Query 036586
Match_columns 568
No_of_seqs 428 out of 3373
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 03:30:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036586.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036586hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10139 serine endoprotease; 100.0 1.8E-55 3.8E-60 476.3 44.3 376 110-540 40-451 (455)
2 TIGR02037 degP_htrA_DO peripla 100.0 3.9E-54 8.5E-59 465.4 45.3 380 111-539 2-424 (428)
3 PRK10942 serine endoprotease; 100.0 2.4E-53 5.3E-58 461.7 42.7 372 111-540 39-469 (473)
4 TIGR02038 protease_degS peripl 100.0 1.8E-45 4E-50 387.2 34.7 284 108-417 43-350 (351)
5 PRK10898 serine endoprotease; 100.0 1.4E-44 3.1E-49 380.2 35.8 283 109-417 44-351 (353)
6 KOG1421 Predicted signaling-as 100.0 2.2E-37 4.9E-42 328.5 28.2 365 110-532 52-457 (955)
7 COG0265 DegQ Trypsin-like seri 100.0 5.1E-34 1.1E-38 300.7 30.0 284 110-416 33-341 (347)
8 KOG1320 Serine protease [Postt 100.0 1E-33 2.2E-38 299.5 17.2 395 121-561 58-473 (473)
9 KOG1421 Predicted signaling-as 99.9 1.6E-25 3.4E-30 238.7 27.9 382 86-536 496-921 (955)
10 KOG1320 Serine protease [Postt 99.9 4.9E-22 1.1E-26 211.0 20.4 286 110-414 128-467 (473)
11 PRK10779 zinc metallopeptidase 99.7 6.6E-16 1.4E-20 168.3 13.2 153 338-538 128-281 (449)
12 TIGR00054 RIP metalloprotease 99.5 9.7E-14 2.1E-18 149.9 12.5 135 336-538 128-263 (420)
13 PF13180 PDZ_2: PDZ domain; PD 99.5 2.7E-13 5.8E-18 113.0 8.7 81 311-413 1-82 (82)
14 PF13365 Trypsin_2: Trypsin-li 99.3 1.7E-11 3.7E-16 108.1 10.4 53 152-205 1-65 (120)
15 cd00987 PDZ_serine_protease PD 99.3 2.1E-11 4.6E-16 102.6 10.2 88 311-410 1-89 (90)
16 cd00986 PDZ_LON_protease PDZ d 99.1 4.2E-10 9E-15 92.9 9.3 72 335-416 7-78 (79)
17 cd00991 PDZ_archaeal_metallopr 99.1 6.6E-10 1.4E-14 91.9 9.1 68 335-412 9-77 (79)
18 cd00990 PDZ_glycyl_aminopeptid 99.1 6.3E-10 1.4E-14 91.8 8.7 77 311-414 1-78 (80)
19 TIGR01713 typeII_sec_gspC gene 99.0 1.6E-09 3.4E-14 109.5 10.3 100 292-413 159-259 (259)
20 TIGR02037 degP_htrA_DO peripla 98.9 6.4E-09 1.4E-13 113.1 10.1 90 310-410 337-427 (428)
21 cd00989 PDZ_metalloprotease PD 98.9 1.1E-08 2.3E-13 84.1 8.3 66 336-412 12-78 (79)
22 PF12812 PDZ_1: PDZ-like domai 98.8 1.5E-08 3.2E-13 83.5 8.0 73 430-526 6-78 (78)
23 cd00988 PDZ_CTP_protease PDZ d 98.8 3.2E-08 6.9E-13 82.5 10.2 77 311-412 2-82 (85)
24 cd00136 PDZ PDZ domain, also c 98.6 1.6E-07 3.5E-12 75.2 7.0 65 312-400 2-69 (70)
25 cd00987 PDZ_serine_protease PD 98.6 6.6E-07 1.4E-11 75.1 10.8 84 434-539 2-86 (90)
26 PF00089 Trypsin: Trypsin; In 98.5 2.4E-06 5.1E-11 82.8 15.8 149 149-297 24-219 (220)
27 PF13180 PDZ_2: PDZ domain; PD 98.5 4E-07 8.6E-12 75.7 8.6 62 478-539 14-76 (82)
28 smart00228 PDZ Domain present 98.4 1.3E-06 2.8E-11 72.2 8.4 73 311-404 12-85 (85)
29 cd00991 PDZ_archaeal_metallopr 98.4 1.6E-06 3.5E-11 71.6 8.5 63 476-538 8-71 (79)
30 KOG3580 Tight junction protein 98.3 3.1E-06 6.8E-11 91.0 9.9 59 335-404 39-98 (1027)
31 TIGR00054 RIP metalloprotease 98.3 1.7E-06 3.6E-11 93.9 8.2 68 336-414 203-271 (420)
32 cd00989 PDZ_metalloprotease PD 98.3 3.4E-06 7.4E-11 69.0 8.1 59 480-538 14-72 (79)
33 TIGR00225 prc C-terminal pepti 98.2 3.5E-06 7.5E-11 88.8 9.4 83 311-416 51-134 (334)
34 PRK10779 zinc metallopeptidase 98.2 3E-06 6.4E-11 92.8 8.1 67 337-414 222-289 (449)
35 cd00986 PDZ_LON_protease PDZ d 98.2 6.8E-06 1.5E-10 67.6 8.3 61 478-539 8-69 (79)
36 PRK10139 serine endoprotease; 98.2 9E-06 1.9E-10 89.0 10.8 83 434-538 268-351 (455)
37 cd00190 Tryp_SPc Trypsin-like 98.1 8.6E-05 1.9E-09 72.3 16.4 87 150-236 25-132 (232)
38 PF00595 PDZ: PDZ domain (Also 98.1 6.4E-06 1.4E-10 68.1 6.4 72 310-401 9-81 (81)
39 PLN00049 carboxyl-terminal pro 98.1 1.6E-05 3.5E-10 85.4 11.2 68 336-412 102-170 (389)
40 PF14685 Tricorn_PDZ: Tricorn 98.1 3E-05 6.4E-10 65.3 10.2 75 311-410 1-87 (88)
41 TIGR02860 spore_IV_B stage IV 98.1 1.2E-05 2.6E-10 85.4 9.0 67 335-412 104-179 (402)
42 TIGR02038 protease_degS peripl 98.1 1.7E-05 3.8E-10 84.0 10.2 84 434-539 256-340 (351)
43 KOG3209 WW domain-containing p 98.1 3.4E-05 7.3E-10 84.8 12.3 162 330-534 668-836 (984)
44 TIGR03279 cyano_FeS_chp putati 98.1 5.1E-06 1.1E-10 88.8 5.9 61 340-414 2-64 (433)
45 PRK10942 serine endoprotease; 98.0 2.9E-05 6.3E-10 85.5 10.7 84 433-538 288-372 (473)
46 smart00020 Tryp_SPc Trypsin-li 98.0 0.00022 4.7E-09 69.8 15.4 88 149-237 25-133 (229)
47 cd00992 PDZ_signaling PDZ doma 98.0 2E-05 4.3E-10 64.8 6.7 48 311-369 12-60 (82)
48 cd00988 PDZ_CTP_protease PDZ d 98.0 2.4E-05 5.2E-10 65.0 7.1 60 478-537 13-75 (85)
49 COG0793 Prc Periplasmic protea 97.9 4.2E-05 9.1E-10 82.4 10.2 81 310-414 99-182 (406)
50 PRK10898 serine endoprotease; 97.9 5.6E-05 1.2E-09 80.2 10.7 84 434-539 257-341 (353)
51 COG3591 V8-like Glu-specific e 97.8 0.00028 6E-09 70.6 12.7 152 151-302 65-250 (251)
52 cd00136 PDZ PDZ domain, also c 97.8 5E-05 1.1E-09 60.5 6.1 54 479-532 14-69 (70)
53 KOG3209 WW domain-containing p 97.8 0.00014 3E-09 80.2 10.5 55 340-404 782-838 (984)
54 cd00990 PDZ_glycyl_aminopeptid 97.7 0.00011 2.3E-09 60.4 6.8 59 478-538 12-70 (80)
55 TIGR01713 typeII_sec_gspC gene 97.7 0.00013 2.8E-09 74.0 8.0 63 477-539 190-253 (259)
56 PRK09681 putative type II secr 97.6 7.1E-05 1.5E-09 75.8 5.9 67 336-413 204-275 (276)
57 COG3480 SdrC Predicted secrete 97.6 0.00011 2.3E-09 74.7 6.9 72 335-416 129-201 (342)
58 KOG3580 Tight junction protein 97.5 0.0013 2.8E-08 71.4 12.6 77 325-412 209-287 (1027)
59 PRK11186 carboxy-terminal prot 97.5 0.00062 1.3E-08 77.5 10.9 81 312-412 245-332 (667)
60 KOG3129 26S proteasome regulat 97.4 0.00058 1.3E-08 65.5 7.6 74 337-418 140-214 (231)
61 cd00992 PDZ_signaling PDZ doma 97.3 0.00077 1.7E-08 55.2 7.1 54 478-532 26-81 (82)
62 COG3975 Predicted protease wit 97.3 0.00046 9.9E-09 74.6 7.0 86 313-418 439-527 (558)
63 PF00595 PDZ: PDZ domain (Also 97.3 0.00062 1.3E-08 56.1 6.1 55 478-533 25-81 (81)
64 PF04495 GRASP55_65: GRASP55/6 97.3 0.00052 1.1E-08 62.9 5.8 86 310-414 25-114 (138)
65 PF12812 PDZ_1: PDZ-like domai 97.2 0.00057 1.2E-08 56.4 5.5 66 311-390 9-75 (78)
66 PF00863 Peptidase_C4: Peptida 97.2 0.03 6.4E-07 55.7 18.4 132 159-300 40-195 (235)
67 TIGR02860 spore_IV_B stage IV 97.1 0.0013 2.8E-08 70.2 8.3 61 478-538 105-173 (402)
68 KOG3605 Beta amyloid precursor 97.1 0.0007 1.5E-08 74.2 5.9 126 340-526 677-806 (829)
69 COG3031 PulC Type II secretory 97.1 0.00056 1.2E-08 66.9 4.5 66 337-412 208-274 (275)
70 smart00228 PDZ Domain present 96.9 0.002 4.4E-08 52.8 5.9 58 478-536 26-85 (85)
71 TIGR00225 prc C-terminal pepti 96.8 0.0022 4.8E-08 67.6 6.5 59 479-537 63-123 (334)
72 PLN00049 carboxyl-terminal pro 96.7 0.0034 7.3E-08 67.6 7.4 59 479-537 103-163 (389)
73 KOG3834 Golgi reassembly stack 96.3 0.011 2.5E-07 62.4 7.7 147 335-533 14-165 (462)
74 TIGR03279 cyano_FeS_chp putati 96.2 0.0056 1.2E-07 65.9 5.3 54 482-538 2-56 (433)
75 KOG3553 Tax interaction protei 96.2 0.0046 9.9E-08 52.5 3.2 35 335-369 58-93 (124)
76 PF05579 Peptidase_S32: Equine 96.2 0.04 8.7E-07 55.1 10.2 110 150-277 112-229 (297)
77 COG0265 DegQ Trypsin-like seri 95.7 0.03 6.6E-07 59.2 7.9 64 477-540 269-333 (347)
78 PF14685 Tricorn_PDZ: Tricorn 95.6 0.021 4.5E-07 48.2 4.8 59 478-536 12-80 (88)
79 PRK09681 putative type II secr 95.4 0.032 6.9E-07 56.8 6.3 48 492-539 221-269 (276)
80 KOG3550 Receptor targeting pro 94.7 0.077 1.7E-06 48.5 6.2 37 335-371 114-152 (207)
81 COG3480 SdrC Predicted secrete 94.4 0.11 2.3E-06 53.4 7.0 56 478-534 130-186 (342)
82 COG0793 Prc Periplasmic protea 93.7 0.1 2.2E-06 56.6 5.7 57 479-535 113-171 (406)
83 KOG3552 FERM domain protein FR 93.1 0.1 2.2E-06 59.9 4.5 57 337-403 76-132 (1298)
84 PRK11186 carboxy-terminal prot 92.3 0.25 5.3E-06 56.7 6.4 57 479-535 256-320 (667)
85 KOG3532 Predicted protein kina 92.3 0.22 4.8E-06 55.5 5.6 47 313-372 388-435 (1051)
86 PF04495 GRASP55_65: GRASP55/6 92.2 0.29 6.4E-06 44.9 5.6 57 478-534 43-100 (138)
87 KOG3542 cAMP-regulated guanine 92.1 0.14 2.9E-06 57.0 3.8 61 330-401 556-617 (1283)
88 PF00548 Peptidase_C3: 3C cyst 90.2 8 0.00017 36.8 13.5 121 149-276 24-170 (172)
89 KOG3605 Beta amyloid precursor 89.3 0.48 1E-05 52.8 4.9 81 287-370 707-791 (829)
90 KOG3553 Tax interaction protei 89.3 0.43 9.3E-06 40.8 3.5 48 475-522 56-105 (124)
91 KOG3571 Dishevelled 3 and rela 88.8 0.86 1.9E-05 49.5 6.1 38 335-372 276-315 (626)
92 KOG2921 Intramembrane metallop 88.8 0.3 6.5E-06 51.4 2.7 39 334-372 218-258 (484)
93 KOG3552 FERM domain protein FR 88.3 0.8 1.7E-05 53.0 5.8 53 480-534 77-131 (1298)
94 KOG1892 Actin filament-binding 88.0 0.79 1.7E-05 53.2 5.5 62 334-405 958-1021(1629)
95 KOG3651 Protein kinase C, alph 86.6 1.1 2.4E-05 45.6 5.1 55 337-401 31-87 (429)
96 PF02122 Peptidase_S39: Peptid 86.5 0.45 9.9E-06 46.5 2.3 138 150-293 30-183 (203)
97 KOG3606 Cell polarity protein 84.8 1.7 3.6E-05 43.8 5.3 56 313-370 173-230 (358)
98 COG3031 PulC Type II secretory 84.6 1.6 3.4E-05 43.3 5.0 48 491-538 220-268 (275)
99 KOG3129 26S proteasome regulat 84.4 2.2 4.8E-05 41.5 5.8 60 480-539 141-203 (231)
100 COG3975 Predicted protease wit 84.3 0.93 2E-05 49.7 3.6 81 429-537 433-514 (558)
101 KOG3532 Predicted protein kina 83.7 2.9 6.2E-05 47.1 7.0 51 478-528 398-448 (1051)
102 COG0750 Predicted membrane-ass 83.5 1.9 4.2E-05 45.8 5.7 58 340-408 133-195 (375)
103 PF08192 Peptidase_S64: Peptid 82.3 5.3 0.00012 45.2 8.5 101 194-301 540-688 (695)
104 KOG3549 Syntrophins (type gamm 81.7 1.6 3.5E-05 45.3 3.9 54 337-401 81-137 (505)
105 PF03510 Peptidase_C24: 2C end 80.3 4.5 9.8E-05 35.2 5.6 56 153-222 2-57 (105)
106 KOG3551 Syntrophins (type beta 79.6 1.4 2.9E-05 46.5 2.6 53 337-400 111-166 (506)
107 KOG0609 Calcium/calmodulin-dep 77.6 3.9 8.5E-05 45.1 5.5 56 337-402 147-204 (542)
108 KOG3542 cAMP-regulated guanine 77.4 2.2 4.9E-05 47.8 3.6 59 476-535 560-619 (1283)
109 PF10459 Peptidase_S46: Peptid 76.0 1.5 3.2E-05 50.7 1.9 21 150-170 47-68 (698)
110 KOG3549 Syntrophins (type gamm 75.2 4.4 9.4E-05 42.3 4.8 62 480-541 82-147 (505)
111 KOG3550 Receptor targeting pro 74.2 11 0.00024 34.7 6.6 54 480-534 117-173 (207)
112 KOG3606 Cell polarity protein 72.0 8.7 0.00019 38.8 5.9 49 478-526 194-245 (358)
113 KOG3938 RGS-GAIP interacting p 71.3 3.3 7.1E-05 41.7 2.8 57 338-402 151-209 (334)
114 KOG2921 Intramembrane metallop 70.2 7.2 0.00016 41.5 5.1 49 476-524 218-267 (484)
115 KOG3938 RGS-GAIP interacting p 69.6 13 0.00027 37.7 6.4 120 348-532 82-207 (334)
116 PF10459 Peptidase_S46: Peptid 66.8 6.2 0.00014 45.7 4.2 60 241-301 619-686 (698)
117 COG0750 Predicted membrane-ass 66.0 16 0.00034 38.9 6.9 55 484-538 135-193 (375)
