kesGFGFRiLGG-~ep~q-pi~iG~Iv~lGaAe~DGRL~~gDElv~iDG~pV~GksH~~vv~Lm~~AArnghV~LtVRRk 735 (984)
T KOG3209|consen 658 KESGFGFRILGG-DEPGQ-PIYIGAIVPLGAAEEDGRLREGDELVCIDGIPVEGKSHSEVVDLMEAAARNGHVNLTVRRK 735 (984)
T ss_pred eccccceEEecC-CCCCC-eeEEeeeeecccccccCcccCCCeEEEecCeeccCccHHHHHHHHHHHHhcCceEEEEeee
Confidence 457888888532 33443 68999999999999998 99999999999999999999999888853 3456799999884
No 45
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=97.63 E-value=5.7e-05 Score=61.15 Aligned_cols=45 Identities=27% Similarity=0.300 Sum_probs=40.2
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhc
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~ 241 (393)
.++|++|.+||||+.|||+.+|.|+.+||-+..-.+++.+.+.++
T Consensus 60 GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i~ 104 (124)
T KOG3553|consen 60 GIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRIT 104 (124)
T ss_pred cEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHhh
Confidence 389999999999999999999999999999888777777777775
No 46
>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=97.56 E-value=0.00014 Score=74.78 Aligned_cols=58 Identities=24% Similarity=0.246 Sum_probs=48.0
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCC
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCG 258 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~ 258 (393)
..|..|.++|||++|||++||+|++|||+++..+ .++.+.+.... .++.+++.|+++.
T Consensus 130 ~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~--~dl~~~ia~~~-~~v~~~I~r~g~~ 187 (420)
T TIGR00054 130 PVIELLDKNSIALEAGIEPGDEILSVNGNKIPGF--KDVRQQIADIA-GEPMVEILAEREN 187 (420)
T ss_pred ceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCH--HHHHHHHHhhc-ccceEEEEEecCc
Confidence 5689999999999999999999999999999884 56666665444 6788999887643
No 47
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=0.00046 Score=63.25 Aligned_cols=69 Identities=19% Similarity=0.285 Sum_probs=53.6
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCC-HHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEee
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKS-AFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQ 268 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~-~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~ 268 (393)
.+|..|.++|||++|||+.||.|+++....-.... ...+....+...+..+.++|.|.+ ....+.+++.
T Consensus 141 a~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~e~~~v~v~v~R~g--~~v~L~ltP~ 210 (231)
T KOG3129|consen 141 AVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREG--QKVVLSLTPK 210 (231)
T ss_pred EEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCC--CEEEEEeCcc
Confidence 67899999999999999999999999887654432 445555566678889999999987 3455666543
No 48
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=97.40 E-value=0.00021 Score=69.85 Aligned_cols=76 Identities=29% Similarity=0.432 Sum_probs=65.4
Q ss_pred cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEe
Q 016195 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (393)
Q Consensus 176 ~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r 254 (393)
+...+|+|+.+.-. ....++++|..++.+-.|+..| |-.||-|+.|||+-+....++++++.|+ .+|+.|+|+|..
T Consensus 62 RQ~vGGlGLSIKGG--aEHn~PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLR-NAGdeVtlTV~~ 138 (505)
T KOG3549|consen 62 RQKVGGLGLSIKGG--AEHNLPVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILR-NAGDEVTLTVKH 138 (505)
T ss_pred eeecCcceeeeccc--cccCccEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHH-hcCCEEEEEeHh
Confidence 44568999998632 2345679999999999999999 8999999999999999999999999998 689999999863
No 49
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=97.35 E-value=0.00016 Score=71.43 Aligned_cols=75 Identities=28% Similarity=0.412 Sum_probs=62.6
Q ss_pred cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 176 ~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
+.+.+|+|+.+.-.. +| +-++.|..+++|-.|++++ |..||.|++|||.++...++++.++.|+ +.|+.|.+.|+
T Consensus 92 K~d~gGLGISIKGGr-eN-kMPIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLK-raGkeV~levK 167 (506)
T KOG3551|consen 92 KQDAGGLGISIKGGR-EN-KMPILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALK-RAGKEVLLEVK 167 (506)
T ss_pred EecCCcceEEeecCc-cc-CCceehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHH-hhCceeeeeee
Confidence 346689999997432 23 3368899999999999998 9999999999999999999999999887 67888877664
No 50
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00084 Score=67.07 Aligned_cols=65 Identities=26% Similarity=0.409 Sum_probs=52.7
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHh-cCCCCCeEEEEEEeCCCCceEEEEEE
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLL-QGPSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L-~g~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
++|..+.+++||+++|+++||+|+++||+++... .++...+ ....|..+.+++.|++ +..++.++
T Consensus 272 ~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~--~~l~~~v~~~~~g~~v~~~~~r~g--~~~~~~v~ 337 (347)
T COG0265 272 AVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASL--SDLVAAVASNRPGDEVALKLLRGG--KERELAVT 337 (347)
T ss_pred eEEEecCCCChHHHcCCCCCCEEEEECCEEccCH--HHHHHHHhccCCCCEEEEEEEECC--EEEEEEEE
Confidence 7899999999999999999999999999999884 4444444 3457999999999986 44455443
No 51
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.08 E-value=0.0011 Score=68.98 Aligned_cols=69 Identities=33% Similarity=0.440 Sum_probs=54.9
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHH-hcCCCCCeEEEEEE
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSL-LQGPSETFVTIEVK 253 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~-L~g~~G~~V~Ltv~ 253 (393)
.+|+.+.-. + .+.++|..|..|+||++-||+.||.|+.||.+++.++.-++++.. |.-++|..|+|.-.