118 KOG3551 Syntrophins (type beta 65.6 5.2 0.00011 42.4 2.9 64 480-543 112-179 (506)
119 PF00949 Peptidase_S7: Peptida 65.0 5.9 0.00013 36.0 2.9 96 151-278 22-119 (132)
120 KOG0606 Microtubule-associated 64.2 7.3 0.00016 46.6 4.1 35 338-372 660-695 (1205)
121 KOG3571 Dishevelled 3 and rela 63.4 28 0.00061 38.3 8.0 58 476-533 275-337 (626)
122 PF09342 DUF1986: Domain of un 60.6 1.5E+02 0.0032 30.0 11.8 86 149-235 27-131 (267)
123 KOG3651 Protein kinase C, alph 54.1 30 0.00065 35.6 6.0 53 480-533 32-87 (429)
124 KOG0609 Calcium/calmodulin-dep 53.3 21 0.00046 39.5 5.1 54 480-534 148-204 (542)
125 cd01720 Sm_D2 The eukaryotic S 49.3 31 0.00067 29.0 4.5 36 169-205 11-46 (87)
126 cd00600 Sm_like The eukaryotic 49.2 44 0.00096 25.5 5.1 33 173-206 7-39 (63)
127 cd01726 LSm6 The eukaryotic Sm 48.3 40 0.00086 26.7 4.8 32 173-205 11-42 (67)
128 PHA02893 hypothetical protein; 46.6 9.9 0.00022 31.4 1.0 20 9-28 11-30 (88)
129 cd01731 archaeal_Sm1 The archa 46.0 48 0.001 26.2 5.0 33 173-206 11-43 (68)
130 PRK00737 small nuclear ribonuc 45.8 48 0.001 26.6 5.0 33 173-206 15-47 (72)
131 cd01722 Sm_F The eukaryotic Sm 45.3 42 0.00092 26.6 4.5 32 173-205 12-43 (68)
132 cd01732 LSm5 The eukaryotic Sm 43.9 46 0.001 27.2 4.6 31 173-204 14-44 (76)
133 KOG3834 Golgi reassembly stack 42.7 26 0.00057 37.8 3.7 62 340-412 113-178 (462)
134 cd01730 LSm3 The eukaryotic Sm 41.9 45 0.00097 27.6 4.3 31 173-204 12-42 (82)
135 cd01735 LSm12_N LSm12 belongs 41.7 80 0.0017 24.8 5.4 33 173-206 7-39 (61)
136 cd01717 Sm_B The eukaryotic Sm 41.6 55 0.0012 26.7 4.8 32 173-205 11-42 (79)
137 cd01729 LSm7 The eukaryotic Sm 40.2 64 0.0014 26.6 5.0 32 173-205 13-44 (81)
138 PF09465 LBR_tudor: Lamin-B re 39.5 1.4E+02 0.003 23.0 6.1 38 170-207 7-44 (55)
139 cd01719 Sm_G The eukaryotic Sm 39.3 71 0.0015 25.7 5.0 32 173-205 11-42 (72)
140 PF00944 Peptidase_S3: Alphavi 38.6 29 0.00063 31.6 2.8 21 257-277 107-127 (158)
141 cd01727 LSm8 The eukaryotic Sm 36.9 1.4E+02 0.003 24.1 6.4 32 173-205 10-41 (74)
142 PF11874 DUF3394: Domain of un 36.1 1.6E+02 0.0034 28.5 7.5 81 383-506 65-150 (183)
143 cd06168 LSm9 The eukaryotic Sm 35.2 90 0.002 25.4 5.0 32 173-205 11-42 (75)
144 cd01728 LSm1 The eukaryotic Sm 35.1 84 0.0018 25.5 4.8 32 173-205 13-44 (74)
145 smart00651 Sm snRNP Sm protein 34.9 91 0.002 24.2 4.9 33 173-206 9-41 (67)
146 PF01423 LSM: LSM domain ; In 34.7 1E+02 0.0023 23.8 5.3 35 172-207 8-42 (67)
147 COG1958 LSM1 Small nuclear rib 32.7 85 0.0018 25.6 4.6 33 173-206 18-50 (79)
148 COG0298 HypC Hydrogenase matur 32.0 75 0.0016 26.3 3.9 46 186-233 5-51 (82)
149 KOG0162 Myosin class I heavy c 30.8 3E+02 0.0065 32.2 9.6 17 27-43 958-974 (1106)
150 COG5640 Secreted trypsin-like 29.5 1.8E+02 0.004 31.0 7.2 55 154-208 65-135 (413)
151 PF11874 DUF3394: Domain of un 29.5 65 0.0014 31.0 3.8 29 335-363 121-150 (183)
152 cd01723 LSm4 The eukaryotic Sm 28.6 1.4E+02 0.003 24.2 5.1 33 172-205 11-43 (76)
153 cd01721 Sm_D3 The eukaryotic S 25.9 3.4E+02 0.0073 21.6 7.5 33 172-205 10-42 (70)
154 PF03761 DUF316: Domain of unk 24.9 74 0.0016 32.3 3.6 81 152-233 71-199 (282)
155 KOG1738 Membrane-associated gu 23.8 68 0.0015 36.4 3.2 34 338-371 227-262 (638)
156 cd01733 LSm10 The eukaryotic S 23.8 4.1E+02 0.0088 21.7 7.6 32 173-205 20-51 (78)
157 PF00571 CBS: CBS domain CBS d 23.8 66 0.0014 23.5 2.3 15 261-275 34-48 (57)
158 cd01724 Sm_D1 The eukaryotic S 23.7 4.5E+02 0.0096 22.2 7.7 63 172-237 11-73 (90)
159 PF02178 AT_hook: AT hook moti 23.1 39 0.00085 18.2 0.6 11 4-14 1-11 (13)
160 TIGR03000 plancto_dom_1 Planct 23.0 1.7E+02 0.0036 24.0 4.5 49 355-412 10-62 (75)
161 KOG4371 Membrane-associated pr 22.5 2.2E+02 0.0048 34.5 7.0 208 268-537 1119-1331(1332)
162 cd01725 LSm2 The eukaryotic Sm 20.7 2.2E+02 0.0048 23.4 4.9 33 172-205 11-43 (81)
163 PF05580 Peptidase_S55: SpoIVB 20.5 1E+02 0.0022 30.5 3.3 34 258-294 182-215 (218)
164 KOG0606 Microtubule-associated 20.2 1.5E+02 0.0032 36.2 5.0 53 481-533 661-716 (1205)
165 COG5583 Uncharacterized small 20.0 2.7E+02 0.0058 21.2 4.6 32 513-544 11-42 (54)
No 1
>PRK10139 serine endoprotease; Provisional
Probab=100.00 E-value=1.8e-55 Score=476.34 Aligned_cols=376 Identities=20% Similarity=0.330 Sum_probs=308.2
Q ss_pred CcHHHHHHHhCCCCCceEEEEeEeecCC-----------C--CCcccccCCCcceEEEEEEe--CCEEEEcccccCCCCe
Q 036586 110 PRWESVAVKAVPSMDAVVKVFCVHTEPN-----------F--SLPWQRKRQYSSSSSGFIVG--GRRVLTNAHSVEHHTQ 174 (568)
Q Consensus 110 ~~~~~~~~~v~p~~~sVV~I~~~~~~~~-----------~--~~p~~~~~~~~~~GSGfiI~--~G~ILTn~HVV~~~~~ 174 (568)
.+|+++++++.| |||.|.+...... + ..||...+...+.||||||+ +||||||+|||.++..
T Consensus 40 ~~~~~~~~~~~p---avV~i~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~GSG~ii~~~~g~IlTn~HVv~~a~~ 116 (455)
T PRK10139 40 PSLAPMLEKVLP---AVVSVRVEGTASQGQKIPEEFKKFFGDDLPDQPAQPFEGLGSGVIIDAAKGYVLTNNHVINQAQK 116 (455)
T ss_pred ccHHHHHHHhCC---cEEEEEEEEeecccccCchhHHHhccccCCccccccccceEEEEEEECCCCEEEeChHHhCCCCE
Confidence 369999999999 9999988654210 0 01333333456789999997 6999999999999999
Q ss_pred EEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEEeeeec
Q 036586 175 VKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVVSRMEI 252 (568)
Q Consensus 175 i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiIs~~~~ 252 (568)
+.|++ .|+++++|++++.|+.+||||||++... .+++++|+++. ++|++|++||||+|+.. +++.|+||++.+
T Consensus 117 i~V~~-~dg~~~~a~vvg~D~~~DlAvlkv~~~~---~l~~~~lg~s~~~~~G~~V~aiG~P~g~~~-tvt~GivS~~~r 191 (455)
T PRK10139 117 ISIQL-NDGREFDAKLIGSDDQSDIALLQIQNPS---KLTQIAIADSDKLRVGDFAVAVGNPFGLGQ-TATSGIISALGR 191 (455)
T ss_pred EEEEE-CCCCEEEEEEEEEcCCCCEEEEEecCCC---CCceeEecCccccCCCCEEEEEecCCCCCC-ceEEEEEccccc
Confidence 99999 6999999999999999999999998643 78999999876 56899999999999876 899999998765
Q ss_pred cc---------------ccCC--CceeecccceEEEEEeeeecCC-CCccccccccchhhhHhHHHhhhcCccccCceee
Q 036586 253 LS---------------YVHG--STELLGLQGKCVGIAFQSLKND-DVENIGYVIPTPVIIHFIQDYEKNGAYTGFPILG 314 (568)
Q Consensus 253 ~~---------------~~~g--gspL~n~~G~VVGI~~~~~~~~-~~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lG 314 (568)
.. .++| ||||+|.+|+||||+++.+..+ +..+++||||++.+++++++|+++|++. |+|||
T Consensus 192 ~~~~~~~~~~~iqtda~in~GnSGGpl~n~~G~vIGi~~~~~~~~~~~~gigfaIP~~~~~~v~~~l~~~g~v~-r~~LG 270 (455)
T PRK10139 192 SGLNLEGLENFIQTDASINRGNSGGALLNLNGELIGINTAILAPGGGSVGIGFAIPSNMARTLAQQLIDFGEIK-RGLLG 270 (455)
T ss_pred cccCCCCcceEEEECCccCCCCCcceEECCCCeEEEEEEEEEcCCCCccceEEEEEhHHHHHHHHHHhhcCccc-cccee
Confidence 31 1134 4599999999999999987654 4578999999999999999999999999 99999
Q ss_pred EEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCC
Q 036586 315 VEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTG 393 (568)
Q Consensus 315 i~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g 393 (568)
+.++.+ ++++++.+|++. ..|++|..|.++|||++ ||++||+|++|||++|.+|.+ |...+.....|
T Consensus 271 v~~~~l-~~~~~~~lgl~~-~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~d----------l~~~l~~~~~g 338 (455)
T PRK10139 271 IKGTEM-SADIAKAFNLDV-QRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSFAE----------LRSRIATTEPG 338 (455)
T ss_pred EEEEEC-CHHHHHhcCCCC-CCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCHHH----------HHHHHHhcCCC
Confidence 999999 999999999985 67999999999999999 999999999999999999998 56777776789
Q ss_pred CEEEEEEEECCEEEEEEEEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhc
Q 036586 394 DSAVVKVLRNSEVHEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQ 473 (568)
Q Consensus 394 ~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~ 473 (568)
+++.++|.|+|+.+++++++...+....... ...+ .+.|+.+.+. .+.
T Consensus 339 ~~v~l~V~R~G~~~~l~v~~~~~~~~~~~~~-~~~~---~~~g~~l~~~---~~~------------------------- 386 (455)
T PRK10139 339 TKVKLGLLRNGKPLEVEVTLDTSTSSSASAE-MITP---ALQGATLSDG---QLK------------------------- 386 (455)
T ss_pred CEEEEEEEECCEEEEEEEEECCCCCcccccc-cccc---cccccEeccc---ccc-------------------------
Confidence 9999999999999999998864432111100 0000 1234443331 000
Q ss_pred cCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEEEE
Q 036586 474 SVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIVVL 540 (568)
Q Consensus 474 ~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~~l 540 (568)
....+++|..|.+++++..++++.||+|++|||++|.+|++|.+++++.+ +.+.|.+.|+++.++
T Consensus 387 -~~~~Gv~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~l~~~~-~~v~l~v~R~g~~~~ 451 (455)
T PRK10139 387 -DGTKGIKIDEVVKGSPAAQAGLQKDDVIIGVNRDRVNSIAEMRKVLAAKP-AIIALQIVRGNESIY 451 (455)
T ss_pred -cCCCceEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhCC-CeEEEEEEECCEEEE
Confidence 11246899999999888888888999999999999999999999999865 789999999987543
No 2
>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=100.00 E-value=3.9e-54 Score=465.38 Aligned_cols=380 Identities=23% Similarity=0.359 Sum_probs=320.4
Q ss_pred cHHHHHHHhCCCCCceEEEEeEeecCC------CCCc---cc-----------ccCCCcceEEEEEEe-CCEEEEccccc
Q 036586 111 RWESVAVKAVPSMDAVVKVFCVHTEPN------FSLP---WQ-----------RKRQYSSSSSGFIVG-GRRVLTNAHSV 169 (568)
Q Consensus 111 ~~~~~~~~v~p~~~sVV~I~~~~~~~~------~~~p---~~-----------~~~~~~~~GSGfiI~-~G~ILTn~HVV 169 (568)
+++++++++.| |||.|.+...... ...+ |+ ..+...+.||||||+ +|+||||+|||
T Consensus 2 ~~~~~~~~~~p---~vv~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GSGfii~~~G~IlTn~Hvv 78 (428)
T TIGR02037 2 SFAPLVEKVAP---AVVNISVEGTVKRRNRPPALPPFFRQFFGDDMPNFPRQQRERKVRGLGSGVIISADGYILTNNHVV 78 (428)
T ss_pred cHHHHHHHhCC---ceEEEEEEEEecccCCCcccchhHHHhhcccccCcccccccccccceeeEEEECCCCEEEEcHHHc
Confidence 47899999999 9999998653211 0000 11 112345789999999 89999999999
Q ss_pred CCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEE
Q 036586 170 EHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVV 247 (568)
Q Consensus 170 ~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiI 247 (568)
.++..+.|++ .|++.++|++++.|+.+|||||+++... .+++++|+++. ++|++|+++|||+++.. +++.|+|
T Consensus 79 ~~~~~i~V~~-~~~~~~~a~vv~~d~~~DlAllkv~~~~---~~~~~~l~~~~~~~~G~~v~aiG~p~g~~~-~~t~G~v 153 (428)
T TIGR02037 79 DGADEITVTL-SDGREFKAKLVGKDPRTDIAVLKIDAKK---NLPVIKLGDSDKLRVGDWVLAIGNPFGLGQ-TVTSGIV 153 (428)
T ss_pred CCCCeEEEEe-CCCCEEEEEEEEecCCCCEEEEEecCCC---CceEEEccCCCCCCCCCEEEEEECCCcCCC-cEEEEEE
Confidence 9999999999 5999999999999999999999998752 68999999755 67899999999999776 8999999
Q ss_pred eeeeccc-----c----------cCC--CceeecccceEEEEEeeeecCC-CCccccccccchhhhHhHHHhhhcCcccc
Q 036586 248 SRMEILS-----Y----------VHG--STELLGLQGKCVGIAFQSLKND-DVENIGYVIPTPVIIHFIQDYEKNGAYTG 309 (568)
Q Consensus 248 s~~~~~~-----~----------~~g--gspL~n~~G~VVGI~~~~~~~~-~~~~~~~aIP~~~i~~~l~~l~~~g~~~~ 309 (568)
++..+.. + .+| ||||+|.+|+||||+++.+... +..+++||||++.+++++++|++++.+.
T Consensus 154 s~~~~~~~~~~~~~~~i~tda~i~~GnSGGpl~n~~G~viGI~~~~~~~~g~~~g~~faiP~~~~~~~~~~l~~~g~~~- 232 (428)
T TIGR02037 154 SALGRSGLGIGDYENFIQTDAAINPGNSGGPLVNLRGEVIGINTAIYSPSGGNVGIGFAIPSNMAKNVVDQLIEGGKVQ- 232 (428)
T ss_pred EecccCccCCCCccceEEECCCCCCCCCCCceECCCCeEEEEEeEEEcCCCCccceEEEEEhHHHHHHHHHHHhcCcCc-
Confidence 9876531 1 134 5699999999999999987653 4578999999999999999999999998
Q ss_pred CceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHh
Q 036586 310 FPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 388 (568)
Q Consensus 310 ~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~ 388 (568)
|+|||+.++.+ ++.+++.||++. ..|++|..|.++|||++ ||++||+|++|||++|.++.+ +..++.
T Consensus 233 ~~~lGi~~~~~-~~~~~~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Vng~~i~~~~~----------~~~~l~ 300 (428)
T TIGR02037 233 RGWLGVTIQEV-TSDLAKSLGLEK-QRGALVAQVLPGSPAEKAGLKAGDVILSVNGKPISSFAD----------LRRAIG 300 (428)
T ss_pred CCcCceEeecC-CHHHHHHcCCCC-CCceEEEEccCCCChHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHH
Confidence 99999999999 999999999986 67999999999999999 999999999999999999888 667777
Q ss_pred ccCCCCEEEEEEEECCEEEEEEEEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHH
Q 036586 389 QKYTGDSAVVKVLRNSEVHEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLL 468 (568)
Q Consensus 389 ~~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~ 468 (568)
....|+.+.++|+|+|+.+++++++..++... .++...++|+.+++++ +...++++++
T Consensus 301 ~~~~g~~v~l~v~R~g~~~~~~v~l~~~~~~~-------~~~~~~~lGi~~~~l~-~~~~~~~~l~-------------- 358 (428)
T TIGR02037 301 TLKPGKKVTLGILRKGKEKTITVTLGASPEEQ-------ASSSNPFLGLTVANLS-PEIRKELRLK-------------- 358 (428)
T ss_pred hcCCCCEEEEEEEECCEEEEEEEEECcCCCcc-------ccccccccceEEecCC-HHHHHHcCCC--------------
Confidence 77789999999999999999999987665321 1234558999999998 4455466632
Q ss_pred hhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHcc-CCCeEEEEEEcCeEEE
Q 036586 469 HAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESS-EDEFLKFDLEYQQIVV 539 (568)
Q Consensus 469 ~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~-~~~~v~l~v~R~~~~~ 539 (568)
....|++|..|.+++++...+++.||+|++|||++|.++++|.++|++. +++.+.|.+.|+++.+
T Consensus 359 ------~~~~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~~d~~~~l~~~~~g~~v~l~v~R~g~~~ 424 (428)
T TIGR02037 359 ------GDVKGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAELRKVLDRAKKGGRVALLILRGGATI 424 (428)
T ss_pred ------cCcCceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 1225799999999988887788899999999999999999999999986 4679999999998754
No 3
>PRK10942 serine endoprotease; Provisional
Probab=100.00 E-value=2.4e-53 Score=461.68 Aligned_cols=372 Identities=22% Similarity=0.360 Sum_probs=306.8
Q ss_pred cHHHHHHHhCCCCCceEEEEeEeecCC------------CC--Cccc----------------------ccCCCcceEEE
Q 036586 111 RWESVAVKAVPSMDAVVKVFCVHTEPN------------FS--LPWQ----------------------RKRQYSSSSSG 154 (568)
Q Consensus 111 ~~~~~~~~v~p~~~sVV~I~~~~~~~~------------~~--~p~~----------------------~~~~~~~~GSG 154 (568)
+|+++++++.| |||.|.+...... ++ .|+. .+....+.|||
T Consensus 39 ~~~~~~~~~~p---avv~i~~~~~~~~~~~~~~~~~~~ff~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~GSG 115 (473)
T PRK10942 39 SLAPMLEKVMP---SVVSINVEGSTTVNTPRMPRQFQQFFGDNSPFCQEGSPFQSSPFCQGGQGGNGGGQQQKFMALGSG 115 (473)
T ss_pred cHHHHHHHhCC---ceEEEEEEEeccccCCCCChhHHHhhcccccccccccccccccccccccccccccccccccceEEE
Confidence 69999999999 9999988664311 00 0110 01123468999
Q ss_pred EEEe--CCEEEEcccccCCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEE
Q 036586 155 FIVG--GRRVLTNAHSVEHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTV 230 (568)
Q Consensus 155 fiI~--~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~a 230 (568)
|||+ +||||||+|||.+++.+.|++ .|+++|+|+|++.|+.+||||||++... .+++++|+++. ++|++|++
T Consensus 116 ~ii~~~~G~IlTn~HVv~~a~~i~V~~-~dg~~~~a~vv~~D~~~DlAvlki~~~~---~l~~~~lg~s~~l~~G~~V~a 191 (473)
T PRK10942 116 VIIDADKGYVVTNNHVVDNATKIKVQL-SDGRKFDAKVVGKDPRSDIALIQLQNPK---NLTAIKMADSDALRVGDYTVA 191 (473)
T ss_pred EEEECCCCEEEeChhhcCCCCEEEEEE-CCCCEEEEEEEEecCCCCEEEEEecCCC---CCceeEecCccccCCCCEEEE
Confidence 9998 499999999999999999999 5999999999999999999999997542 78999999876 56899999
Q ss_pred EecCCCCCCceEEEEEEeeeeccc-----c----------cCC--CceeecccceEEEEEeeeecCC-CCccccccccch
Q 036586 231 VGYPIGGDTISVTSGVVSRMEILS-----Y----------VHG--STELLGLQGKCVGIAFQSLKND-DVENIGYVIPTP 292 (568)
Q Consensus 231 iG~P~g~~~~svt~GiIs~~~~~~-----~----------~~g--gspL~n~~G~VVGI~~~~~~~~-~~~~~~~aIP~~ 292 (568)
||||+|+.. +++.|+||++.+.. | ++| ||||+|.+|+||||+++++..+ +..+++||||++
T Consensus 192 iG~P~g~~~-tvt~GiVs~~~r~~~~~~~~~~~iqtda~i~~GnSGGpL~n~~GeviGI~t~~~~~~g~~~g~gfaIP~~ 270 (473)
T PRK10942 192 IGNPYGLGE-TVTSGIVSALGRSGLNVENYENFIQTDAAINRGNSGGALVNLNGELIGINTAILAPDGGNIGIGFAIPSN 270 (473)
T ss_pred EcCCCCCCc-ceeEEEEEEeecccCCcccccceEEeccccCCCCCcCccCCCCCeEEEEEEEEEcCCCCcccEEEEEEHH
Confidence 999999876 89999999876531 1 134 5699999999999999987654 446899999999
Q ss_pred hhhHhHHHhhhcCccccCceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCC
Q 036586 293 VIIHFIQDYEKNGAYTGFPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDG 371 (568)
Q Consensus 293 ~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~ 371 (568)
.+++++++|+++|++. |+|||+.++.+ ++++++.++++. ..|++|..|.++|||++ ||++||+|++|||++|.++.
T Consensus 271 ~~~~v~~~l~~~g~v~-rg~lGv~~~~l-~~~~a~~~~l~~-~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~~ 347 (473)
T PRK10942 271 MVKNLTSQMVEYGQVK-RGELGIMGTEL-NSELAKAMKVDA-QRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISSFA 347 (473)
T ss_pred HHHHHHHHHHhccccc-cceeeeEeeec-CHHHHHhcCCCC-CCceEEEEECCCChHHHcCCCCCCEEEEECCEECCCHH
Confidence 9999999999999999 99999999999 999999999986 67999999999999999 99999999999999999998
Q ss_pred CCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHh
Q 036586 372 TVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEY 451 (568)
Q Consensus 372 dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~ 451 (568)
+ |...+.....|+++.++|+|+|+.+++.+++...+.... .+...++|+....+...
T Consensus 348 d----------l~~~l~~~~~g~~v~l~v~R~G~~~~v~v~l~~~~~~~~-------~~~~~~lGl~g~~l~~~------ 404 (473)
T PRK10942 348 A----------LRAQVGTMPVGSKLTLGLLRDGKPVNVNVELQQSSQNQV-------DSSNIFNGIEGAELSNK------ 404 (473)
T ss_pred H----------HHHHHHhcCCCCEEEEEEEECCeEEEEEEEeCcCccccc-------ccccccccceeeecccc------
Confidence 8 667777777899999999999999999998866422100 01112355544333310
Q ss_pred CCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEE
Q 036586 452 GKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFD 531 (568)
Q Consensus 452 ~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~ 531 (568)
....+++|..|.+++++...+++.||+|++|||++|.+|++|.+++++.+ +.+.|+
T Consensus 405 -----------------------~~~~gvvV~~V~~~S~A~~aGL~~GDvIv~VNg~~V~s~~dl~~~l~~~~-~~v~l~ 460 (473)
T PRK10942 405 -----------------------GGDKGVVVDNVKPGTPAAQIGLKKGDVIIGANQQPVKNIAELRKILDSKP-SVLALN 460 (473)
T ss_pred -----------------------cCCCCeEEEEeCCCChHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhCC-CeEEEE
Confidence 01135899999999888888888999999999999999999999999855 789999
Q ss_pred EEcCeEEEE
Q 036586 532 LEYQQIVVL 540 (568)
Q Consensus 532 v~R~~~~~l 540 (568)
+.|++..++
T Consensus 461 V~R~g~~~~ 469 (473)
T PRK10942 461 IQRGDSSIY 469 (473)
T ss_pred EEECCEEEE
Confidence 999987543
No 4
>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=100.00 E-value=1.8e-45 Score=387.20 Aligned_cols=284 Identities=21% Similarity=0.363 Sum_probs=245.7
Q ss_pred CCCcHHHHHHHhCCCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEe-CCEEEEcccccCCCCeEEEEEcCCCcEE
Q 036586 108 LPPRWESVAVKAVPSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVG-GRRVLTNAHSVEHHTQVKVKKRGSDTKY 186 (568)
Q Consensus 108 ~~~~~~~~~~~v~p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~G~ILTn~HVV~~~~~i~V~~~~dg~~~ 186 (568)
.+.+++++++++.| |||.|+........ + ......+.||||||+ +||||||+|||.++..+.|++ .||+.+
T Consensus 43 ~~~~~~~~~~~~~p---sVV~I~~~~~~~~~---~-~~~~~~~~GSG~vi~~~G~IlTn~HVV~~~~~i~V~~-~dg~~~ 114 (351)
T TIGR02038 43 VEISFNKAVRRAAP---AVVNIYNRSISQNS---L-NQLSIQGLGSGVIMSKEGYILTNYHVIKKADQIVVAL-QDGRKF 114 (351)
T ss_pred cchhHHHHHHhcCC---cEEEEEeEeccccc---c-ccccccceEEEEEEeCCeEEEecccEeCCCCEEEEEE-CCCCEE
Confidence 34589999999999 99999987654321 1 122345789999998 899999999999999999999 599999
Q ss_pred EEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEEeeeecccc---------
Q 036586 187 LATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVVSRMEILSY--------- 255 (568)
Q Consensus 187 ~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~~~--------- 255 (568)
+|+++++|+.+||||||++.. .+++++|+++. ++|++|+++|||+++.. +++.|+||.+.+..+
T Consensus 115 ~a~vv~~d~~~DlAvlkv~~~----~~~~~~l~~s~~~~~G~~V~aiG~P~~~~~-s~t~GiIs~~~r~~~~~~~~~~~i 189 (351)
T TIGR02038 115 EAELVGSDPLTDLAVLKIEGD----NLPTIPVNLDRPPHVGDVVLAIGNPYNLGQ-TITQGIISATGRNGLSSVGRQNFI 189 (351)
T ss_pred EEEEEEecCCCCEEEEEecCC----CCceEeccCcCccCCCCEEEEEeCCCCCCC-cEEEEEEEeccCcccCCCCcceEE
Confidence 999999999999999999976 57888998654 77899999999999776 899999998754321
Q ss_pred ------cCC--CceeecccceEEEEEeeeecCC---CCccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcCCHH
Q 036586 256 ------VHG--STELLGLQGKCVGIAFQSLKND---DVENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKMENPD 324 (568)
Q Consensus 256 ------~~g--gspL~n~~G~VVGI~~~~~~~~---~~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~ 324 (568)
++| ||||+|.+|+||||+++.+... ...+++||||++.+++++++|+++|++. |+|||+.++.+ ++.
T Consensus 190 qtda~i~~GnSGGpl~n~~G~vIGI~~~~~~~~~~~~~~g~~faIP~~~~~~vl~~l~~~g~~~-r~~lGv~~~~~-~~~ 267 (351)
T TIGR02038 190 QTDAAINAGNSGGALINTNGELVGINTASFQKGGDEGGEGINFAIPIKLAHKIMGKIIRDGRVI-RGYIGVSGEDI-NSV 267 (351)
T ss_pred EECCccCCCCCcceEECCCCeEEEEEeeeecccCCCCccceEEEecHHHHHHHHHHHhhcCccc-ceEeeeEEEEC-CHH
Confidence 134 4599999999999999876432 2368899999999999999999999998 99999999999 899
Q ss_pred HHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEEC
Q 036586 325 LRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRN 403 (568)
Q Consensus 325 ~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~ 403 (568)
.++.+|++. ..|++|..|.++|||++ ||++||+|++|||++|.++.+ |...+.....|+.+.++|+|+
T Consensus 268 ~~~~lgl~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~d----------l~~~l~~~~~g~~v~l~v~R~ 336 (351)
T TIGR02038 268 VAQGLGLPD-LRGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGAEE----------LMDRIAETRPGSKVMVTVLRQ 336 (351)
T ss_pred HHHhcCCCc-cccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCHHH----------HHHHHHhcCCCCEEEEEEEEC
Confidence 999999986 57999999999999999 999999999999999999988 667777767899999999999
Q ss_pred CEEEEEEEEeccCC
Q 036586 404 SEVHEFNIKLSTHK 417 (568)
Q Consensus 404 g~~~~v~v~l~~~~ 417 (568)
|+.+++.+++..++
T Consensus 337 g~~~~~~v~l~~~p 350 (351)
T TIGR02038 337 GKQLELPVTIDEKP 350 (351)
T ss_pred CEEEEEEEEecCCC
Confidence 99999999987653
No 5
>PRK10898 serine endoprotease; Provisional
Probab=100.00 E-value=1.4e-44 Score=380.23 Aligned_cols=283 Identities=19% Similarity=0.340 Sum_probs=243.8
Q ss_pred CCcHHHHHHHhCCCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEe-CCEEEEcccccCCCCeEEEEEcCCCcEEE
Q 036586 109 PPRWESVAVKAVPSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVG-GRRVLTNAHSVEHHTQVKVKKRGSDTKYL 187 (568)
Q Consensus 109 ~~~~~~~~~~v~p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~G~ILTn~HVV~~~~~i~V~~~~dg~~~~ 187 (568)
+.+++++++++.| |||.|......... .......+.||||||+ +||||||+|||.++..+.|++ .||+.++
T Consensus 44 ~~~~~~~~~~~~p---svV~v~~~~~~~~~----~~~~~~~~~GSGfvi~~~G~IlTn~HVv~~a~~i~V~~-~dg~~~~ 115 (353)
T PRK10898 44 PASYNQAVRRAAP---AVVNVYNRSLNSTS----HNQLEIRTLGSGVIMDQRGYILTNKHVINDADQIIVAL-QDGRVFE 115 (353)
T ss_pred cchHHHHHHHhCC---cEEEEEeEeccccC----cccccccceeeEEEEeCCeEEEecccEeCCCCEEEEEe-CCCCEEE
Confidence 3579999999999 99999987643321 1123445789999999 899999999999999999999 5999999
Q ss_pred EEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEEeeeeccc-----------
Q 036586 188 ATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVVSRMEILS----------- 254 (568)
Q Consensus 188 a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~~----------- 254 (568)
|+++++|+.+||||||++.. .+++++|+++. ++|++|+++|||+++.. +++.|+|++.++..