T Consensus 418 SvGLRLAGG---N-DVGIFVaGvqegspA~~eGlqEGDQIL~VN~vdF~nl~REeAVlfLL~lPkGEevtilaQ 487 (1027)
T KOG3580|consen 418 SVGLRLAGG---N-DVGIFVAGVQEGSPAEQEGLQEGDQILKVNTVDFRNLVREEAVLFLLELPKGEEVTILAQ 487 (1027)
T ss_pred eeeeEeccC---C-ceeEEEeecccCCchhhccccccceeEEeccccchhhhHHHHHHHHhcCCCCcEEeehhh
Confidence 467776432 2 246999999999999999999999999999999999876765544 45588999888644
No 52
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=96.85 E-value=0.0043 Score=59.99 Aligned_cols=52 Identities=17% Similarity=0.248 Sum_probs=38.8
Q ss_pred EcCCChh---hhcCCCCCCEEEEECCEEcCCCC-HHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 203 LILDGPA---HSAGVRQGDEVLAVNGVDVRGKS-AFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 203 V~~gsPA---~~AGL~~GD~IlsVnG~~v~~~~-~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
+.||..+ .++||++||++++|||.++.+.. ..++++.|+ ..+.++|+|.|+|
T Consensus 211 l~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~--~~tei~ltVeRdG 266 (276)
T PRK09681 211 VKPGADRSLFDASGFKEGDIAIALNQQDFTDPRAMIALMRQLP--SMDSIQLTVLRKG 266 (276)
T ss_pred ECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhc--cCCeEEEEEEECC
Confidence 3455433 47899999999999999998742 123445554 6689999999998
No 53
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=96.80 E-value=0.0025 Score=69.31 Aligned_cols=76 Identities=22% Similarity=0.422 Sum_probs=60.6
Q ss_pred eeeEEEEEEeeC-CCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 180 SGIGINLREVPD-ANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 180 ~glGi~~~~~~~-~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.|+|+.+..-.+ +..+..++|..|++|++|+.-| |+.||.+++|||.++.+++.+.+..++. ..|..|.|.|...+
T Consensus 943 nGmGLSIVAAkGaGq~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQErAA~lmt-rtg~vV~leVaKqg 1020 (1629)
T KOG1892|consen 943 NGMGLSIVAAKGAGQRKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQERAARLMT-RTGNVVHLEVAKQG 1020 (1629)
T ss_pred CCceEEEEeeccCCccccceEEEEeccCCccccccccccCceeeeecCcccccccHHHHHHHHh-ccCCeEEEehhhhh
Confidence 677777653322 2233468999999999999888 9999999999999999998877777775 57889999998654
No 54
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=96.75 E-value=0.0025 Score=61.43 Aligned_cols=56 Identities=36% Similarity=0.577 Sum_probs=47.9
Q ss_pred EEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
-++|..|+.++||++-| ++.||+|++|||.++.+..--++.++++-.. .+|.+.+.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~-~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSL-NEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhc-cceEEEeh
Confidence 47899999999999999 9999999999999999998788889987433 45666664
No 55
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=96.59 E-value=0.0025 Score=69.20 Aligned_cols=57 Identities=28% Similarity=0.379 Sum_probs=49.8
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~ 255 (393)
.++|..|-+|+|+. ..|++||.|++|||+++.....+-+..++| .....|.|+|.++
T Consensus 76 PviVr~VT~GGps~-GKL~PGDQIl~vN~Epv~daprervIdlvR-ace~sv~ltV~qP 132 (1298)
T KOG3552|consen 76 PVIVRFVTEGGPSI-GKLQPGDQILAVNGEPVKDAPRERVIDLVR-ACESSVNLTVCQP 132 (1298)
T ss_pred ceEEEEecCCCCcc-ccccCCCeEEEecCcccccccHHHHHHHHH-HHhhhcceEEecc
Confidence 58899999999985 339999999999999999998888999998 4557899999885
No 56
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=96.46 E-value=0.0047 Score=64.36 Aligned_cols=77 Identities=26% Similarity=0.367 Sum_probs=57.3
Q ss_pred ceeeeEEEEEEeeC----CCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 178 DMSGIGINLREVPD----ANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 178 ~~~glGi~~~~~~~----~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
.--|+|+.+.-..+ ++|...++|..|++|+||+- -|+.||.|+-|||.++.+..+.=+++.|+ +.|+...|+|+
T Consensus 18 p~rGFGIAiSGGRDnPhf~~getSiViSDVlpGGPAeG-~LQenDrvvMVNGvsMenv~haFAvQqLr-ksgK~A~Itvk 95 (1027)
T KOG3580|consen 18 PKRGFGIAISGGRDNPHFENGETSIVISDVLPGGPAEG-LLQENDRVVMVNGVSMENVLHAFAVQQLR-KSGKVAAITVK 95 (1027)
T ss_pred CCCcceeEeecCCCCCCccCCceeEEEeeccCCCCccc-ccccCCeEEEEcCcchhhhHHHHHHHHHH-hhccceeEEec
Confidence 34567776653211 23444689999999999872 29999999999999998876555566666 67888899999
Q ss_pred eCC
Q 016195 254 HGN 256 (393)
Q Consensus 254 r~~ 256 (393)
|+.
T Consensus 96 Rpr 98 (1027)
T KOG3580|consen 96 RPR 98 (1027)
T ss_pred ccc
Confidence 864
No 57
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=96.43 E-value=0.023 Score=55.48 Aligned_cols=77 Identities=22% Similarity=0.354 Sum_probs=56.1
Q ss_pred eeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEe-CC
Q 016195 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKH-GN 256 (393)
Q Consensus 179 ~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r-~~ 256 (393)
+.+..+.+... | +++..+..++|+.. -|+.||.|++|||+++.. .+++...++. +.|++|+|+++| ++
T Consensus 120 ~a~~pv~~~y~----g---vyv~~v~~~~~~~g-kl~~gD~i~avdg~~f~s--~~e~i~~v~~~k~Gd~VtI~~~r~~~ 189 (342)
T COG3480 120 YAGKPVEVTYA----G---VYVLSVIDNSPFKG-KLEAGDTIIAVDGEPFTS--SDELIDYVSSKKPGDEVTIDYERHNE 189 (342)
T ss_pred HcCCceEEEEe----e---EEEEEccCCcchhc-eeccCCeEEeeCCeecCC--HHHHHHHHhccCCCCeEEEEEEeccC
Confidence 45556666542 3 78889999998752 399999999999999987 5677777654 689999999997 44
Q ss_pred CCceEEEEE
Q 016195 257 CGPIESIQV 265 (393)
Q Consensus 257 ~~~~~~v~l 265 (393)
.....++++
T Consensus 190 ~~~~~~~tl 198 (342)
T COG3480 190 TPEIVTITL 198 (342)
T ss_pred CCceEEEEE
Confidence 333334444
No 58
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=96.35 E-value=0.0051 Score=64.92 Aligned_cols=56 Identities=29% Similarity=0.442 Sum_probs=49.1
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEe
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r 254 (393)
.++|..|.||+.|+++||++||.|+.|||+....++...+..+|++. +..+|+++.
T Consensus 563 gifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis~~KA~eiLrnn--thLtltvKt 618 (1283)
T KOG3542|consen 563 GIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENISAKKAEEILRNN--THLTLTVKT 618 (1283)
T ss_pred eeEEeeecCCchHHHhhhhhhhhhhhccccchhhhhHHHHHHHhcCC--ceEEEEEec
Confidence 58999999999999999999999999999999998888888889754 566677654
No 59
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=96.15 E-value=0.018 Score=61.10 Aligned_cols=65 Identities=22% Similarity=0.309 Sum_probs=53.0
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEE
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
-++|..|+++|||++. |++||++++||+.-+.. ..++-+.|....|+.+.|++.|++. ..+++++
T Consensus 304 mLvV~~vL~~gpa~k~-Le~GDillavN~t~l~d--f~~l~~iLDegvgk~l~LtI~Rggq--elel~vt 368 (955)
T KOG1421|consen 304 MLVVETVLPEGPAEKK-LEPGDILLAVNSTCLND--FEALEQILDEGVGKNLELTIQRGGQ--ELELTVT 368 (955)
T ss_pred eEEEEEeccCCchhhc-cCCCcEEEEEcceehHH--HHHHHHHHhhccCceEEEEEEeCCE--EEEEEEE
Confidence 4788899999999976 99999999999888876 4566677766689999999999984 4455443
No 60
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=96.03 E-value=0.021 Score=60.48 Aligned_cols=67 Identities=24% Similarity=0.341 Sum_probs=51.6
Q ss_pred eeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEE
Q 016195 179 MSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIE 251 (393)
Q Consensus 179 ~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Lt 251 (393)
...||+.|.. +|...+.|-.|.+++||.++.+++||++++|||.|+.. .+++...++...|+-..|.
T Consensus 385 s~~ig~vf~~----~~~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s--~~q~~~~~~s~~~~~~~l~ 451 (1051)
T KOG3532|consen 385 SSPIGLVFDK----NTNRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRS--ERQATRFLQSTTGDLTVLV 451 (1051)
T ss_pred cCceeEEEec----CCceEEEEEEecCCChhhHhcCCCcceEEEecCccchh--HHHHHHHHHhcccceEEEE
Confidence 3568999865 34445778999999999999999999999999999987 4666666765555544343
No 61
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=95.71 E-value=0.019 Score=59.47 Aligned_cols=71 Identities=28% Similarity=0.449 Sum_probs=58.9
Q ss_pred eeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeC
Q 016195 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHG 255 (393)
Q Consensus 180 ~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~ 255 (393)
..+|++++... ++ .++|.++..|+-+++.| |+.||+|+.|||+++.+....++..+++... ..+++.+...