T Consensus 116 a~vv~~d~~~DlAvl~v~~~----~l~~~~l~~~~~~~~G~~V~aiG~P~g~~~-~~t~Giis~~~r~~~~~~~~~~~iq 190 (353)
T PRK10898 116 ALLVGSDSLTDLAVLKINAT----NLPVIPINPKRVPHIGDVVLAIGNPYNLGQ-TITQGIISATGRIGLSPTGRQNFLQ 190 (353)
T ss_pred EEEEEEcCCCCEEEEEEcCC----CCCeeeccCcCcCCCCCEEEEEeCCCCcCC-CcceeEEEeccccccCCccccceEE
Confidence 99999999999999999875 57889998754 67899999999999776 89999999765431
Q ss_pred ----ccCC--CceeecccceEEEEEeeeecCCC----CccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcCCHH
Q 036586 255 ----YVHG--STELLGLQGKCVGIAFQSLKNDD----VENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKMENPD 324 (568)
Q Consensus 255 ----~~~g--gspL~n~~G~VVGI~~~~~~~~~----~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~ 324 (568)
.++| ||||+|.+|+||||+++.+...+ ..+++||||++.+++++++|+++|++. ++|||+..+.+ ++.
T Consensus 191 tda~i~~GnSGGPl~n~~G~vvGI~~~~~~~~~~~~~~~g~~faIP~~~~~~~~~~l~~~G~~~-~~~lGi~~~~~-~~~ 268 (353)
T PRK10898 191 TDASINHGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPTQLATKIMDKLIRDGRVI-RGYIGIGGREI-APL 268 (353)
T ss_pred eccccCCCCCcceEECCCCeEEEEEEEEecccCCCCcccceEEEEchHHHHHHHHHHhhcCccc-ccccceEEEEC-CHH
Confidence 1234 45999999999999998775332 268999999999999999999999998 99999999999 788
Q ss_pred HHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEEC
Q 036586 325 LRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRN 403 (568)
Q Consensus 325 ~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~ 403 (568)
.+..++++. ..|++|.+|.++|||++ ||++||+|++|||++|.++.+ +.+.+.....|+.+.|+|+|+
T Consensus 269 ~~~~~~~~~-~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~~~----------l~~~l~~~~~g~~v~l~v~R~ 337 (353)
T PRK10898 269 HAQGGGIDQ-LQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISALE----------TMDQVAEIRPGSVIPVVVMRD 337 (353)
T ss_pred HHHhcCCCC-CCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHHhcCCCCEEEEEEEEC
Confidence 888888876 57999999999999999 999999999999999999887 566777767899999999999
Q ss_pred CEEEEEEEEeccCC
Q 036586 404 SEVHEFNIKLSTHK 417 (568)
Q Consensus 404 g~~~~v~v~l~~~~ 417 (568)
|+.+++.+++..++
T Consensus 338 g~~~~~~v~l~~~p 351 (353)
T PRK10898 338 DKQLTLQVTIQEYP 351 (353)
T ss_pred CEEEEEEEEeccCC
Confidence 99999999987664
No 6
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=100.00 E-value=2.2e-37 Score=328.53 Aligned_cols=365 Identities=16% Similarity=0.243 Sum_probs=303.6
Q ss_pred CcHHHHHHHhCCCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEe--CCEEEEcccccCCCCe-EEEEEcCCCcEE
Q 036586 110 PRWESVAVKAVPSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVG--GRRVLTNAHSVEHHTQ-VKVKKRGSDTKY 186 (568)
Q Consensus 110 ~~~~~~~~~v~p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~--~G~ILTn~HVV~~~~~-i~V~~~~dg~~~ 186 (568)
.+|...+..|.+ |||.|++.....++. .....+.|+|||++ .||||||+|||..... -.+.+ .+..++
T Consensus 52 e~w~~~ia~Vvk---svVsI~~S~v~~fdt-----esag~~~atgfvvd~~~gyiLtnrhvv~pgP~va~avf-~n~ee~ 122 (955)
T KOG1421|consen 52 EDWRNTIANVVK---SVVSIRFSAVRAFDT-----ESAGESEATGFVVDKKLGYILTNRHVVAPGPFVASAVF-DNHEEI 122 (955)
T ss_pred hhhhhhhhhhcc---cEEEEEehheeeccc-----ccccccceeEEEEecccceEEEeccccCCCCceeEEEe-cccccC
Confidence 389999999999 999999988766543 34667899999999 7999999999987654 45556 688889
Q ss_pred EEEEEEEeCCCCeEEEEeccCcc-ccCccceecCC-CcccCCeEEEEecCCCCCCceEEEEEEeeeeccccc--------
Q 036586 187 LATVLSIGTECDIALLTVKDDEF-WEGVSPVEFGD-LPALQDAVTVVGYPIGGDTISVTSGVVSRMEILSYV-------- 256 (568)
Q Consensus 187 ~a~vv~~d~~~DlAlLkv~~~~~-~~~l~~~~l~~-~~~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~~~~-------- 256 (568)
+...++.||.||+.++++++..+ +..+..+.|+. ..++|.+++++||..|. .+++..|.+|++++....
T Consensus 123 ei~pvyrDpVhdfGf~r~dps~ir~s~vt~i~lap~~akvgseirvvgNDagE-klsIlagflSrldr~apdyg~~~ynd 201 (955)
T KOG1421|consen 123 EIYPVYRDPVHDFGFFRYDPSTIRFSIVTEICLAPELAKVGSEIRVVGNDAGE-KLSILAGFLSRLDRNAPDYGEDTYND 201 (955)
T ss_pred CcccccCCchhhcceeecChhhcceeeeeccccCccccccCCceEEecCCccc-eEEeehhhhhhccCCCcccccccccc
Confidence 99999999999999999998754 23455566664 56889999999999984 459999999999775321
Q ss_pred ---------------CCCceeecccceEEEEEeeeecCCCCccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcC
Q 036586 257 ---------------HGSTELLGLQGKCVGIAFQSLKNDDVENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKME 321 (568)
Q Consensus 257 ---------------~ggspL~n~~G~VVGI~~~~~~~~~~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~ 321 (568)
.+|||++|..|..|.++..+. .....+|++|++.+.+.|.+++.+..+. |+.|.++|...
T Consensus 202 fnTfy~QaasstsggssgspVv~i~gyAVAl~agg~---~ssas~ffLpLdrV~RaL~clq~n~PIt-RGtLqvefl~k- 276 (955)
T KOG1421|consen 202 FNTFYIQAASSTSGGSSGSPVVDIPGYAVALNAGGS---ISSASDFFLPLDRVVRALRCLQNNTPIT-RGTLQVEFLHK- 276 (955)
T ss_pred ccceeeeehhcCCCCCCCCceecccceEEeeecCCc---ccccccceeeccchhhhhhhhhcCCCcc-cceEEEEEehh-
Confidence 133499999999999998855 3456789999999999999999888888 99999999888
Q ss_pred CHHHHHhcCCCC-----------CCCceEE-EEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 322 NPDLRISMGMRP-----------GQKGVRI-RRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 322 ~~~~~~~lgl~~-----------~~~Gv~V-~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
..+.+++|||+. ...|++| ..|.++||+++.|++||++++||+.-+.++.. +..++..
T Consensus 277 ~~de~rrlGL~sE~eqv~r~k~P~~tgmLvV~~vL~~gpa~k~Le~GDillavN~t~l~df~~----------l~~iLDe 346 (955)
T KOG1421|consen 277 LFDECRRLGLSSEWEQVVRTKFPERTGMLVVETVLPEGPAEKKLEPGDILLAVNSTCLNDFEA----------LEQILDE 346 (955)
T ss_pred hhHHHHhcCCcHHHHHHHHhcCcccceeEEEEEeccCCchhhccCCCcEEEEEcceehHHHHH----------HHHHHhh
Confidence 899999999985 2556655 56999999999999999999999999888776 5566655
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHh
Q 036586 390 KYTGDSAVVKVLRNSEVHEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLH 469 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~ 469 (568)
. .|+.+.|+|+|+|++.++++++..++...|.|+ +.|+|.+||+++ +++++.|.++.
T Consensus 347 g-vgk~l~LtI~Rggqelel~vtvqdlh~itp~R~-------levcGav~hdls-yq~ar~y~lP~-------------- 403 (955)
T KOG1421|consen 347 G-VGKNLELTIQRGGQELELTVTVQDLHGITPDRF-------LEVCGAVFHDLS-YQLARLYALPV-------------- 403 (955)
T ss_pred c-cCceEEEEEEeCCEEEEEEEEeccccCCCCceE-------EEEcceEecCCC-HHHHhhccccc--------------
Confidence 4 899999999999999999999999988777655 559999999999 55665777543
Q ss_pred hhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCC-eEEEEE
Q 036586 470 AMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDE-FLKFDL 532 (568)
Q Consensus 470 ~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~-~v~l~v 532 (568)
+||+|+... ++++..++.+ +.+|.+||++++++++.|++++++.+++ .+.+.+
T Consensus 404 --------~GvyVa~~~-gsf~~~~~~y-~~ii~~vanK~tPdLdaFidvlk~L~dg~rV~vry 457 (955)
T KOG1421|consen 404 --------EGVYVASPG-GSFRHRGPRY-GQIIDSVANKPTPDLDAFIDVLKELPDGARVPVRY 457 (955)
T ss_pred --------CcEEEccCC-CCccccCCcc-eEEEEeecCCcCCCHHHHHHHHHhccCCCeeeEEE
Confidence 379998766 7778888865 9999999999999999999999998765 555544
No 7
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.1e-34 Score=300.68 Aligned_cols=284 Identities=24% Similarity=0.391 Sum_probs=243.2
Q ss_pred CcHHHHHHHhCCCCCceEEEEeEeecCC-CCCccccc-CCCcceEEEEEEe-CCEEEEcccccCCCCeEEEEEcCCCcEE
Q 036586 110 PRWESVAVKAVPSMDAVVKVFCVHTEPN-FSLPWQRK-RQYSSSSSGFIVG-GRRVLTNAHSVEHHTQVKVKKRGSDTKY 186 (568)
Q Consensus 110 ~~~~~~~~~v~p~~~sVV~I~~~~~~~~-~~~p~~~~-~~~~~~GSGfiI~-~G~ILTn~HVV~~~~~i~V~~~~dg~~~ 186 (568)
.++..+++++.| +||.|........ ..++.... ....+.||||+++ +|||+||.|||.++..+.|.+ .||+++
T Consensus 33 ~~~~~~~~~~~~---~vV~~~~~~~~~~~~~~~~~~~~~~~~~~gSg~i~~~~g~ivTn~hVi~~a~~i~v~l-~dg~~~ 108 (347)
T COG0265 33 LSFATAVEKVAP---AVVSIATGLTAKLRSFFPSDPPLRSAEGLGSGFIISSDGYIVTNNHVIAGAEEITVTL-ADGREV 108 (347)
T ss_pred cCHHHHHHhcCC---cEEEEEeeeeecchhcccCCcccccccccccEEEEcCCeEEEecceecCCcceEEEEe-CCCCEE
Confidence 689999999999 9999998765432 00000000 0114889999999 999999999999999999999 699999
Q ss_pred EEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEEeeeeccc----------
Q 036586 187 LATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVVSRMEILS---------- 254 (568)
Q Consensus 187 ~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~~---------- 254 (568)
+|++++.|+..|||+|+++... .++.+.|+++. .+|++++++|+|+|+.. +++.|+|+.+.+..
T Consensus 109 ~a~~vg~d~~~dlavlki~~~~---~~~~~~~~~s~~l~vg~~v~aiGnp~g~~~-tvt~Givs~~~r~~v~~~~~~~~~ 184 (347)
T COG0265 109 PAKLVGKDPISDLAVLKIDGAG---GLPVIALGDSDKLRVGDVVVAIGNPFGLGQ-TVTSGIVSALGRTGVGSAGGYVNF 184 (347)
T ss_pred EEEEEecCCccCEEEEEeccCC---CCceeeccCCCCcccCCEEEEecCCCCccc-ceeccEEeccccccccCcccccch
Confidence 9999999999999999999874 37888999876 45699999999999766 99999999987741
Q ss_pred ------ccCC--CceeecccceEEEEEeeeecCCC-CccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcCCHHH
Q 036586 255 ------YVHG--STELLGLQGKCVGIAFQSLKNDD-VENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKMENPDL 325 (568)
Q Consensus 255 ------~~~g--gspL~n~~G~VVGI~~~~~~~~~-~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~ 325 (568)
.++| |||++|.+|++|||+++.+...+ ..+++||||++.+..++.++...|++. ++|+|+.+..+ +...
T Consensus 185 IqtdAain~gnsGgpl~n~~g~~iGint~~~~~~~~~~gigfaiP~~~~~~v~~~l~~~G~v~-~~~lgv~~~~~-~~~~ 262 (347)
T COG0265 185 IQTDAAINPGNSGGPLVNIDGEVVGINTAIIAPSGGSSGIGFAIPVNLVAPVLDELISKGKVV-RGYLGVIGEPL-TADI 262 (347)
T ss_pred hhcccccCCCCCCCceEcCCCcEEEEEEEEecCCCCcceeEEEecHHHHHHHHHHHHHcCCcc-ccccceEEEEc-cccc
Confidence 1134 45999999999999999887554 467999999999999999999878888 99999999998 7777
Q ss_pred HHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECC
Q 036586 326 RISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNS 404 (568)
Q Consensus 326 ~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g 404 (568)
+ +|++. ..|++|..|.+++||++ |++.||+|+++||+++.+..+ +...+.....|+.+.+++.|+|
T Consensus 263 ~--~g~~~-~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~----------l~~~v~~~~~g~~v~~~~~r~g 329 (347)
T COG0265 263 A--LGLPV-AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSD----------LVAAVASNRPGDEVALKLLRGG 329 (347)
T ss_pred c--cCCCC-CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHH----------HHHHHhccCCCCEEEEEEEECC
Confidence 6 88875 78999999999999999 999999999999999999887 5677777779999999999999
Q ss_pred EEEEEEEEeccC
Q 036586 405 EVHEFNIKLSTH 416 (568)
Q Consensus 405 ~~~~v~v~l~~~ 416 (568)
+.+++.+++..+
T Consensus 330 ~~~~~~v~l~~~ 341 (347)
T COG0265 330 KERELAVTLGDR 341 (347)
T ss_pred EEEEEEEEecCc
Confidence 999999999863
No 8
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1e-33 Score=299.54 Aligned_cols=395 Identities=43% Similarity=0.629 Sum_probs=346.9
Q ss_pred CCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEeCCEEEEcccccC---CCCeEEEEEcCCCcEEEEEEEEEeCCC
Q 036586 121 PSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVGGRRVLTNAHSVE---HHTQVKVKKRGSDTKYLATVLSIGTEC 197 (568)
Q Consensus 121 p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~~G~ILTn~HVV~---~~~~i~V~~~~dg~~~~a~vv~~d~~~ 197 (568)
++.+|++.+.+....+.+..||++..+..+.||||.+....++||+|++. +...+.|..++.-+.|.|++...-.++
T Consensus 58 ~~~~s~~~v~~~~~~~~~~~pw~~~~q~~~~~s~f~i~~~~lltn~~~v~~~~~~~~v~v~~~gs~~k~~~~v~~~~~~c 137 (473)
T KOG1320|consen 58 LALQSVVKVFSVSTEPSSVLPWQRTRQFSSGGSGFAIYGKKLLTNAHVVAPNNDHKFVTVKKHGSPRKYKAFVAAVFEEC 137 (473)
T ss_pred ccccceeEEEeecccccccCcceeeehhcccccchhhcccceeecCccccccccccccccccCCCchhhhhhHHHhhhcc
Confidence 33559999999999999999999988889999999999999999999999 666777766567788999999999999
Q ss_pred CeEEEEeccCccccCccceecCCCcccCCeEEEEecCCCCCCceEEEEEEeeeecccccC----------------CCc-
Q 036586 198 DIALLTVKDDEFWEGVSPVEFGDLPALQDAVTVVGYPIGGDTISVTSGVVSRMEILSYVH----------------GST- 260 (568)
Q Consensus 198 DlAlLkv~~~~~~~~l~~~~l~~~~~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~~~~~----------------ggs- 260 (568)
|+|+|.++..+||+.+.|+++++.+.+.+.++++| | +.+.+|.|+|++.....|.+ |++
T Consensus 138 d~Avv~Ie~~~f~~~~~~~e~~~ip~l~~S~~Vv~---g-d~i~VTnghV~~~~~~~y~~~~~~l~~vqi~aa~~~~~s~ 213 (473)
T KOG1320|consen 138 DLAVVYIESEEFWKGMNPFELGDIPSLNGSGFVVG---G-DGIIVTNGHVVRVEPRIYAHSSTVLLRVQIDAAIGPGNSG 213 (473)
T ss_pred cceEEEEeeccccCCCcccccCCCcccCccEEEEc---C-CcEEEEeeEEEEEEeccccCCCcceeeEEEEEeecCCccC
Confidence 99999999999999999999999999999999999 4 56699999999987665542 343
Q ss_pred -eeecccceEEEEEeeeecCCCCccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcCCHHHHHhcCCCCCCCceE
Q 036586 261 -ELLGLQGKCVGIAFQSLKNDDVENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKMENPDLRISMGMRPGQKGVR 339 (568)
Q Consensus 261 -pL~n~~G~VVGI~~~~~~~~~~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~ 339 (568)
|.+.-.+++.|+++..+...+ ++.+.||.-.+.+|.......+.+.++++++...+-+.+..+++.+.|..+ .|+.