T Consensus 134 eplG~Tik~~e--~~--~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~-G~itfkiiP~ 205 (542)
T KOG0609|consen 134 EPLGATIRVEE--DT--KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR-GSITFKIIPS 205 (542)
T ss_pred CccceEEEecc--CC--ccEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC-CcEEEEEccc
Confidence 45788887643 22 58999999999999999 8999999999999999999999999998766 5667776543
No 62
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=95.50 E-value=0.066 Score=50.36 Aligned_cols=50 Identities=20% Similarity=0.254 Sum_probs=37.3
Q ss_pred CChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCC
Q 016195 206 DGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNC 257 (393)
Q Consensus 206 gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~ 257 (393)
++.-.+.|||+||+.++||+.++++ .+++..+++- ..-+.+.+||+|.|.
T Consensus 217 ~slF~~sglq~GDIavaiNnldltd--p~~m~~llq~l~~m~s~qlTv~R~G~ 267 (275)
T COG3031 217 GSLFYKSGLQRGDIAVAINNLDLTD--PEDMFRLLQMLRNMPSLQLTVIRRGK 267 (275)
T ss_pred cchhhhhcCCCcceEEEecCcccCC--HHHHHHHHHhhhcCcceEEEEEecCc
Confidence 3455678999999999999999987 4554444432 244678999999884
No 63
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=95.36 E-value=0.03 Score=53.39 Aligned_cols=59 Identities=34% Similarity=0.487 Sum_probs=50.2
Q ss_pred EEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCC
Q 016195 197 TLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGN 256 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~ 256 (393)
.++|.+.++|+-|+..| |...|+++.|||+++.+++++++..++-.. -....+||+..+
T Consensus 195 GIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvAN-shNLIiTVkPAN 254 (358)
T KOG3606|consen 195 GIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVAN-SHNLIITVKPAN 254 (358)
T ss_pred ceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhc-ccceEEEecccc
Confidence 48999999999999999 799999999999999999999998887533 345677777654
No 64
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=95.05 E-value=0.041 Score=56.58 Aligned_cols=72 Identities=21% Similarity=0.326 Sum_probs=53.6
Q ss_pred eEEEEEE--eeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCC--CCCeEEEEEEeC
Q 016195 182 IGINLRE--VPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGP--SETFVTIEVKHG 255 (393)
Q Consensus 182 lGi~~~~--~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~--~G~~V~Ltv~r~ 255 (393)
||+.+.- ...++| .++|..+.+++.-+.-| |.+||.|+.||.+.+..++.++++..|+.. .-.+++|+|...
T Consensus 263 LGiSivgqsn~rgDg--gIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvAk~ 339 (626)
T KOG3571|consen 263 LGISIVGQSNARGDG--GIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVAKC 339 (626)
T ss_pred ceeEeecccCcCCCC--ceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEeec
Confidence 4554432 223445 58999999999877777 999999999999999999988888887642 223477877653
No 65
>cd07021 Clp_protease_NfeD_like Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease. Nodulation formation efficiency D (NfeD; stomatin operon partner protein, STOPP; DUF107) is a member of membrane-anchored ClpP-class proteases. Currently, more than 300 NfeD homologs have been identified - all of which are bacterial or archaeal in origin. Majority of these genomes have been shown to possess operons containing a homologous NfeD/stomatin gene pair, causing NfeD to be previously named STOPP (stomatin operon partner protein). NfeD homologs can be divided into two groups: long and short forms. Long-form homologs have a putative ClpP-class serine protease domain while the short form homologs do not. Downstream from the ClpP-class domain is the so-called NfeD or DUF107 domain. N-terminal region of the NfeD homolog PH1510 (1510-N or PH1510-N) from Pyrococcus horikoshii has been shown to possess serine protease activity and has a Ser-Lys catalytic dyad, preferentiall
Probab=94.90 E-value=0.067 Score=48.58 Aligned_cols=49 Identities=31% Similarity=0.405 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEE
Q 016195 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETI 349 (393)
Q Consensus 300 ~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v 349 (393)
...+.+.++|++..+++++.+||++ +.|||.+..+..+...+.....++
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~ivl~i-nspGG~v~~~~~I~~~l~~~~~pv 61 (178)
T cd07021 13 GLAAFVERALKEAKEEGADAVVLDI-DTPGGRVDSALEIVDLILNSPIPT 61 (178)
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEE-ECcCCCHHHHHHHHHHHHhCCCCE
Confidence 4566788899998888899999999 799999999999999887654333
No 66
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=94.47 E-value=0.048 Score=60.96 Aligned_cols=55 Identities=35% Similarity=0.362 Sum_probs=47.3
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEE
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVK 253 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~ 253 (393)
-.|..|.++|||..||+++||.|+.|||+++.++.+.++.++|. +.|..+.+++.
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll-~~gn~v~~~tt 714 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLL-KSGNKVTLRTT 714 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHH-hcCCeeEEEee
Confidence 35788999999999999999999999999999999999999986 45566666554
No 67
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=94.45 E-value=0.14 Score=53.15 Aligned_cols=65 Identities=20% Similarity=0.281 Sum_probs=49.7
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCC-CCeEEEEEEeCCCCceEEEEEE
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPS-ETFVTIEVKHGNCGPIESIQVQ 266 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~-G~~V~Ltv~r~~~~~~~~v~l~ 266 (393)
+.|..|++|+++...++++||+|++|||+++.+ ..++..+++... +++|.+..+|.. +..++.+.
T Consensus 400 v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n--~~~l~~~i~~~~~~~~v~vl~~~~~--e~~tl~Il 465 (473)
T KOG1320|consen 400 VLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKN--LKHLYELIEECSTEDKVAVLDRRSA--EDATLEIL 465 (473)
T ss_pred EEEEEeccCCCcccccccCCCEEEEECCEEeec--hHHHHHHHHhcCcCceEEEEEecCc--cceeEEec
Confidence 567899999999999999999999999999998 467888886432 356666666655 34444443
No 68
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.24 E-value=0.24 Score=50.22 Aligned_cols=69 Identities=16% Similarity=0.245 Sum_probs=56.4
Q ss_pred EEEEEEcCCChhhhcCCC-CCCEEEEE-CCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEeec
Q 016195 198 LKVLGLILDGPAHSAGVR-QGDEVLAV-NGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQL 269 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~-~GD~IlsV-nG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~~ 269 (393)
+-|.+|.++|||++|||+ -+|.|+-+ |++.-. .+++..+|..+.++.+.+-|..-+....+++++++..
T Consensus 111 wHvl~V~p~SPaalAgl~~~~DYivG~~~~~~~~---~eDl~~lIeshe~kpLklyVYN~D~d~~ReVti~pn~ 181 (462)
T KOG3834|consen 111 WHVLSVEPNSPAALAGLRPYTDYIVGIWDAVMHE---EEDLFTLIESHEGKPLKLYVYNHDTDSCREVTITPNS 181 (462)
T ss_pred eeeeecCCCCHHHhcccccccceEecchhhhccc---hHHHHHHHHhccCCCcceeEeecCCCccceEEeeccc
Confidence 668899999999999988 88999988 544332 4788899998999999999988776678888888543
No 69
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=91.72 E-value=0.13 Score=54.45 Aligned_cols=56 Identities=27% Similarity=0.495 Sum_probs=46.8
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCC
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSE 245 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G 245 (393)
-|||.+. +| +|-.++.|+=|++-|+|.|-+|+.|||++|....++.++++|....|
T Consensus 750 QLGFSVQ-----NG----iICSLlRGGIAERGGVRVGHRIIEINgQSVVA~pHekIV~lLs~aVG 805 (829)
T KOG3605|consen 750 QLGFSVQ-----NG----IICSLLRGGIAERGGVRVGHRIIEINGQSVVATPHEKIVQLLSNAVG 805 (829)
T ss_pred hccceee-----Cc----EeehhhcccchhccCceeeeeEEEECCceEEeccHHHHHHHHHHhhh
Confidence 4566653 35 57788899999999999999999999999999889999999975444
No 70
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.35 E-value=0.57 Score=47.64 Aligned_cols=70 Identities=24% Similarity=0.396 Sum_probs=54.2
Q ss_pred EEEEEEEcCCChhhhcCCCC-CCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEeCCCCceEEEEEEee
Q 016195 197 TLKVLGLILDGPAHSAGVRQ-GDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKHGNCGPIESIQVQRQ 268 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~-GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r~~~~~~~~v~l~r~ 268 (393)
.+.|.+|.++|||.+|||.+ -|-|++|||..++.. .+.+..+++....+ |++++........+.+.|++.