T Consensus 214 ep~i~g~d~~~gvA~l~ik~~~--~i~~~i~~~~~~~~~~G~~~~a~~~~f~~~nt~t~g~vs~~~R~~~~lg~~-~g~~ 290 (473)
T KOG1320|consen 214 EPVIVGVDKVAGVAFLKIKTPE--NILYVIPLGVSSHFRTGVEVSAIGNGFGLLNTLTQGMVSGQLRKSFKLGLE-TGVL 290 (473)
T ss_pred CCeEEccccccceEEEEEecCC--cccceeecceeeeecccceeeccccCceeeeeeeecccccccccccccCcc-ccee
Confidence 888888999999999875323 889999999999999998888888889999999999988999999999886 8999
Q ss_pred EEEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccCCCc
Q 036586 340 IRRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTHKRL 419 (568)
Q Consensus 340 V~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~ 419 (568)
+.++.+.+.|.+-++.||+|+.+||..|. +.++...|+.|.+.+....+++++.+.|.|.+ ++++.+.....+
T Consensus 291 i~~~~qtd~ai~~~nsg~~ll~~DG~~Ig----Vn~~~~~ri~~~~~iSf~~p~d~vl~~v~r~~---e~~~~lr~~~~~ 363 (473)
T KOG1320|consen 291 ISKINQTDAAINPGNSGGPLLNLDGEVIG----VNTRKVTRIGFSHGISFKIPIDTVLVIVLRLG---EFQISLRPVKPL 363 (473)
T ss_pred eeeecccchhhhcccCCCcEEEecCcEee----eeeeeeEEeeccccceeccCchHhhhhhhhhh---hhceeeccccCc
Confidence 99999999888899999999999999996 44555677888899999999999999999998 677778888888
Q ss_pred cccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccC
Q 036586 420 IPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVN 499 (568)
Q Consensus 420 ~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~g 499 (568)
.|.+.....|.|+++.||+|+++..++.. ++...++|++++|.+++.+.+|+++.|
T Consensus 364 ~p~~~~~g~~s~~i~~g~vf~~~~~~~~~------------------------~~~~~q~v~is~Vlp~~~~~~~~~~~g 419 (473)
T KOG1320|consen 364 VPVHQYIGLPSYYIFAGLVFVPLTKSYIF------------------------PSGVVQLVLVSQVLPGSINGGYGLKPG 419 (473)
T ss_pred ccccccCCceeEEEecceEEeecCCCccc------------------------cccceeEEEEEEeccCCCcccccccCC
Confidence 88888999999999999999998854333 112236899999999999999999999
Q ss_pred cEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEEEEeccchHhHhHhHHHhcCCCCC
Q 036586 500 TQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIVVLKSKTAKEATSDILATHCIPSA 561 (568)
Q Consensus 500 d~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~~l~~~~~~~~~~~i~~~~~i~~~ 561 (568)
|+|.+|||++|+++.++.++|+.+..+ +.-.+|+...+|.++..|+.+|+||++
T Consensus 420 ~~V~~vng~~V~n~~~l~~~i~~~~~~--------~~v~vl~~~~~e~~tl~Il~~~~~p~~ 473 (473)
T KOG1320|consen 420 DQVVKVNGKPVKNLKHLYELIEECSTE--------DKVAVLDRRSAEDATLEILPEHKIPSA 473 (473)
T ss_pred CEEEEECCEEeechHHHHHHHHhcCcC--------ceEEEEEecCccceeEEecccccCCCC
Confidence 999999999999999999999998766 777899999999999999999999974
No 9
>KOG1421 consensus Predicted signaling-associated protein (contains a PDZ domain) [General function prediction only]
Probab=99.95 E-value=1.6e-25 Score=238.72 Aligned_cols=382 Identities=14% Similarity=0.118 Sum_probs=285.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCcHHHHHHHhCCCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEe--CCEEE
Q 036586 86 SNVGHVASPERSRHGEGNDITILPPRWESVAVKAVPSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVG--GRRVL 163 (568)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~--~G~IL 163 (568)
.++++|.|..+..|...+.+.....++. .+.... +.|.|.+..+...++.. .....|||.|++ .|++|
T Consensus 496 k~L~~pqPa~~~kP~s~~ip~i~~~~~~--~~~i~~---~~~~v~~~~~~~l~g~s-----~~i~kgt~~i~d~~~g~~v 565 (955)
T KOG1421|consen 496 KNLKDPQPAISIKPASVSIPSIGVNNFP--SADISN---CLVDVEPMMPVNLDGVS-----SDIYKGTALIMDTSKGLGV 565 (955)
T ss_pred cccCCCCcccccCCccccCCCcCcCCcc--hhHHhh---hhhhheeceeeccccch-----hhhhcCceEEEEccCCcee
Confidence 3455666655555555554555555553 455666 88888888876655433 233679999998 89999
Q ss_pred EcccccC-CCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc-ccCCeEEEEecCCCCCC--
Q 036586 164 TNAHSVE-HHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP-ALQDAVTVVGYPIGGDT-- 239 (568)
Q Consensus 164 Tn~HVV~-~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~-~~g~~V~aiG~P~g~~~-- 239 (568)
+++.+|. ++.+.+|++ +|...++|.+.+.|+..++|.+++++.. .-.++|.+.. ..|+++.++|+...+..
T Consensus 566 vsr~~vp~d~~d~~vt~-~dS~~i~a~~~fL~~t~n~a~~kydp~~----~~~~kl~~~~v~~gD~~~f~g~~~~~r~lt 640 (955)
T KOG1421|consen 566 VSRSVVPSDAKDQRVTE-ADSDGIPANVSFLHPTENVASFKYDPAL----EVQLKLTDTTVLRGDECTFEGFTEDLRALT 640 (955)
T ss_pred EecccCCchhhceEEee-cccccccceeeEecCccceeEeccChhH----hhhhccceeeEecCCceeEecccccchhhc
Confidence 9999998 678999999 6899999999999999999999999873 3456666544 56799999998866442
Q ss_pred --ceEEEEEEeeeecc-------------cc-----cCCC-ceeecccceEEEEEeeeecCC-C--Cccccccccchhhh
Q 036586 240 --ISVTSGVVSRMEIL-------------SY-----VHGS-TELLGLQGKCVGIAFQSLKND-D--VENIGYVIPTPVII 295 (568)
Q Consensus 240 --~svt~GiIs~~~~~-------------~~-----~~gg-spL~n~~G~VVGI~~~~~~~~-~--~~~~~~aIP~~~i~ 295 (568)
.+++.-.+-.+.+. .+ ..++ |-|.|.+|+|+|+|...++.. + ...+-|++.+..++
T Consensus 641 aktsv~dvs~~~~ps~~~pr~r~~n~e~Is~~~nlsT~c~sg~ltdddg~vvalwl~~~ge~~~~kd~~y~~gl~~~~~l 720 (955)
T KOG1421|consen 641 AKTSVTDVSVVIIPSSVMPRFRATNLEVISFMDNLSTSCLSGRLTDDDGEVVALWLSVVGEDVGGKDYTYKYGLSMSYIL 720 (955)
T ss_pred ccceeeeeEEEEecCCCCcceeecceEEEEEeccccccccceEEECCCCeEEEEEeeeeccccCCceeEEEeccchHHHH
Confidence 12222211111100 01 1233 489999999999999887653 2 23456788999999
Q ss_pred HhHHHhhhcCccccCceeeEEEEEcCCHHHHHhcCCCC------------CCCceEEEEecCCCcccCCCCCCCEEEEEC
Q 036586 296 HFIQDYEKNGAYTGFPILGVEWQKMENPDLRISMGMRP------------GQKGVRIRRIEPTAPESHVLKPSDIILSFD 363 (568)
Q Consensus 296 ~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~~~~lgl~~------------~~~Gv~V~~V~p~spA~~GL~~GDiIl~In 363 (568)
.+|+.|+.++... ...+|++|..+ +-..++.+||+. +.+-.+|+.|.+.-+ +-|..||+|+++|
T Consensus 721 ~vl~rlk~g~~~r-p~i~~vef~~i-~laqar~lglp~e~imk~e~es~~~~ql~~ishv~~~~~--kil~~gdiilsvn 796 (955)
T KOG1421|consen 721 PVLERLKLGPSAR-PTIAGVEFSHI-TLAQARTLGLPSEFIMKSEEESTIPRQLYVISHVRPLLH--KILGVGDIILSVN 796 (955)
T ss_pred HHHHHHhcCCCCC-ceeeccceeeE-EeehhhccCCCHHHHhhhhhcCCCcceEEEEEeeccCcc--cccccccEEEEec
Confidence 9999999888876 56789999999 889999999995 234577888987654 3599999999999
Q ss_pred CEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccCCCccccccCCCCCCceeeecEEEeeCC
Q 036586 364 GIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVT 443 (568)
Q Consensus 364 G~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~ 443 (568)
|+.|+...|+ .+. ..+.+.|+|+|..+++++++-... ...+..+|+|.++|+.+
T Consensus 797 gk~itr~~dl----------~d~-------~eid~~ilrdg~~~~ikipt~p~~---------et~r~vi~~gailq~ph 850 (955)
T KOG1421|consen 797 GKMITRLSDL----------HDF-------EEIDAVILRDGIEMEIKIPTYPEY---------ETSRAVIWMGAILQPPH 850 (955)
T ss_pred CeEEeeehhh----------hhh-------hhhheeeeecCcEEEEEecccccc---------ccceEEEEEeccccCch
Confidence 9999998883 331 267899999999999998875432 23356789999999999
Q ss_pred hHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHcc
Q 036586 444 APYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESS 523 (568)
Q Consensus 444 ~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~ 523 (568)
.. +.++.- +-++||+|.....++++.+ .+....+|++|||..+.++++|.+++++.
T Consensus 851 ~a-v~~q~e----------------------dlp~gvyvt~rg~gspalq-~l~aa~fitavng~~t~~lddf~~~~~~i 906 (955)
T KOG1421|consen 851 SA-VFEQVE----------------------DLPEGVYVTSRGYGSPALQ-MLRAAHFITAVNGHDTNTLDDFYHMLLEI 906 (955)
T ss_pred HH-HHHHHh----------------------ccCCceEEeecccCChhHh-hcchheeEEEecccccCcHHHHHHHHhhC
Confidence 44 443433 2347899999999888877 56678899999999999999999999999
Q ss_pred CCC-eEEEEEE-cCe
Q 036586 524 EDE-FLKFDLE-YQQ 536 (568)
Q Consensus 524 ~~~-~v~l~v~-R~~ 536 (568)
+++ |++++.. +++
T Consensus 907 pdnsyv~v~~mtfd~ 921 (955)
T KOG1421|consen 907 PDNSYVQVKQMTFDG 921 (955)
T ss_pred CCCceEEEEEeccCC
Confidence 877 8888764 444
No 10
>KOG1320 consensus Serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=4.9e-22 Score=210.96 Aligned_cols=286 Identities=19% Similarity=0.198 Sum_probs=213.8
Q ss_pred CcHHHHHHHhCCCCCceEEEEeEeecCCCCCcccccCCCcceEEEEEEe-CCEEEEcccccCCCC-----------eEEE
Q 036586 110 PRWESVAVKAVPSMDAVVKVFCVHTEPNFSLPWQRKRQYSSSSSGFIVG-GRRVLTNAHSVEHHT-----------QVKV 177 (568)
Q Consensus 110 ~~~~~~~~~v~p~~~sVV~I~~~~~~~~~~~p~~~~~~~~~~GSGfiI~-~G~ILTn~HVV~~~~-----------~i~V 177 (568)
...+++.++-.+ |+|.|....--. ...|+....-....||||||+ +|+||||+||+.... .+.|
T Consensus 128 ~~v~~~~~~cd~---Avv~Ie~~~f~~-~~~~~e~~~ip~l~~S~~Vv~gd~i~VTnghV~~~~~~~y~~~~~~l~~vqi 203 (473)
T KOG1320|consen 128 AFVAAVFEECDL---AVVYIESEEFWK-GMNPFELGDIPSLNGSGFVVGGDGIIVTNGHVVRVEPRIYAHSSTVLLRVQI 203 (473)
T ss_pred hhHHHhhhcccc---eEEEEeeccccC-CCcccccCCCcccCccEEEEcCCcEEEEeeEEEEEEeccccCCCcceeeEEE
Confidence 344566777777 899998744211 111333334556789999999 999999999998432 3667
Q ss_pred EEcCCC--cEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc--ccCCeEEEEecCCCCCCceEEEEEEeeeecc
Q 036586 178 KKRGSD--TKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP--ALQDAVTVVGYPIGGDTISVTSGVVSRMEIL 253 (568)
Q Consensus 178 ~~~~dg--~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~--~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~ 253 (568)
.. +++ ..+.+.+++.|+..|+|+++++... .-+++++++-+. ..|+++.++|+|+++.+ +++.|+++...|.
T Consensus 204 ~a-a~~~~~s~ep~i~g~d~~~gvA~l~ik~~~--~i~~~i~~~~~~~~~~G~~~~a~~~~f~~~n-t~t~g~vs~~~R~ 279 (473)
T KOG1320|consen 204 DA-AIGPGNSGEPVIVGVDKVAGVAFLKIKTPE--NILYVIPLGVSSHFRTGVEVSAIGNGFGLLN-TLTQGMVSGQLRK 279 (473)
T ss_pred EE-eecCCccCCCeEEccccccceEEEEEecCC--cccceeecceeeeecccceeeccccCceeee-eeeeccccccccc
Confidence 76 455 8899999999999999999997553 247888888766 45799999999999988 8999999887554
Q ss_pred ccc--------------------C--CCceeecccceEEEEEeeeecCC-CCccccccccchhhhHhHHHhhhcC---cc
Q 036586 254 SYV--------------------H--GSTELLGLQGKCVGIAFQSLKND-DVENIGYVIPTPVIIHFIQDYEKNG---AY 307 (568)
Q Consensus 254 ~~~--------------------~--ggspL~n~~G~VVGI~~~~~~~~-~~~~~~~aIP~~~i~~~l~~l~~~g---~~ 307 (568)
.+. . .++||+|.+|++||++++...+. -..+++|++|.+.+..++.+..+.. +.