T Consensus 16 g~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~d-nd~Lk~llk~~sek-Vkltv~n~kt~~~R~v~I~ps 86 (462)
T KOG3834|consen 16 GYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKD-NDTLKALLKANSEK-VKLTVYNSKTQEVRIVEIVPS 86 (462)
T ss_pred eEEEEEeecCChHHhcCcchhhhhhheeCcccccCc-hHHHHHHHHhcccc-eEEEEEecccceeEEEEeccc
Confidence 36789999999999999755 688999999999875 34555666654444 999998877666777777654
No 71
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=90.80 E-value=0.42 Score=45.68 Aligned_cols=73 Identities=19% Similarity=0.374 Sum_probs=56.4
Q ss_pred eeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCC
Q 016195 180 SGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGN 256 (393)
Q Consensus 180 ~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~ 256 (393)
-.+|+++.- .+-| ..+|..+-+||--++-- +..||.|-+|||+.+-++.+.++..+|+. +.|.+.+|.+..+.
T Consensus 137 dalGlTITD--NG~G--yAFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYeVArmLKel~rge~ftlrLiePk 211 (334)
T KOG3938|consen 137 DALGLTITD--NGAG--YAFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYEVARMLKELPRGETFTLRLIEPK 211 (334)
T ss_pred cccceEEee--CCcc--eeeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHHHHHHHHhcccCCeeEEEeeccc
Confidence 347787753 2335 47899999999777654 89999999999999999999999988864 56677777766543
No 72
>PF12812 PDZ_1: PDZ-like domain
Probab=90.52 E-value=0.56 Score=36.72 Aligned_cols=41 Identities=15% Similarity=0.178 Sum_probs=32.1
Q ss_pred EEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhc
Q 016195 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (393)
Q Consensus 199 ~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~ 241 (393)
++...-.|+++..-|+.+|.+|.+|||+++.. ++++.+.++
T Consensus 33 v~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~--Ld~f~~vvk 73 (78)
T PF12812_consen 33 VYVAVSGGSLAFAGGISKGFIITSVNGKPTPD--LDDFIKVVK 73 (78)
T ss_pred EEEEecCCChhhhCCCCCCeEEEeECCcCCcC--HHHHHHHHH
Confidence 44555667888777799999999999999988 466666554
No 73
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=90.12 E-value=0.47 Score=50.33 Aligned_cols=62 Identities=26% Similarity=0.311 Sum_probs=50.9
Q ss_pred CceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcC
Q 016195 177 YDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQG 242 (393)
Q Consensus 177 ~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g 242 (393)
....|+|+.+...- +| .-+|+.+.++|||+..+ |..||+++.||++.+.+|...-+++.++.
T Consensus 210 kp~eglg~~I~Ssy--dg--~h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwqlk~vV~sL~~ 272 (638)
T KOG1738|consen 210 SPSEGLGLYIDSSY--DG--PHVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQLKVVVSSLRE 272 (638)
T ss_pred CcccCCceEEeeec--CC--ceeccccccCChHHHhhcccCccceeeecccccccchhHhHHhhccc
Confidence 34577899887654 35 46789999999999877 99999999999999999988877777763
No 74
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=89.59 E-value=0.98 Score=45.28 Aligned_cols=54 Identities=31% Similarity=0.353 Sum_probs=43.1
Q ss_pred EEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCe---EEEEEEe
Q 016195 199 KVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETF---VTIEVKH 254 (393)
Q Consensus 199 ~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~---V~Ltv~r 254 (393)
.+..+..+++|..+|++.||.|+++|+.++..+ +++...+....+.. +.+.+.|
T Consensus 132 ~~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~i~~~~ 188 (375)
T COG0750 132 VVGEVAPKSAAALAGLRPGDRIVAVDGEKVASW--DDVRRLLVAAAGDVFNLLTILVIR 188 (375)
T ss_pred eeeecCCCCHHHHcCCCCCCEEEeECCEEccCH--HHHHHHHHhccCCcccceEEEEEe
Confidence 344688899999999999999999999999985 45555555455555 7888888
No 75
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=83.81 E-value=3.9 Score=42.11 Aligned_cols=70 Identities=20% Similarity=0.308 Sum_probs=56.6
Q ss_pred CceEEEEEeCcc-chhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEE-EEeccC
Q 016195 286 TTSVGYMRLKEF-NALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETIT-YTVGRD 356 (393)
Q Consensus 286 ~~~igYI~i~~F-~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~-~~~~r~ 356 (393)
.+++.++.+..- ...+++.+.++++..++.+++.+||++- -|||.++.+.++.+.|.....++. |...+.
T Consensus 25 ~~~v~vi~i~g~I~~~s~~~l~r~l~~A~~~~a~~vvl~ld-TPGGl~~sm~~iv~~i~~s~vPV~~yv~p~g 96 (436)
T COG1030 25 EKKVYVIEIDGAIDPASADYLQRALQSAEEENAAAVVLELD-TPGGLLDSMRQIVRAILNSPVPVIGYVVPDG 96 (436)
T ss_pred CCeEEEEEecCccCHHHHHHHHHHHHHHHhCCCcEEEEEec-CCCchHHHHHHHHHHHHcCCCCEEEEEcCCC
Confidence 356777777643 4567889999999999999999999994 899999999999999999877644 555443
No 76
>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=79.43 E-value=6.2 Score=35.79 Aligned_cols=50 Identities=26% Similarity=0.407 Sum_probs=38.4
Q ss_pred hHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEE
Q 016195 300 LARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETIT 350 (393)
Q Consensus 300 ~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~ 350 (393)
.....+.++|+.+.+.+.++++|++ +.|||.+..+.++...+....++++
T Consensus 13 ~~~~~l~~~l~~a~~~~~~~vvl~I-nSpGG~v~~~~~i~~~l~~~~kPvi 62 (187)
T cd07020 13 ATADYLERAIDQAEEGGADALIIEL-DTPGGLLDSTREIVQAILASPVPVV 62 (187)
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEEE-ECCCCCHHHHHHHHHHHHhCCCCEE
Confidence 4567888999988887889988866 5889999999998876665444443
No 77
>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=78.68 E-value=4.2 Score=35.63 Aligned_cols=49 Identities=16% Similarity=0.353 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHHHHHCC-CCeEEEEccCCCCCcHHHHHHHHhccccCCcEE
Q 016195 300 LARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNEGETI 349 (393)
Q Consensus 300 ~~~~~l~~al~~l~~~g-~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v 349 (393)
...+++.+.|+++...+ +++++|++. .+||.+..+.++.+.+..-.+++
T Consensus 11 ~~~~~l~~~l~~a~~d~~~~~ivl~~~-s~Gg~~~~~~~i~~~l~~~~kpv 60 (161)
T cd00394 11 VSADQLAAQIRFAEADNSVKAIVLEVN-TPGGRVDAGMNIVDALQASRKPV 60 (161)
T ss_pred chHHHHHHHHHHHHhCCCCceEEEEEE-CCCcCHHHHHHHHHHHHHhCCCE
Confidence 45678888998887654 899999995 67888888888877765433333
No 78
>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=75.10 E-value=5.5 Score=36.34 Aligned_cols=39 Identities=28% Similarity=0.385 Sum_probs=31.7
Q ss_pred eeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEEC
Q 016195 181 GIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVN 224 (393)
Q Consensus 181 glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVn 224 (393)
..|+.+... +| ++.|..|..||||+++|+.-|++|++|-
T Consensus 112 ~~GL~l~~e---~~--~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 112 AAGLTLMEE---GG--KVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred hCCCEEEee---CC--EEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 347776653 34 5899999999999999999999998774
No 79
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=66.97 E-value=6.8 Score=39.75 Aligned_cols=42 Identities=19% Similarity=0.268 Sum_probs=30.8
Q ss_pred EEEEEEcCCChhhh-cCCCCCCEEEEECCEEcCCCCHHHHHHHhc
Q 016195 198 LKVLGLILDGPAHS-AGVRQGDEVLAVNGVDVRGKSAFEVSSLLQ 241 (393)
Q Consensus 198 l~V~~V~~gsPA~~-AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~ 241 (393)
+.|++|-..||+.- -||.+||.|+++||-+++. .+++.+.++
T Consensus 222 V~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~--v~dW~ecl~ 264 (484)
T KOG2921|consen 222 VTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHK--VSDWLECLA 264 (484)
T ss_pred EEEEeccccCCCcCcccCCccceEEecCCcccCC--HHHHHHHHH
Confidence 56666666777642 3899999999999999987 355555443
No 80
>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=64.77 E-value=21 Score=32.23 Aligned_cols=51 Identities=14% Similarity=0.156 Sum_probs=40.1
Q ss_pred hhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEE
Q 016195 299 ALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETIT 350 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~ 350 (393)
....+.+.+++++.++.+++.++|++- -|||.+..+..+.+.+.....++.