T Consensus 280 ~~~lg~~~g~~i~~~~qtd~ai~~~nsg~~ll~~DG~~IgVn~~~~~ri~~~~~iSf~~p~d~vl~~v~r~~e~~~~lr~ 359 (473)
T KOG1320|consen 280 SFKLGLETGVLISKINQTDAAINPGNSGGPLLNLDGEVIGVNTRKVTRIGFSHGISFKIPIDTVLVIVLRLGEFQISLRP 359 (473)
T ss_pred ccccCcccceeeeeecccchhhhcccCCCcEEEecCcEeeeeeeeeEEeeccccceeccCchHhhhhhhhhhhhceeecc
Confidence 332 2 34599999999999999866432 2478899999999998888873222 11
Q ss_pred c-----cCceeeEEEEEcCCHHH-----HHhcCCCC-CCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCcc
Q 036586 308 T-----GFPILGVEWQKMENPDL-----RISMGMRP-GQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPF 375 (568)
Q Consensus 308 ~-----~~~~lGi~~~~~~~~~~-----~~~lgl~~-~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~ 375 (568)
. .+.|+|+....+ ...+ .+.+-.+. ..++++|.+|.|++++.. ++++||+|++|||++|.+..+
T Consensus 360 ~~~~~p~~~~~g~~s~~i-~~g~vf~~~~~~~~~~~~~~q~v~is~Vlp~~~~~~~~~~~g~~V~~vng~~V~n~~~--- 435 (473)
T KOG1320|consen 360 VKPLVPVHQYIGLPSYYI-FAGLVFVPLTKSYIFPSGVVQLVLVSQVLPGSINGGYGLKPGDQVVKVNGKPVKNLKH--- 435 (473)
T ss_pred ccCcccccccCCceeEEE-ecceEEeecCCCccccccceeEEEEEEeccCCCcccccccCCCEEEEECCEEeechHH---
Confidence 1 134666665444 2221 11121221 135899999999999999 999999999999999999998
Q ss_pred ccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Q 036586 376 RHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 376 ~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
+.++++....++++.+..+|..+..++.+...
T Consensus 436 -------l~~~i~~~~~~~~v~vl~~~~~e~~tl~Il~~ 467 (473)
T KOG1320|consen 436 -------LYELIEECSTEDKVAVLDRRSAEDATLEILPE 467 (473)
T ss_pred -------HHHHHHhcCcCceEEEEEecCccceeEEeccc
Confidence 67899988888899999999988888887654
No 11
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=99.65 E-value=6.6e-16 Score=168.27 Aligned_cols=153 Identities=12% Similarity=0.166 Sum_probs=120.0
Q ss_pred eEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccC
Q 036586 338 VRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTH 416 (568)
Q Consensus 338 v~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~ 416 (568)
.+|++|.++|||++ |||+||+|++|||++|.++.+ +...+.....|++++++|.|+|+.+++++++...
T Consensus 128 ~lV~~V~~~SpA~kAGLk~GDvI~~vnG~~V~~~~~----------l~~~v~~~~~g~~v~v~v~R~gk~~~~~v~l~~~ 197 (449)
T PRK10779 128 PVVGEIAPNSIAAQAQIAPGTELKAVDGIETPDWDA----------VRLALVSKIGDESTTITVAPFGSDQRRDKTLDLR 197 (449)
T ss_pred ccccccCCCCHHHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHHhhccCCceEEEEEeCCccceEEEEeccc
Confidence 46899999999999 999999999999999999998 5566777778899999999999999888888644
Q ss_pred CCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEecccccccccc
Q 036586 417 KRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEE 496 (568)
Q Consensus 417 ~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~ 496 (568)
+.... .........+|+ .+.. ....++|..|.+++++...|+
T Consensus 198 ~~~~~----~~~~~~~~~lGl--~~~~--------------------------------~~~~~vV~~V~~~SpA~~AGL 239 (449)
T PRK10779 198 HWAFE----PDKQDPVSSLGI--RPRG--------------------------------PQIEPVLAEVQPNSAASKAGL 239 (449)
T ss_pred ccccC----ccccchhhcccc--cccC--------------------------------CCcCcEEEeeCCCCHHHHcCC
Confidence 32110 000011112332 1111 011268999999988888888
Q ss_pred ccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEE
Q 036586 497 IVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIV 538 (568)
Q Consensus 497 ~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~ 538 (568)
++||+|++|||++|.+|+|+.++++..+++.+.+++.|+|+.
T Consensus 240 ~~GDvIl~Ing~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~ 281 (449)
T PRK10779 240 QAGDRIVKVDGQPLTQWQTFVTLVRDNPGKPLALEIERQGSP 281 (449)
T ss_pred CCCCEEEEECCEEcCCHHHHHHHHHhCCCCEEEEEEEECCEE
Confidence 899999999999999999999999998888999999999864
No 12
>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=99.50 E-value=9.7e-14 Score=149.95 Aligned_cols=135 Identities=16% Similarity=0.188 Sum_probs=110.4
Q ss_pred CceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Q 036586 336 KGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 336 ~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
.|++|.+|.++|||++ ||++||+|++|||+++.++.+ +...+.... +++.+++.|+++...+.+++.
T Consensus 128 ~g~~V~~V~~~SpA~~AGL~~GDvI~~vng~~v~~~~d----------l~~~ia~~~--~~v~~~I~r~g~~~~l~v~l~ 195 (420)
T TIGR00054 128 VGPVIELLDKNSIALEAGIEPGDEILSVNGNKIPGFKD----------VRQQIADIA--GEPMVEILAERENWTFEVMKE 195 (420)
T ss_pred CCceeeccCCCCHHHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHHhhc--ccceEEEEEecCceEeccccc
Confidence 5899999999999999 999999999999999999988 445555544 678999999988765443321
Q ss_pred cCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEecccccccc
Q 036586 415 THKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGY 494 (568)
Q Consensus 415 ~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~ 494 (568)
+ .+.. + ..+++|..|.+++++...
T Consensus 196 ----------------------~--~~~~-~-------------------------------~~g~vV~~V~~~SpA~~a 219 (420)
T TIGR00054 196 ----------------------L--IPRG-P-------------------------------KIEPVLSDVTPNSPAEKA 219 (420)
T ss_pred ----------------------c--eecC-C-------------------------------CcCcEEEEECCCCHHHHc
Confidence 1 1111 0 013789999999888878
Q ss_pred ccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEE
Q 036586 495 EEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIV 538 (568)
Q Consensus 495 ~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~ 538 (568)
++++||+|++|||++|.+|+|+.+.+++.+++.+.+++.|+++.
T Consensus 220 GL~~GD~Iv~Vng~~V~s~~dl~~~l~~~~~~~v~l~v~R~g~~ 263 (420)
T TIGR00054 220 GLKEGDYIQSINGEKLRSWTDFVSAVKENPGKSMDIKVERNGET 263 (420)
T ss_pred CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCceEEEEEECCEE
Confidence 88899999999999999999999999998888999999999875
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=99.45 E-value=2.7e-13 Score=113.02 Aligned_cols=81 Identities=28% Similarity=0.484 Sum_probs=70.1
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
||||+.+... +. ..|++|..|.++|||++ ||++||+|++|||++|.++.+ |..++..
T Consensus 1 ~~lGv~~~~~-~~-----------~~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~----------~~~~l~~ 58 (82)
T PF13180_consen 1 GGLGVTVQNL-SD-----------TGGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSED----------LVNILSK 58 (82)
T ss_dssp -E-SEEEEEC-SC-----------SSSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHH----------HHHHHHC
T ss_pred CEECeEEEEc-cC-----------CCeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHH----------HHHHHHh
Confidence 6899999988 21 35999999999999999 999999999999999999887 6778878
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEe
Q 036586 390 KYTGDSAVVKVLRNSEVHEFNIKL 413 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~v~l 413 (568)
..+|+++.|+|+|+|+.++++++|
T Consensus 59 ~~~g~~v~l~v~R~g~~~~~~v~l 82 (82)
T PF13180_consen 59 GKPGDTVTLTVLRDGEELTVEVTL 82 (82)
T ss_dssp SSTTSEEEEEEEETTEEEEEEEE-
T ss_pred CCCCCEEEEEEEECCEEEEEEEEC
Confidence 889999999999999999999875
No 14
>PF13365 Trypsin_2: Trypsin-like peptidase domain; PDB: 1Y8T_A 2Z9I_A 3QO6_A 1L1J_A 1QY6_A 2O8L_A 3OTP_E 2ZLE_I 1KY9_A 3CS0_A ....
Probab=99.29 E-value=1.7e-11 Score=108.06 Aligned_cols=53 Identities=34% Similarity=0.535 Sum_probs=47.6
Q ss_pred EEEEEEe-CCEEEEcccccC--------CCCeEEEEEcCCCcEEE--EEEEEEeCC-CCeEEEEec
Q 036586 152 SSGFIVG-GRRVLTNAHSVE--------HHTQVKVKKRGSDTKYL--ATVLSIGTE-CDIALLTVK 205 (568)
Q Consensus 152 GSGfiI~-~G~ILTn~HVV~--------~~~~i~V~~~~dg~~~~--a~vv~~d~~-~DlAlLkv~ 205 (568)
||||+|+ +|+||||+|||. ....+.+.+. ++..+. +++++.|+. .|||||+++
T Consensus 1 GTGf~i~~~g~ilT~~Hvv~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~D~All~v~ 65 (120)
T PF13365_consen 1 GTGFLIGPDGYILTAAHVVEDWNDGKQPDNSSVEVVFP-DGRRVPPVAEVVYFDPDDYDLALLKVD 65 (120)
T ss_dssp EEEEEEETTTEEEEEHHHHTCCTT--G-TCSEEEEEET-TSCEEETEEEEEEEETT-TTEEEEEES
T ss_pred CEEEEEcCCceEEEchhheecccccccCCCCEEEEEec-CCCEEeeeEEEEEECCccccEEEEEEe
Confidence 8999999 669999999999 4567888884 777788 999999999 999999999
No 15
>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=99.28 E-value=2.1e-11 Score=102.64 Aligned_cols=88 Identities=30% Similarity=0.556 Sum_probs=76.1
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
+|+|+.++.+ ++..+..++++. ..|++|.+|.++|||++ ||++||+|++|||++|.++.+ +..++..
T Consensus 1 ~~~G~~~~~~-~~~~~~~~~~~~-~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~~~----------~~~~l~~ 68 (90)
T cd00987 1 PWLGVTVQDL-TPDLAEELGLKD-TKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSVAD----------LRRALAE 68 (90)
T ss_pred CccceEEeEC-CHHHHHHcCCCC-CCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCHHH----------HHHHHHh
Confidence 5899999999 888777777764 67999999999999998 999999999999999999887 5667766
Q ss_pred cCCCCEEEEEEEECCEEEEEE
Q 036586 390 KYTGDSAVVKVLRNSEVHEFN 410 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~ 410 (568)
...++.+.+++.|+|+...+.
T Consensus 69 ~~~~~~i~l~v~r~g~~~~~~ 89 (90)
T cd00987 69 LKPGDKVTLTVLRGGKELTVT 89 (90)
T ss_pred cCCCCEEEEEEEECCEEEEee
Confidence 656889999999999876554
No 16
>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=99.10 E-value=4.2e-10 Score=92.92 Aligned_cols=72 Identities=24% Similarity=0.321 Sum_probs=64.1
Q ss_pred CCceEEEEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Q 036586 335 QKGVRIRRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
..|++|..|.++|||+.+|++||+|++|||++|.++.+ +..++.....|+.+.+++.|+|+.+.++++|.
T Consensus 7 ~~Gv~V~~V~~~s~A~~gL~~GD~I~~Ing~~v~~~~~----------~~~~l~~~~~~~~v~l~v~r~g~~~~~~v~l~ 76 (79)
T cd00986 7 YHGVYVTSVVEGMPAAGKLKAGDHIIAVDGKPFKEAEE----------LIDYIQSKKEGDTVKLKVKREEKELPEDLILK 76 (79)
T ss_pred ecCEEEEEECCCCchhhCCCCCCEEEEECCEECCCHHH----------HHHHHHhCCCCCEEEEEEEECCEEEEEEEEEe
Confidence 45899999999999877999999999999999999887 56777765678899999999999999999987
Q ss_pred cC
Q 036586 415 TH 416 (568)
Q Consensus 415 ~~ 416 (568)
.+
T Consensus 77 ~~ 78 (79)
T cd00986 77 TF 78 (79)
T ss_pred cc
Confidence 65
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=99.07 E-value=6.6e-10 Score=91.92 Aligned_cols=68 Identities=24% Similarity=0.279 Sum_probs=60.6
Q ss_pred CCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEE
Q 036586 335 QKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIK 412 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~ 412 (568)
..|++|..|.++|||++ ||++||+|++|||++|.++.+ +..++.....|+.+.+++.|+|+...++++
T Consensus 9 ~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d----------~~~~l~~~~~g~~v~l~v~r~g~~~~~~~~ 77 (79)
T cd00991 9 VAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLED----------FMEALKPTKPGEVITVTVLPSTTKLTNVST 77 (79)
T ss_pred CCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHH----------HHHHHhcCCCCCEEEEEEEECCEEEEEEEE
Confidence 56999999999999998 999999999999999999988 667777666788999999999998877764
No 18
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=99.06 E-value=6.3e-10 Score=91.80 Aligned_cols=77 Identities=18% Similarity=0.321 Sum_probs=64.1
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
+|+|+.+..- ..|++|..|.++|||++ ||++||+|++|||+++.++.+ ++..
T Consensus 1 ~~~G~~~~~~--------------~~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~-------------~l~~ 53 (80)
T cd00990 1 PYLGLTLDKE--------------EGLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQD-------------RLKE 53 (80)
T ss_pred CcccEEEEcc--------------CCcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHH-------------HHHh
Confidence 5788887543 45799999999999999 999999999999999987543 4555
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEec
Q 036586 390 KYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
...++.+.+++.|+|+..++.+++.
T Consensus 54 ~~~~~~v~l~v~r~g~~~~~~v~~~ 78 (80)
T cd00990 54 YQAGDPVELTVFRDDRLIEVPLTLA 78 (80)
T ss_pred cCCCCEEEEEEEECCEEEEEEEEec
Confidence 4578899999999999988887764
No 19
>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=99.00 E-value=1.6e-09 Score=109.55 Aligned_cols=100 Identities=14% Similarity=0.184 Sum_probs=86.7
Q ss_pred hhhhHhHHHhhhcCccccCceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCC
Q 036586 292 PVIIHFIQDYEKNGAYTGFPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIAND 370 (568)
Q Consensus 292 ~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~ 370 (568)
..++++++++.+++... +.|+|+..... + | ...|++|..+.+++||++ ||++||+|++|||+++.++
T Consensus 159 ~~~~~v~~~l~~~g~~~-~~~lgi~p~~~-~-------g---~~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~ 226 (259)
T TIGR01713 159 VVSRRIIEELTKDPQKM-FDYIRLSPVMK-N-------D---KLEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDP 226 (259)
T ss_pred hhHHHHHHHHHHCHHhh-hheEeEEEEEe-C-------C---ceeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCH
Confidence 45678899999999888 89999998655 2 1 246999999999999999 9999999999999999999
Q ss_pred CCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEe
Q 036586 371 GTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKL 413 (568)
Q Consensus 371 ~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l 413 (568)
.+ +..++.....++.+.|+|.|+|+.+++.+.+
T Consensus 227 ~~----------~~~~l~~~~~~~~v~l~V~R~G~~~~i~v~~ 259 (259)
T TIGR01713 227 EQ----------AFQALQMLREETNLTLTVERDGQREDIYVRF 259 (259)
T ss_pred HH----------HHHHHHhcCCCCeEEEEEEECCEEEEEEEEC
Confidence 88 6678888778899999999999998888754
No 20
>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=98.88 E-value=6.4e-09 Score=113.07 Aligned_cols=90 Identities=20% Similarity=0.421 Sum_probs=81.0
Q ss_pred CceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHh
Q 036586 310 FPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 388 (568)
Q Consensus 310 ~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~ 388 (568)
+.|+|+.+..+ ++..++.++++....|++|.+|.++|||++ ||++||+|++|||++|.++.+ |.+++.
T Consensus 337 ~~~lGi~~~~l-~~~~~~~~~l~~~~~Gv~V~~V~~~SpA~~aGL~~GDvI~~Ing~~V~s~~d----------~~~~l~ 405 (428)
T TIGR02037 337 NPFLGLTVANL-SPEIRKELRLKGDVKGVVVTKVVSGSPAARAGLQPGDVILSVNQQPVSSVAE----------LRKVLD 405 (428)
T ss_pred ccccceEEecC-CHHHHHHcCCCcCcCceEEEEeCCCCHHHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHH
Confidence 57899999999 999999999986557999999999999999 999999999999999999988 677887
Q ss_pred ccCCCCEEEEEEEECCEEEEEE
Q 036586 389 QKYTGDSAVVKVLRNSEVHEFN 410 (568)
Q Consensus 389 ~~~~g~~v~l~V~R~g~~~~v~ 410 (568)
....|+.+.|+|+|+|+...+.
T Consensus 406 ~~~~g~~v~l~v~R~g~~~~~~ 427 (428)
T TIGR02037 406 RAKKGGRVALLILRGGATIFVT 427 (428)
T ss_pred hcCCCCEEEEEEEECCEEEEEE
Confidence 7667899999999999987654
No 21
>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=98.85 E-value=1.1e-08 Score=84.07 Aligned_cols=66 Identities=24% Similarity=0.331 Sum_probs=56.0
Q ss_pred CceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEE
Q 036586 336 KGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIK 412 (568)
Q Consensus 336 ~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~ 412 (568)
..++|..|.++|||++ ||++||+|++|||+++.++.+ +..++... .++.+.+++.|+|+..++.+.
T Consensus 12 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~----------~~~~l~~~-~~~~~~l~v~r~~~~~~~~l~ 78 (79)
T cd00989 12 IEPVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWED----------LVDAVQEN-PGKPLTLTVERNGETITLTLT 78 (79)
T ss_pred cCcEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHH----------HHHHHHHC-CCceEEEEEEECCEEEEEEec
Confidence 3588999999999998 999999999999999999887 55666654 478899999999987766653
No 22
>PF12812 PDZ_1: PDZ-like domain
Probab=98.82 E-value=1.5e-08 Score=83.53 Aligned_cols=73 Identities=22% Similarity=0.304 Sum_probs=57.9
Q ss_pred CceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEe
Q 036586 430 SYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKP 509 (568)
Q Consensus 430 ~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~p 509 (568)
+++.|+|.+|+++++..++ +|++.+ +++++ ....++.+..++...|++|++|||+|
T Consensus 6 r~v~~~Ga~f~~Ls~q~aR-~~~~~~----------------------~gv~v-~~~~g~~~~~~~i~~g~iI~~Vn~kp 61 (78)
T PF12812_consen 6 RFVEVCGAVFHDLSYQQAR-QYGIPV----------------------GGVYV-AVSGGSLAFAGGISKGFIITSVNGKP 61 (78)
T ss_pred EEEEEcCeecccCCHHHHH-HhCCCC----------------------CEEEE-EecCCChhhhCCCCCCeEEEeECCcC
Confidence 5677999999999966555 777543 24555 44566666666566899999999999
Q ss_pred cCCHHHHHHHHHccCCC
Q 036586 510 VQNLKSLADMVESSEDE 526 (568)
Q Consensus 510 V~~l~~f~~~l~~~~~~ 526 (568)
|+|+++|.++|++.|++
T Consensus 62 t~~Ld~f~~vvk~ipd~ 78 (78)
T PF12812_consen 62 TPDLDDFIKVVKKIPDN 78 (78)
T ss_pred CcCHHHHHHHHHhCCCC
Confidence 99999999999999874
No 23
>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=98.82 E-value=3.2e-08 Score=82.48 Aligned_cols=77 Identities=22% Similarity=0.344 Sum_probs=62.5
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCC--CCCccccCccchHHHHH
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIAND--GTVPFRHGERIGFSYLV 387 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~--~dl~~~~~~~~~l~~~l 387 (568)
..||+.+..- ..+++|..|.+++||++ ||++||+|++|||+++.++ .+ +..++
T Consensus 2 ~~lG~~~~~~--------------~~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~----------~~~~l 57 (85)
T cd00988 2 GGIGLELKYD--------------DGGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLED----------VVKLL 57 (85)
T ss_pred eEEEEEEEEc--------------CCeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHH----------HHHHh
Confidence 3478887543 35899999999999999 9999999999999999998 55 44555
Q ss_pred hccCCCCEEEEEEEEC-CEEEEEEEE
Q 036586 388 SQKYTGDSAVVKVLRN-SEVHEFNIK 412 (568)
Q Consensus 388 ~~~~~g~~v~l~V~R~-g~~~~v~v~ 412 (568)
.. ..|+.+.+++.|+ |+..++++.
T Consensus 58 ~~-~~~~~i~l~v~r~~~~~~~~~~~ 82 (85)
T cd00988 58 RG-KAGTKVRLTLKRGDGEPREVTLT 82 (85)
T ss_pred cC-CCCCEEEEEEEcCCCCEEEEEEE
Confidence 44 3688999999998 887777664
No 24
>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=98.57 E-value=1.6e-07 Score=75.16 Aligned_cols=65 Identities=26% Similarity=0.456 Sum_probs=52.7
Q ss_pred eeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCC--CCCccccCccchHHHHHh
Q 036586 312 ILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIAND--GTVPFRHGERIGFSYLVS 388 (568)
Q Consensus 312 ~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~--~dl~~~~~~~~~l~~~l~ 388 (568)
++|+.+.... ..|++|..|.+++||+. ||++||+|++|||+++.++ .+ +..++.
T Consensus 2 ~~G~~~~~~~-------------~~~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~----------~~~~l~ 58 (70)
T cd00136 2 GLGFSIRGGT-------------EGGVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLED----------VAELLK 58 (70)
T ss_pred CccEEEecCC-------------CCCEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHH----------HHHHHh
Confidence 5777776551 13899999999999999 9999999999999999998 55 556666
Q ss_pred ccCCCCEEEEEE
Q 036586 389 QKYTGDSAVVKV 400 (568)
Q Consensus 389 ~~~~g~~v~l~V 400 (568)
... |+.++|+|
T Consensus 59 ~~~-g~~v~l~v 69 (70)
T cd00136 59 KEV-GEKVTLTV 69 (70)
T ss_pred hCC-CCeEEEEE
Confidence 653 78888876
No 25
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=98.56 E-value=6.6e-07 Score=75.09 Aligned_cols=84 Identities=21% Similarity=0.229 Sum_probs=67.3
Q ss_pred eecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCH
Q 036586 434 IAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL 513 (568)
Q Consensus 434 ~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l 513 (568)
|+|+.+++++ +..+..++. ....+++|..|.+++++...+++.||+|++|||+++.++
T Consensus 2 ~~G~~~~~~~-~~~~~~~~~---------------------~~~~g~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~i~~~ 59 (90)
T cd00987 2 WLGVTVQDLT-PDLAEELGL---------------------KDTKGVLVASVDPGSPAAKAGLKPGDVILAVNGKPVKSV 59 (90)
T ss_pred ccceEEeECC-HHHHHHcCC---------------------CCCCEEEEEEECCCCHHHHcCCCcCCEEEEECCEECCCH
Confidence 7899999998 444433331 123579999999988776667779999999999999999
Q ss_pred HHHHHHHHccC-CCeEEEEEEcCeEEE
Q 036586 514 KSLADMVESSE-DEFLKFDLEYQQIVV 539 (568)
Q Consensus 514 ~~f~~~l~~~~-~~~v~l~v~R~~~~~ 539 (568)
.+|.+++.... ++.+.+++.|+++.+
T Consensus 60 ~~~~~~l~~~~~~~~i~l~v~r~g~~~ 86 (90)
T cd00987 60 ADLRRALAELKPGDKVTLTVLRGGKEL 86 (90)
T ss_pred HHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 99999998864 678999999998653
No 26
>PF00089 Trypsin: Trypsin; InterPro: IPR001254 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 proteases belong to the MEROPS peptidase family S1 (chymotrypsin family, clan PA(S))and to peptidase family S6 (Hap serine peptidases). The chymotrypsin family is almost totally confined to animals, although trypsin-like enzymes are found in actinomycetes of the genera Streptomyces and Saccharopolyspora, and in the fungus Fusarium oxysporum []. The enzymes are inherently secreted, being synthesised with a signal peptide that targets them to the secretory pathway. Animal enzymes are either secreted directly, packaged into vesicles for regulated secretion, or are retained in leukocyte granules []. The Hap family, 'Haemophilus adhesion and penetration', are proteins that play a role in the interaction with human epithelial cells. The serine protease activity is localized at the N-terminal domain, whereas the binding domain is in the C-terminal region. ; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1SPJ_A 1A5I_A 2ZGH_A 2ZKS_A 2ZGJ_A 2ZGC_A 2ODP_A 2I6Q_A 2I6S_A 2ODQ_A ....
Probab=98.55 E-value=2.4e-06 Score=82.84 Aligned_cols=149 Identities=21% Similarity=0.245 Sum_probs=94.8
Q ss_pred cceEEEEEEeCCEEEEcccccCCCCeEEEEEc------CCC--cEEEEEEEEEe----C---CCCeEEEEeccC-ccccC
Q 036586 149 SSSSSGFIVGGRRVLTNAHSVEHHTQVKVKKR------GSD--TKYLATVLSIG----T---ECDIALLTVKDD-EFWEG 212 (568)
Q Consensus 149 ~~~GSGfiI~~G~ILTn~HVV~~~~~i~V~~~------~dg--~~~~a~vv~~d----~---~~DlAlLkv~~~-~~~~~ 212 (568)
...++|++|++.+|||++|++.+...+.+.+. .++ ..+..+-+..+ . ..|||||+++.. .+...
T Consensus 24 ~~~C~G~li~~~~vLTaahC~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~h~~~~~~~~~~DiAll~L~~~~~~~~~ 103 (220)
T PF00089_consen 24 RFFCTGTLISPRWVLTAAHCVDGASDIKVRLGTYSIRNSDGSEQTIKVSKIIIHPKYDPSTYDNDIALLKLDRPITFGDN 103 (220)
T ss_dssp EEEEEEEEEETTEEEEEGGGHTSGGSEEEEESESBTTSTTTTSEEEEEEEEEEETTSBTTTTTTSEEEEEESSSSEHBSS
T ss_pred CeeEeEEecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 36799999999999999999999666666542 122 23444333332 2 469999999977 23346
Q ss_pred ccceecCCCc---ccCCeEEEEecCCCCCCc---eEE---EEEEeeeeccc--------------------c--cCCCce
Q 036586 213 VSPVEFGDLP---ALQDAVTVVGYPIGGDTI---SVT---SGVVSRMEILS--------------------Y--VHGSTE 261 (568)
Q Consensus 213 l~~~~l~~~~---~~g~~V~aiG~P~g~~~~---svt---~GiIs~~~~~~--------------------~--~~ggsp 261 (568)
+.++.+.... ..++.+.++|++...... .+. ..+++.-.... . ..+|||
T Consensus 104 ~~~~~l~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~c~~~~~~~~~~~g~sG~p 183 (220)
T PF00089_consen 104 IQPICLPSAGSDPNVGTSCIVVGWGRTSDNGYSSNLQSVTVPVVSRKTCRSSYNDNLTPNMICAGSSGSGDACQGDSGGP 183 (220)
T ss_dssp BEESBBTSTTHTTTTTSEEEEEESSBSSTTSBTSBEEEEEEEEEEHHHHHHHTTTTSTTTEEEEETTSSSBGGTTTTTSE
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 7788887632 567999999998863321 233 33332210000 0 125679
Q ss_pred eecccceEEEEEeeeecCCCCccccccccchhhhHh
Q 036586 262 LLGLQGKCVGIAFQSLKNDDVENIGYVIPTPVIIHF 297 (568)
Q Consensus 262 L~n~~G~VVGI~~~~~~~~~~~~~~~aIP~~~i~~~ 297 (568)
|++.++.|+||.+....-.......+.+++....++
T Consensus 184 l~~~~~~lvGI~s~~~~c~~~~~~~v~~~v~~~~~W 219 (220)
T PF00089_consen 184 LICNNNYLVGIVSFGENCGSPNYPGVYTRVSSYLDW 219 (220)
T ss_dssp EEETTEEEEEEEEEESSSSBTTSEEEEEEGGGGHHH
T ss_pred cccceeeecceeeecCCCCCCCcCEEEEEHHHhhcc
Confidence 999999999999886322222234666777665554
No 27
>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=98.54 E-value=4e-07 Score=75.70 Aligned_cols=62 Identities=19% Similarity=0.222 Sum_probs=54.1
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHc-cCCCeEEEEEEcCeEEE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVES-SEDEFLKFDLEYQQIVV 539 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~-~~~~~v~l~v~R~~~~~ 539 (568)
.+++|..|.+++++...+++.||+|++|||++|.++.+|..++.. .++..+.|++.|+++..
T Consensus 14 ~g~~V~~V~~~spA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R~g~~~ 76 (82)
T PF13180_consen 14 GGVVVVSVIPGSPAAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLRDGEEL 76 (82)
T ss_dssp SSEEEEEESTTSHHHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEETTEEE
T ss_pred CeEEEEEeCCCCcHHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEECCEEE
Confidence 468999999999888888889999999999999999999999965 46779999999998754
No 28
>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=98.40 E-value=1.3e-06 Score=72.16 Aligned_cols=73 Identities=23% Similarity=0.328 Sum_probs=54.6
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
..+|+.+...... ..|++|..|.+++||+. ||++||+|++|||+.+.++.+. ......
T Consensus 12 ~~~G~~~~~~~~~-----------~~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~----------~~~~~~ 70 (85)
T smart00228 12 GGLGFSLVGGKDE-----------GGGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHL----------EAVDLL 70 (85)
T ss_pred CcccEEEECCCCC-----------CCCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHH----------HHHHHH
Confidence 4578887654100 15899999999999999 9999999999999999987662 222222
Q ss_pred cCCCCEEEEEEEECC
Q 036586 390 KYTGDSAVVKVLRNS 404 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g 404 (568)
...++.+.|++.|++
T Consensus 71 ~~~~~~~~l~i~r~~ 85 (85)
T smart00228 71 KKAGGKVTLTVLRGG 85 (85)
T ss_pred HhCCCeEEEEEEeCC
Confidence 234568999999875
No 29
>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=98.38 E-value=1.6e-06 Score=71.56 Aligned_cols=63 Identities=14% Similarity=0.208 Sum_probs=55.0
Q ss_pred CcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHcc-CCCeEEEEEEcCeEE
Q 036586 476 DEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESS-EDEFLKFDLEYQQIV 538 (568)
Q Consensus 476 ~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~-~~~~v~l~v~R~~~~ 538 (568)
..+|++|..|.+++++...+++.||+|++|||+++.+|++|..++... ++..+.+.+.|+++.