T Consensus 12 ~~~~~~l~~~l~~A~~~~~~~i~l~in-SPGG~v~~~~~I~~~i~~~~~pvv 62 (172)
T cd07015 12 SYTYDQFDRYITIAEQDNAEAIIIELD-TPGGRADAAGNIVQRIQQSKIPVI 62 (172)
T ss_pred HhHHHHHHHHHHHHhcCCCCeEEEEEE-CCCCCHHHHHHHHHHHHhcCcCEE
Confidence 345667888888888788999999985 789999999999988876544443
No 81
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=59.58 E-value=38 Score=36.97 Aligned_cols=71 Identities=20% Similarity=0.187 Sum_probs=51.6
Q ss_pred EEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC-CCCCeEEEEEEeCCCCceEEEEEEeecccc
Q 016195 198 LKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG-PSETFVTIEVKHGNCGPIESIQVQRQLVAR 272 (393)
Q Consensus 198 l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g-~~G~~V~Ltv~r~~~~~~~~v~l~r~~~~~ 272 (393)
++|+....||||.+ +|+.--.|++|||..... .++.+.+++. +.++-+.+....-+ +-+.-++++......
T Consensus 864 vyvt~rg~gspalq-~l~aa~fitavng~~t~~--lddf~~~~~~ipdnsyv~v~~mtfd-~vp~~~s~k~n~hyf 935 (955)
T KOG1421|consen 864 VYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNT--LDDFYHMLLEIPDNSYVQVKQMTFD-GVPSIVSVKPNPHYF 935 (955)
T ss_pred eEEeecccCChhHh-hcchheeEEEecccccCc--HHHHHHHHhhCCCCceEEEEEeccC-CCceEEEeccCCccC
Confidence 78999999999998 999999999999999987 5788887764 44555666544322 234555665554433
No 82
>PRK14512 ATP-dependent Clp protease proteolytic subunit; Provisional
Probab=58.39 E-value=28 Score=32.03 Aligned_cols=57 Identities=14% Similarity=0.100 Sum_probs=41.7
Q ss_pred ceEEEEEeCccchhHHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHhccccC
Q 016195 287 TSVGYMRLKEFNALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNE 345 (393)
Q Consensus 287 ~~igYI~i~~F~~~~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~ 345 (393)
.++-||. ..........+.+.|..++. .+.+.++|.+- -|||.+..++.|.+.+...
T Consensus 23 ~r~I~i~-g~I~~~~~~~i~~~L~~l~~~~~~~~I~l~IN-SpGG~v~ag~aI~d~i~~~ 80 (197)
T PRK14512 23 SRSIVIA-GEINKDLSELFQEKILLLEALDSKKPIFVYID-SEGGDIDAGFAIFNMIRFV 80 (197)
T ss_pred CcEEEEC-CEEcHHHHHHHHHHHHHHHhcCCCCCEEEEEE-CCCCCHHHHHHHHHHHHhC
Confidence 4455553 12234566788888888887 45788888886 8899999999999987754
No 83
>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=52.37 E-value=22 Score=31.11 Aligned_cols=46 Identities=24% Similarity=0.335 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEE
Q 016195 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETI 349 (393)
Q Consensus 301 ~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v 349 (393)
..+++.+.|..+... +.++|.+ +-|||.+..+..+.+.+..-++++
T Consensus 16 ~~~~~~~~l~~~~~~--~~i~l~i-nspGG~~~~~~~i~~~i~~~~~pv 61 (160)
T cd07016 16 TAKEFKDALDALGDD--SDITVRI-NSPGGDVFAGLAIYNALKRHKGKV 61 (160)
T ss_pred CHHHHHHHHHhccCC--CCEEEEE-ECCCCCHHHHHHHHHHHHhcCCCE
Confidence 567888888877553 7888888 789999999999998877544343
No 84
>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=45.32 E-value=50 Score=30.37 Aligned_cols=42 Identities=26% Similarity=0.389 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHhccc
Q 016195 301 ARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFL 343 (393)
Q Consensus 301 ~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~lfl 343 (393)
..+++.++|+++.+ ..++++||++. .+||.+..+.++...+.
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~-s~Gg~~~~~~~l~~~i~ 56 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRIN-SPGGTVVASEEIYEKLK 56 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEec-CCCCCHHHHHHHHHHHH
Confidence 35678888888774 56899999885 57787777766666543
No 85
>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=43.44 E-value=37 Score=33.03 Aligned_cols=42 Identities=21% Similarity=0.276 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccC
Q 016195 301 ARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNE 345 (393)
Q Consensus 301 ~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~ 345 (393)
..+++.++++.... .+++.|.+ +-|||.+..|.+|+.++...
T Consensus 76 dse~v~raI~~~~~--~~~IdLii-~TpGG~v~AA~~I~~~l~~~ 117 (285)
T PF01972_consen 76 DSEFVLRAIREAPK--DKPIDLII-HTPGGLVDAAEQIARALREH 117 (285)
T ss_pred hHHHHHHHHHhcCC--CCceEEEE-ECCCCcHHHHHHHHHHHHhC
Confidence 34566666666443 23455555 48999999999999988764
No 86
>PRK12553 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=41.98 E-value=94 Score=28.72 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=37.9
Q ss_pred chhHHHHHHHHHHHHHHCC-CCeEEEEccCCCCCcHHHHHHHHhccccC
Q 016195 298 NALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLNE 345 (393)
Q Consensus 298 ~~~~~~~l~~al~~l~~~g-~~~lIlDLR~N~GG~l~~a~~ia~lfl~~ 345 (393)
.....+++...|..++..+ .+.+.|-+ |-|||.+..+..+-+.+...
T Consensus 45 ~~~~~~~i~~~L~~l~~~~~~~~I~l~I-NSpGG~v~~g~~I~d~i~~~ 92 (207)
T PRK12553 45 DDASANDVMAQLLVLESIDPDRDITLYI-NSPGGSVTAGDAIYDTIQFI 92 (207)
T ss_pred CHHHHHHHHHHHHHHHhCCCCCCEEEEE-eCCCCcHHHHHHHHHHHHhc
Confidence 4567788899998888766 67888888 78999999999998886653
No 87
>COG5233 GRH1 Peripheral Golgi membrane protein [Intracellular trafficking and secretion]
Probab=41.52 E-value=12 Score=37.02 Aligned_cols=47 Identities=36% Similarity=0.500 Sum_probs=36.8
Q ss_pred ceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcCCCCCCEEEEECCEEcC
Q 016195 178 DMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVR 229 (393)
Q Consensus 178 ~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~ 229 (393)
+...+|+....+ ++ -+-+.+|.+.+||+++|.-.||.|+-+|+.++.
T Consensus 50 D~~~~gi~htsV---n~--~l~~lrv~~~~~~e~~~~~~~dyilg~n~Dp~~ 96 (417)
T COG5233 50 DKTRLGIFHTSV---NC--LLEVLRVNPESPAEKAGMVVGDYILGINEDPLR 96 (417)
T ss_pred hhhhhccccchh---hh--hhhheeccccChhHhhccccceeEEeecCCcHH
Confidence 445677755444 23 356888999999999999999999999987764
No 88
>KOG4407 consensus Predicted Rho GTPase-activating protein [General function prediction only]
Probab=40.06 E-value=15 Score=42.53 Aligned_cols=46 Identities=30% Similarity=0.487 Sum_probs=40.7
Q ss_pred EEEEEEEcCCChhhhcCCCCCCEEEEECCEEcCCCCHHHHHHHhcC
Q 016195 197 TLKVLGLILDGPAHSAGVRQGDEVLAVNGVDVRGKSAFEVSSLLQG 242 (393)
Q Consensus 197 ~l~V~~V~~gsPA~~AGL~~GD~IlsVnG~~v~~~~~~~v~~~L~g 242 (393)
.++|..|.+++||..+.|+-||.++.||.+++.++...+++.+++.
T Consensus 144 T~~~~eV~~n~~~~~a~LQ~~~~V~~v~~q~~A~i~~s~~~S~~~q 189 (1973)
T KOG4407|consen 144 TIFIKEVQANGPAHYANLQTGDRVLMVNNQPIAGIAYSTIVSMIKQ 189 (1973)
T ss_pred hhhhhhhccCChhHHHhhhccceeEEeecCcccchhhhhhhhhhcc
Confidence 3678899999999999999999999999999999877777777754
No 89
>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=37.83 E-value=61 Score=28.67 Aligned_cols=45 Identities=18% Similarity=0.210 Sum_probs=36.0
Q ss_pred hhHHHHHHHHHHHHHHC-CCCeEEEEccCCCCCcHHHHHHHHhcccc
Q 016195 299 ALARKDLVTAMKRLQDM-GASYFILDLRDNLGGLVQAGIEIAKLFLN 344 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~~-g~~~lIlDLR~N~GG~l~~a~~ia~lfl~ 344 (393)
....+++.+.|..+... +.++++|-+ |-|||.+..+..+.+.+..
T Consensus 11 ~~~~~~~~~~L~~l~~~~~~~~i~l~I-nSpGG~v~~~~~i~~~i~~ 56 (162)
T cd07013 11 DISANQFAAQLLFLGAVNPEKDIYLYI-NSPGGDVFAGMAIYDTIKF 56 (162)
T ss_pred cHHHHHHHHHHHHHhcCCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh
Confidence 45677888888888865 458888888 7899999999988887664
No 90
>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=37.11 E-value=84 Score=28.00 Aligned_cols=61 Identities=13% Similarity=0.244 Sum_probs=43.6
Q ss_pred ceEEEEEeCccchhHHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEE
Q 016195 287 TSVGYMRLKEFNALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETI 349 (393)
Q Consensus 287 ~~igYI~i~~F~~~~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v 349 (393)
+++-||. ...+......+.+.|..|++ .+.+.+.|-+ +.|||.+..++.+.+++...+.++
T Consensus 16 ~r~i~l~-g~I~~~~~~~~~~~L~~l~~~~~~~~i~i~I-NSpGG~v~~g~~i~~~i~~~~~~v 77 (182)
T PF00574_consen 16 ERIIFLN-GPIDEESANRLISQLLYLENEDKNKPINIYI-NSPGGDVDAGLAIYDAIRSSKAPV 77 (182)
T ss_dssp TTEEEEE-SSBSHHHHHHHHHHHHHHHHHTSSSEEEEEE-EECEBCHHHHHHHHHHHHHSSSEE
T ss_pred CeEEEEC-CccCHHHHHHHHHHHHHHhccCCCceEEEEE-cCCCCccHHHHHHHHHHHhcCCCe
Confidence 3455554 23345567788887777754 4567888888 789999999999999988765554
No 91
>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=35.76 E-value=1e+02 Score=27.44 Aligned_cols=46 Identities=17% Similarity=0.207 Sum_probs=36.0
Q ss_pred hhHHHHHHHHHHHHHHCCC-CeEEEEccCCCCCcHHHHHHHHhccccC
Q 016195 299 ALARKDLVTAMKRLQDMGA-SYFILDLRDNLGGLVQAGIEIAKLFLNE 345 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~~g~-~~lIlDLR~N~GG~l~~a~~ia~lfl~~ 345 (393)
....+++...+..+...+. +.++|-+ +-|||.+..+..+.+.+-..
T Consensus 20 ~~~~~~i~~~l~~~~~~~~~~~i~l~i-nSpGG~v~~~~~i~~~l~~~ 66 (171)
T cd07017 20 DEVANLIIAQLLYLESEDPKKPIYLYI-NSPGGSVTAGLAIYDTMQYI 66 (171)
T ss_pred HHHHHHHHHHHHHHHccCCCCceEEEE-ECCCCCHHHHHHHHHHHHhc
Confidence 4456788888888877654 7888888 78999999999998886643
No 92
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=35.04 E-value=33 Score=39.12 Aligned_cols=75 Identities=24% Similarity=0.398 Sum_probs=48.6
Q ss_pred cCceeeeEEEEEEeeCCCCeeEEEEEEEcCCChhhhcC-CCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCeEEEEEEe
Q 016195 176 RYDMSGIGINLREVPDANGVVTLKVLGLILDGPAHSAG-VRQGDEVLAVNGVDVRGKSAFEVSSLLQGPSETFVTIEVKH 254 (393)
Q Consensus 176 ~~~~~glGi~~~~~~~~~G~~~l~V~~V~~gsPA~~AG-L~~GD~IlsVnG~~v~~~~~~~v~~~L~g~~G~~V~Ltv~r 254 (393)
.....|+|+.+......+| +++..+..++.|-.-| ++.||.+++.+|+++.+....++...++ -.-..+.+++.|
T Consensus 1253 ~~p~~~~~~~~~~~~~s~~---~~~~~~~~~~~a~~~~~~r~g~~~~~~~~~~~~~~~p~~~l~~~~-~v~~p~~~~~~~ 1328 (1332)
T KOG4371|consen 1253 KKPMATLGLSLAKRTMSDG---IFIRNIAQDSAASSEGTLRVGDRLVSLDGEPVDGFTPATILEKLK-LVQGPVQITVTR 1328 (1332)
T ss_pred ecccccccccccccCcCCc---eeeecccccccccccccccccceeeccCCccCCCCChHHHHHHhh-hccCchhheehh
Confidence 3466788887765433333 6777666666665555 9999999999999999876555544443 222334454444
No 93
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=34.49 E-value=76 Score=31.42 Aligned_cols=41 Identities=20% Similarity=0.260 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHhccc
Q 016195 302 RKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLFL 343 (393)
Q Consensus 302 ~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~lfl 343 (393)
.+.+.+.|+++.. ...++++|.+- -|||.+..+..+++.+-
T Consensus 82 ~~~~~~~l~~~~~~~~vk~vvL~in-SPGG~v~as~~i~~~l~ 123 (317)
T COG0616 82 GDDIEEILRAARADPSVKAVVLRIN-SPGGSVVASELIARALK 123 (317)
T ss_pred HHHHHHHHHHHhcCCCCceEEEEEE-CcCCchhHHHHHHHHHH
Confidence 3455555666554 45899998885 79999998888887654
No 94
>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=33.97 E-value=1.1e+02 Score=24.53 Aligned_cols=41 Identities=17% Similarity=0.148 Sum_probs=27.6
Q ss_pred eEEEEEeC-ccchhHHHHHHHHHH-HHHHCCCCeEEEEccCCC
Q 016195 288 SVGYMRLK-EFNALARKDLVTAMK-RLQDMGASYFILDLRDNL 328 (393)
Q Consensus 288 ~igYI~i~-~F~~~~~~~l~~al~-~l~~~g~~~lIlDLR~N~ 328 (393)
++..+++. .+.....++|++.+. .+.+.+.+.+|+|+++=+
T Consensus 10 ~~~v~~l~G~L~~~~a~~~~~~l~~~~~~~~~~~vvlDls~v~ 52 (109)
T cd07041 10 GVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVP 52 (109)
T ss_pred CEEEEeeeeeECHHHHHHHHHHHHHHHHHcCCCEEEEECCCCc
Confidence 35555554 355667788888764 444467899999998544
No 95
>PRK00277 clpP ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=32.51 E-value=1e+02 Score=28.38 Aligned_cols=45 Identities=20% Similarity=0.203 Sum_probs=34.0
Q ss_pred hhHHHHHHHHHHHHHHCC-CCeEEEEccCCCCCcHHHHHHHHhcccc
Q 016195 299 ALARKDLVTAMKRLQDMG-ASYFILDLRDNLGGLVQAGIEIAKLFLN 344 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~~g-~~~lIlDLR~N~GG~l~~a~~ia~lfl~ 344 (393)
....+.+...+..+...+ .+.+.|.+ +-|||.+..+..+-+.+-.
T Consensus 42 ~~~~~~i~~~L~~l~~~~~~~~I~l~I-nSpGG~v~~g~~I~d~i~~ 87 (200)
T PRK00277 42 DHMANLIVAQLLFLEAEDPDKDIYLYI-NSPGGSVTAGLAIYDTMQF 87 (200)
T ss_pred HHHHHHHHHHHHHhhccCCCCCEEEEE-ECCCCcHHHHHHHHHHHHh
Confidence 445677878887776553 55677777 7899999999999887654
No 96
>TIGR02886 spore_II_AA anti-sigma F factor antagonist. The anti-sigma F factor antagonist, also called stage II sporulation protein AA, is a protein universal among endospore-forming bacteria, all of which belong to the Firmcutes
Probab=26.09 E-value=2e+02 Score=22.77 Aligned_cols=42 Identities=17% Similarity=0.184 Sum_probs=27.9
Q ss_pred eEEEEEeC-ccchhHHHHHHHHHHHHHH-CCCCeEEEEccCCCC
Q 016195 288 SVGYMRLK-EFNALARKDLVTAMKRLQD-MGASYFILDLRDNLG 329 (393)
Q Consensus 288 ~igYI~i~-~F~~~~~~~l~~al~~l~~-~g~~~lIlDLR~N~G 329 (393)
++..+++. .+.....+.|++.+.++-. .+.+.+|||+++-.-
T Consensus 8 ~~~vi~l~G~L~f~~~~~~~~~l~~~~~~~~~~~vilDls~v~~ 51 (106)
T TIGR02886 8 DVLIVRLSGELDHHTAERVRRKIDDAIERRPIKHLILNLKNVTF 51 (106)
T ss_pred CEEEEEEecccchhhHHHHHHHHHHHHHhCCCCEEEEECCCCcE
Confidence 35555554 2344566788888876543 568999999997653
No 97
>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=23.80 E-value=32 Score=27.73 Aligned_cols=7 Identities=57% Similarity=1.023 Sum_probs=3.8
Q ss_pred ccceecC
Q 016195 3 SLILNCS 9 (393)
Q Consensus 3 ~~~~~~~ 9 (393)
|+.+|||
T Consensus 20 Sv~VNCS 26 (91)
T PF03921_consen 20 SVWVNCS 26 (91)
T ss_dssp EEEEEEE
T ss_pred CEEEEEc
Confidence 4555665
No 98
>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=23.54 E-value=1.5e+02 Score=26.25 Aligned_cols=38 Identities=16% Similarity=0.199 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHH
Q 016195 300 LARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEI 338 (393)
Q Consensus 300 ~~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~i 338 (393)
...+++.++++++.+ ..++++||++. .+||.+....++
T Consensus 22 ~~~~~l~~~l~~a~~d~~v~~vvl~~~-~~gg~~~~~~~~ 60 (177)
T cd07014 22 VSGDTTAAQIRDARLDPKVKAIVLRVN-SPGGSVTASEVI 60 (177)
T ss_pred cCHHHHHHHHHHHhcCCCceEEEEEee-CCCcCHHHHHHH
Confidence 356788888888765 45899999995 667776654443
No 99
>PF01740 STAS: STAS domain; InterPro: IPR002645 The STAS (Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function. The establishment of differential gene expression in sporulating Bacillus subtilis involves four protein components one of which is SpoIIAA (P10727 from SWISSPROT). The four components regulate the sporulation sigma factor F. Early in sporulation, SpoIIAA is in the phosphorylated state (SpoIIAA-P), as a result of the activity of the ATP-dependent protein kinase SpoIIAB (P10728 from SWISSPROT). The site at which this protein is a conserved serine. SpoIIAB is an anti-sigma factor that in its free form inhibits F by binding to it. Competition by SpoIIAA (the anti-anti-sigma factor) for binding to SpoIIAB releases Sigma F activity []. The STAS domain is found in the anti-sigma factor antagonist SpoIIAA.; PDB: 3T6O_B 3LKL_B 1H4Z_A 1H4Y_B 1H4X_B 3NY7_A 3OIZ_A 1T6R_A 1VC1_B 1SBO_A ....
Probab=23.42 E-value=1.6e+02 Score=23.72 Aligned_cols=45 Identities=18% Similarity=0.120 Sum_probs=32.2
Q ss_pred ceEEEEEeC-ccchhHHHHHHHHHHHHHHCC---------CCeEEEEccCCCCCc
Q 016195 287 TSVGYMRLK-EFNALARKDLVTAMKRLQDMG---------ASYFILDLRDNLGGL 331 (393)
Q Consensus 287 ~~igYI~i~-~F~~~~~~~l~~al~~l~~~g---------~~~lIlDLR~N~GG~ 331 (393)
+++-.+++. .+.....+++++.+.++...+ .+.+|||+++-..=.
T Consensus 8 ~~v~ii~~~g~l~f~~~~~~~~~i~~~~~~~~~~~~~~~~~~~vIlD~s~v~~iD 62 (117)
T PF01740_consen 8 DGVLIIRLDGPLFFANAEEFRDRIRKLIDEDPERIKKRQTIKNVILDMSGVSFID 62 (117)
T ss_dssp TTEEEEEEESEESHHHHHHHHHHHHHHHCCSSS--HTSSSSSEEEEEETTESEES
T ss_pred CCEEEEEEeeEEEHHHHHHHHHHHHHhhhcccccccccccceEEEEEEEeCCcCC
Confidence 345556654 334557788999998887776 499999999876543
No 100
>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=23.38 E-value=2e+02 Score=26.25 Aligned_cols=40 Identities=20% Similarity=0.392 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHh
Q 016195 300 LARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAK 340 (393)
Q Consensus 300 ~~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~ 340 (393)
....++.++|.++.+ .+++++||++- .+||.+..+..+..
T Consensus 17 ~~~~~l~~~l~~a~~d~~i~~ivl~~~-s~Gg~~~~~~~i~~ 57 (208)
T cd07023 17 IGADSLIEQLRKAREDDSVKAVVLRIN-SPGGSVVASEEIYR 57 (208)
T ss_pred CCHHHHHHHHHHHHhCCCCcEEEEEEE-CCCCCHHHHHHHHH
Confidence 356678888888764 35899999884 68887766554443
No 101
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=22.76 E-value=1.1e+02 Score=26.80 Aligned_cols=52 Identities=17% Similarity=0.300 Sum_probs=37.6
Q ss_pred eCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEE
Q 016195 294 LKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETIT 350 (393)
Q Consensus 294 i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~ 350 (393)
+..|..+...++.+.+.+... +.+++|| ||||+.+..+.+.+.+..-+.+++
T Consensus 44 v~~~QSN~Egelid~I~~a~~-~~dgiII----Npga~THtSvAi~DAl~~~~~P~V 95 (140)
T cd00466 44 VEFFQSNHEGELIDWIHEARD-GADGIII----NPGAYTHTSIALRDALAAVSIPVI 95 (140)
T ss_pred EEEEeeCcHHHHHHHHHHhhc-cCcEEEE----cchHHHHHHHHHHHHHHcCCCCEE
Confidence 344455556677777777543 5899999 999999888888888776555554
No 102
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=22.47 E-value=96 Score=27.15 Aligned_cols=53 Identities=13% Similarity=0.250 Sum_probs=38.0
Q ss_pred EeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEE
Q 016195 293 RLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETIT 350 (393)
Q Consensus 293 ~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~ 350 (393)
.+..|..+...++-+.+.+... ..+++|| ||||+.+..+.+.+-+..-+.+++
T Consensus 43 ~v~~~QSN~EGelId~i~~a~~-~~dgiII----Npga~THtSiAl~DAl~~~~~P~v 95 (141)
T TIGR01088 43 ELEFFQSNSEGQLIDKIHEAEG-QYDGIII----NPGALTHTSVALRDALAAVSLPVV 95 (141)
T ss_pred EEEEEeeCcHHHHHHHHHhccc-cCCEEEE----cChHHhhhHHHHHHHHHcCCCCEE
Confidence 3444555556677777776533 3789998 999999999988888877665554
No 103
>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=21.88 E-value=1.5e+02 Score=27.21 Aligned_cols=43 Identities=19% Similarity=0.278 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHHHHHH-CCCCeEEEEccCCCCCcHHHHHHHHhcc
Q 016195 299 ALARKDLVTAMKRLQD-MGASYFILDLRDNLGGLVQAGIEIAKLF 342 (393)
Q Consensus 299 ~~~~~~l~~al~~l~~-~g~~~lIlDLR~N~GG~l~~a~~ia~lf 342 (393)
.....++.++|+++.+ ..++++||++. .+||.+..+..+...+
T Consensus 24 ~~~~~~l~~~l~~a~~d~~i~~Vvl~~~-s~gg~~~~~~~l~~~l 67 (214)
T cd07022 24 LTSYEGIAAAIRAALADPDVRAIVLDID-SPGGEVAGVFELADAI 67 (214)
T ss_pred cccHHHHHHHHHHHhhCCCCcEEEEEEe-CCCCcHHHHHHHHHHH
Confidence 3456788888888764 45899999985 4777776655555444
No 104
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=21.73 E-value=1.2e+02 Score=26.72 Aligned_cols=54 Identities=7% Similarity=0.094 Sum_probs=38.3
Q ss_pred EeCccchhHHHHHHHHHHHHHHCCCCeEEEEccCCCCCcHHHHHHHHhccccCCcEEEE
Q 016195 293 RLKEFNALARKDLVTAMKRLQDMGASYFILDLRDNLGGLVQAGIEIAKLFLNEGETITY 351 (393)
Q Consensus 293 ~i~~F~~~~~~~l~~al~~l~~~g~~~lIlDLR~N~GG~l~~a~~ia~lfl~~g~~v~~ 351 (393)
.+..|..+...++-+.+.+.. .+.+++|| ||||+.+..+.+.+-+..-+.+++-
T Consensus 45 ~~~~~QSN~EGelId~i~~a~-~~~dgiII----Npga~THtSiAl~DAl~~~~~P~VE 98 (146)
T PRK13015 45 EVEFRQSNHEGELIDWIHEAR-GDVAGIVI----NPGAYTHTSVAIRDALAALELPVIE 98 (146)
T ss_pred EEEEEeeCcHHHHHHHHHHhh-hcCCEEEE----cchHHhhhHHHHHHHHHcCCCCEEE
Confidence 344445555567777777653 35799998 9999998888888888776666553
No 105
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=21.16 E-value=1.6e+02 Score=24.44 Aligned_cols=29 Identities=17% Similarity=0.241 Sum_probs=20.5
Q ss_pred HHHHHHHHCCCCeEEEEccCCCC----CcHHHHH
Q 016195 307 TAMKRLQDMGASYFILDLRDNLG----GLVQAGI 336 (393)
Q Consensus 307 ~al~~l~~~g~~~lIlDLR~N~G----G~l~~a~ 336 (393)
+.+..++..|++ +++|+|-+|. |.-...+
T Consensus 4 ~f~~~l~~~~i~-~lVDVR~~P~S~~~~~~k~~l 36 (122)
T PF04343_consen 4 RFYDLLKKNGIR-VLVDVRLWPRSRKPGFNKEDL 36 (122)
T ss_pred HHHHHHHHCCCe-EEEEECCCCCCCCCCCCHHHH
Confidence 344555666665 8999999999 8665443
No 106
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=20.39 E-value=51 Score=28.85 Aligned_cols=26 Identities=23% Similarity=0.146 Sum_probs=16.8
Q ss_pred HHHHHHhhheeEEEEecCccccccCC
Q 016195 41 KAVINVLTGALSFNLLLSSPLALESS 66 (393)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 (393)
+++.-.|..++.|-+.||.|.+..+|
T Consensus 3 ~~~s~~Lv~~~~~Lvsc~~p~~~~p~ 28 (142)
T TIGR03042 3 SLASLLLVLLLTFLVSCSGPAAAVPP 28 (142)
T ss_pred hHHHHHHHHHHHHHHHcCCCcccCCC
Confidence 44444555566666788888876654
No 107
>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=20.33 E-value=2.2e+02 Score=22.11 Aligned_cols=42 Identities=21% Similarity=0.120 Sum_probs=25.7
Q ss_pred ceEEEEEeCc-cchhHHHHHHHHHHHHHHCC--CCeEEEEccCCC
Q 016195 287 TSVGYMRLKE-FNALARKDLVTAMKRLQDMG--ASYFILDLRDNL 328 (393)
Q Consensus 287 ~~igYI~i~~-F~~~~~~~l~~al~~l~~~g--~~~lIlDLR~N~ 328 (393)
+++.++++.. +.....+.+.+.+.+....+ .+.+|||+++-.
T Consensus 8 ~~~~v~~l~G~l~~~~~~~l~~~~~~~~~~~~~~~~lilD~~~v~ 52 (107)
T cd07042 8 PGVLIYRIDGPLFFGNAEYFKDRLLRLVDEDPPLKVVILDLSAVN 52 (107)
T ss_pred CCEEEEEecCceEeehHHHHHHHHHHHhccCCCceEEEEECCCCc
Confidence 4455555542 22334566777776655544 478999999754
Done!