T Consensus 8 ~~~Gv~V~~V~~~spa~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v~r~g~~ 71 (79)
T cd00991 8 AVAGVVIVGVIVGSPAENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLPSTTK 71 (79)
T ss_pred cCCcEEEEEECCCChHHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEEEECCEE
Confidence 346799999999888777777899999999999999999999999986 477899999998854
No 30
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=98.28 E-value=3.1e-06 Score=90.97 Aligned_cols=59 Identities=22% Similarity=0.427 Sum_probs=45.9
Q ss_pred CCceEEEEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc-cCCCCEEEEEEEECC
Q 036586 335 QKGVRIRRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ-KYTGDSAVVKVLRNS 404 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~-~~~g~~v~l~V~R~g 404 (568)
...++|.+|.|++||+..||.||.|+.|||....+... ...++. ...|+...|+|.|.-
T Consensus 39 etSiViSDVlpGGPAeG~LQenDrvvMVNGvsMenv~h-----------aFAvQqLrksgK~A~ItvkRpr 98 (1027)
T KOG3580|consen 39 ETSIVISDVLPGGPAEGLLQENDRVVMVNGVSMENVLH-----------AFAVQQLRKSGKVAAITVKRPR 98 (1027)
T ss_pred ceeEEEeeccCCCCcccccccCCeEEEEcCcchhhhHH-----------HHHHHHHHhhccceeEEecccc
Confidence 34689999999999998999999999999998887654 122333 236777889988743
No 31
>TIGR00054 RIP metalloprotease RseP. A model that detects fragments as well matches a number of members of the PEPTIDASE FAMILY S2C. The region of match appears not to overlap the active site domain.
Probab=98.28 E-value=1.7e-06 Score=93.89 Aligned_cols=68 Identities=25% Similarity=0.325 Sum_probs=60.5
Q ss_pred CceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Q 036586 336 KGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 336 ~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
.+++|.+|.++|||++ ||++||+|++|||++|.++.+ +...+.. ..++.+.++|.|+|+..++++++.
T Consensus 203 ~g~vV~~V~~~SpA~~aGL~~GD~Iv~Vng~~V~s~~d----------l~~~l~~-~~~~~v~l~v~R~g~~~~~~v~~~ 271 (420)
T TIGR00054 203 IEPVLSDVTPNSPAEKAGLKEGDYIQSINGEKLRSWTD----------FVSAVKE-NPGKSMDIKVERNGETLSISLTPE 271 (420)
T ss_pred cCcEEEEECCCCHHHHcCCCCCCEEEEECCEECCCHHH----------HHHHHHh-CCCCceEEEEEECCEEEEEEEEEc
Confidence 4799999999999999 999999999999999999988 5667765 467889999999999988888874
No 32
>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=98.28 E-value=3.4e-06 Score=69.04 Aligned_cols=59 Identities=19% Similarity=0.276 Sum_probs=52.0
Q ss_pred EEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEE
Q 036586 480 VVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIV 538 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~ 538 (568)
++|+.|.+++++...+++.||+|++|||+++.+++++..+++...+..+.+++.|+++.
T Consensus 14 ~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~~~~~~~~l~v~r~~~~ 72 (79)
T cd00989 14 PVIGEVVPGSPAAKAGLKAGDRILAINGQKIKSWEDLVDAVQENPGKPLTLTVERNGET 72 (79)
T ss_pred cEEEeECCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHHCCCceEEEEEEECCEE
Confidence 67899999887776677799999999999999999999999987777899999998753
No 33
>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=98.25 E-value=3.5e-06 Score=88.77 Aligned_cols=83 Identities=17% Similarity=0.240 Sum_probs=63.5
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
..+|+.+... ..+++|..|.++|||++ ||++||+|++|||++|.++..- .+..++..
T Consensus 51 ~~lG~~~~~~--------------~~~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~--------~~~~~l~~ 108 (334)
T TIGR00225 51 EGIGIQVGMD--------------DGEIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLD--------DAVALIRG 108 (334)
T ss_pred EEEEEEEEEE--------------CCEEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHH--------HHHHhccC
Confidence 4588887554 34799999999999999 9999999999999999987310 02233332
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEeccC
Q 036586 390 KYTGDSAVVKVLRNSEVHEFNIKLSTH 416 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~v~l~~~ 416 (568)
..|+.+.|+|.|+|+...+++++...
T Consensus 109 -~~g~~v~l~v~R~g~~~~~~v~l~~~ 134 (334)
T TIGR00225 109 -KKGTKVSLEILRAGKSKPLTFTLKRD 134 (334)
T ss_pred -CCCCEEEEEEEeCCCCceEEEEEEEE
Confidence 46889999999998877777766554
No 34
>PRK10779 zinc metallopeptidase RseP; Provisional
Probab=98.21 E-value=3e-06 Score=92.83 Aligned_cols=67 Identities=19% Similarity=0.311 Sum_probs=59.8
Q ss_pred ceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEec
Q 036586 337 GVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
+++|.+|.++|||++ ||++||+|++|||++|.++.+ +..++.. ..|+.+.++|.|+|+..++++++.
T Consensus 222 ~~vV~~V~~~SpA~~AGL~~GDvIl~Ing~~V~s~~d----------l~~~l~~-~~~~~v~l~v~R~g~~~~~~v~~~ 289 (449)
T PRK10779 222 EPVLAEVQPNSAASKAGLQAGDRIVKVDGQPLTQWQT----------FVTLVRD-NPGKPLALEIERQGSPLSLTLTPD 289 (449)
T ss_pred CcEEEeeCCCCHHHHcCCCCCCEEEEECCEEcCCHHH----------HHHHHHh-CCCCEEEEEEEECCEEEEEEEEee
Confidence 588999999999999 999999999999999999988 5666665 477899999999999988888875
No 35
>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=98.20 E-value=6.8e-06 Score=67.62 Aligned_cols=61 Identities=21% Similarity=0.368 Sum_probs=52.2
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHc-cCCCeEEEEEEcCeEEE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVES-SEDEFLKFDLEYQQIVV 539 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~-~~~~~v~l~v~R~~~~~ 539 (568)
.|++|..|.+++++.. +++.||+|++|||+++.+|++|.+++.. .++..+.+++.|+++..
T Consensus 8 ~Gv~V~~V~~~s~A~~-gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~v~r~g~~~ 69 (79)
T cd00986 8 HGVYVTSVVEGMPAAG-KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKVKREEKEL 69 (79)
T ss_pred cCEEEEEECCCCchhh-CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEEEEECCEEE
Confidence 4689999999877654 5779999999999999999999999986 45678999999988643
No 36
>PRK10139 serine endoprotease; Provisional
Probab=98.17 E-value=9e-06 Score=89.03 Aligned_cols=83 Identities=18% Similarity=0.202 Sum_probs=69.8
Q ss_pred eecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCH
Q 036586 434 IAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL 513 (568)
Q Consensus 434 ~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l 513 (568)
|+|+.+++++ +...+.++++ ...|++|..|.++++++..+++.||+|++|||++|.+|
T Consensus 268 ~LGv~~~~l~-~~~~~~lgl~---------------------~~~Gv~V~~V~~~SpA~~AGL~~GDvIl~InG~~V~s~ 325 (455)
T PRK10139 268 LLGIKGTEMS-ADIAKAFNLD---------------------VQRGAFVSEVLPNSGSAKAGVKAGDIITSLNGKPLNSF 325 (455)
T ss_pred ceeEEEEECC-HHHHHhcCCC---------------------CCCceEEEEECCCChHHHCCCCCCCEEEEECCEECCCH
Confidence 8999999998 5555566632 23579999999998887778889999999999999999
Q ss_pred HHHHHHHHc-cCCCeEEEEEEcCeEE
Q 036586 514 KSLADMVES-SEDEFLKFDLEYQQIV 538 (568)
Q Consensus 514 ~~f~~~l~~-~~~~~v~l~v~R~~~~ 538 (568)
++|.+.|.. .++..+.+++.|+|+.
T Consensus 326 ~dl~~~l~~~~~g~~v~l~V~R~G~~ 351 (455)
T PRK10139 326 AELRSRIATTEPGTKVKLGLLRNGKP 351 (455)
T ss_pred HHHHHHHHhcCCCCEEEEEEEECCEE
Confidence 999999987 4577899999998864
No 37
>cd00190 Tryp_SPc Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad residues.
Probab=98.15 E-value=8.6e-05 Score=72.35 Aligned_cols=87 Identities=23% Similarity=0.242 Sum_probs=59.4
Q ss_pred ceEEEEEEeCCEEEEcccccCCC--CeEEEEEcC--------CCcEEEEEEEEEe-------CCCCeEEEEeccCcc-cc
Q 036586 150 SSSSGFIVGGRRVLTNAHSVEHH--TQVKVKKRG--------SDTKYLATVLSIG-------TECDIALLTVKDDEF-WE 211 (568)
Q Consensus 150 ~~GSGfiI~~G~ILTn~HVV~~~--~~i~V~~~~--------dg~~~~a~vv~~d-------~~~DlAlLkv~~~~~-~~ 211 (568)
..++|++|++.+|||+||++.+. ..+.|.+.. ....+..+-+..+ ...|||||+++.... ..
T Consensus 25 ~~C~GtlIs~~~VLTaAhC~~~~~~~~~~v~~g~~~~~~~~~~~~~~~v~~~~~hp~y~~~~~~~DiAll~L~~~~~~~~ 104 (232)
T cd00190 25 HFCGGSLISPRWVLTAAHCVYSSAPSNYTVRLGSHDLSSNEGGGQVIKVKKVIVHPNYNPSTYDNDIALLKLKRPVTLSD 104 (232)
T ss_pred EEEEEEEeeCCEEEECHHhcCCCCCccEEEEeCcccccCCCCceEEEEEEEEEECCCCCCCCCcCCEEEEEECCcccCCC
Confidence 67999999999999999999875 456666521 1222334334444 357999999986532 22
Q ss_pred CccceecCCC---cccCCeEEEEecCCC
Q 036586 212 GVSPVEFGDL---PALQDAVTVVGYPIG 236 (568)
Q Consensus 212 ~l~~~~l~~~---~~~g~~V~aiG~P~g 236 (568)
.+.|+.|... ...++.+.++|+...
T Consensus 105 ~v~picl~~~~~~~~~~~~~~~~G~g~~ 132 (232)
T cd00190 105 NVRPICLPSSGYNLPAGTTCTVSGWGRT 132 (232)
T ss_pred cccceECCCccccCCCCCEEEEEeCCcC
Confidence 3677887755 244689999998654
No 38
>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=98.11 E-value=6.4e-06 Score=68.07 Aligned_cols=72 Identities=21% Similarity=0.272 Sum_probs=52.9
Q ss_pred CceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHh
Q 036586 310 FPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 388 (568)
Q Consensus 310 ~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~ 388 (568)
...+|+.+... .... ..+++|.+|.++|||+. ||++||+|++|||+.+.++.... ...++.
T Consensus 9 ~~~lG~~l~~~-~~~~---------~~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~--------~~~~l~ 70 (81)
T PF00595_consen 9 NGPLGFTLRGG-SDND---------EKGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDE--------VVQLLK 70 (81)
T ss_dssp TSBSSEEEEEE-STSS---------SEEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHH--------HHHHHH
T ss_pred CCCcCEEEEec-CCCC---------cCCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHH--------HHHHHH
Confidence 45688888776 1100 24899999999999999 99999999999999999886421 233343
Q ss_pred ccCCCCEEEEEEE
Q 036586 389 QKYTGDSAVVKVL 401 (568)
Q Consensus 389 ~~~~g~~v~l~V~ 401 (568)
. .+..++|+|.
T Consensus 71 ~--~~~~v~L~V~ 81 (81)
T PF00595_consen 71 S--ASNPVTLTVQ 81 (81)
T ss_dssp H--STSEEEEEEE
T ss_pred C--CCCcEEEEEC
Confidence 3 3448888774
No 39
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=98.11 E-value=1.6e-05 Score=85.43 Aligned_cols=68 Identities=19% Similarity=0.313 Sum_probs=54.1
Q ss_pred CceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEE
Q 036586 336 KGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIK 412 (568)
Q Consensus 336 ~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~ 412 (568)
.|++|..|.++|||++ ||++||+|++|||++|.++... .+..++.. ..|..+.|+|.|+|+..+++++
T Consensus 102 ~g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~--------~~~~~l~g-~~g~~v~ltv~r~g~~~~~~l~ 170 (389)
T PLN00049 102 AGLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLY--------EAADRLQG-PEGSSVELTLRRGPETRLVTLT 170 (389)
T ss_pred CcEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHH--------HHHHHHhc-CCCCEEEEEEEECCEEEEEEEE
Confidence 3899999999999999 9999999999999999875320 03344432 4688999999999987766654
No 40
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=98.10 E-value=3e-05 Score=65.34 Aligned_cols=75 Identities=24% Similarity=0.396 Sum_probs=50.1
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCC--------CcccC-C--CCCCCEEEEECCEEcCCCCCCccccCc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPT--------APESH-V--LKPSDIILSFDGIDIANDGTVPFRHGE 379 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~--------spA~~-G--L~~GDiIl~InG~~V~~~~dl~~~~~~ 379 (568)
+.||+.|..- ..+..|.+|.++ ||..+ | +++||+|++|||+++....+
T Consensus 1 G~LGAd~~~~--------------~~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~------- 59 (88)
T PF14685_consen 1 GLLGADFSYD--------------NGGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADAN------- 59 (88)
T ss_dssp -B-SEEEEEE--------------TTEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB--------
T ss_pred CccceEEEEc--------------CCEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCC-------
Confidence 3578887654 457889999885 78777 6 55999999999999998777
Q ss_pred cchHHHHHhccCCCCEEEEEEEECC-EEEEEE
Q 036586 380 RIGFSYLVSQKYTGDSAVVKVLRNS-EVHEFN 410 (568)
Q Consensus 380 ~~~l~~~l~~~~~g~~v~l~V~R~g-~~~~v~ 410 (568)
+..+|.. ..|+.+.|+|.+.+ +.+++.
T Consensus 60 ---~~~lL~~-~agk~V~Ltv~~~~~~~R~v~ 87 (88)
T PF14685_consen 60 ---PYRLLEG-KAGKQVLLTVNRKPGGARTVV 87 (88)
T ss_dssp ---HHHHHHT-TTTSEEEEEEE-STT-EEEEE
T ss_pred ---HHHHhcc-cCCCEEEEEEecCCCCceEEE
Confidence 5566655 47899999999965 455554
No 41
>TIGR02860 spore_IV_B stage IV sporulation protein B. SpoIVB, the stage IV sporulation protein B of endospore-forming bacteria such as Bacillus subtilis, is a serine proteinase, expressed in the spore (rather than mother cell) compartment, that participates in a proteolytic activation cascade for Sigma-K. It appears to be universal among endospore-forming bacteria and occurs nowhere else.
Probab=98.07 E-value=1.2e-05 Score=85.41 Aligned_cols=67 Identities=24% Similarity=0.366 Sum_probs=56.4
Q ss_pred CCceEEEEec--------CCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCE
Q 036586 335 QKGVRIRRIE--------PTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSE 405 (568)
Q Consensus 335 ~~Gv~V~~V~--------p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~ 405 (568)
.+||+|.+.. .+|||++ ||++||+|++|||++|.++.+ |.+++... .++.+.|+|.|+|+
T Consensus 104 t~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~D----------L~~iL~~~-~g~~V~LtV~R~Ge 172 (402)
T TIGR02860 104 TKGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDD----------LANLINKA-GGEKLTLTIERGGK 172 (402)
T ss_pred cCEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHH----------HHHHHHhC-CCCeEEEEEEECCE
Confidence 3499986642 2589998 999999999999999999998 66777765 48899999999999
Q ss_pred EEEEEEE
Q 036586 406 VHEFNIK 412 (568)
Q Consensus 406 ~~~v~v~ 412 (568)
..++.++
T Consensus 173 ~~tv~V~ 179 (402)
T TIGR02860 173 IIETVIK 179 (402)
T ss_pred EEEEEEE
Confidence 8888876
No 42
>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=98.07 E-value=1.7e-05 Score=84.04 Aligned_cols=84 Identities=15% Similarity=0.123 Sum_probs=68.8
Q ss_pred eecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCH
Q 036586 434 IAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL 513 (568)
Q Consensus 434 ~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l 513 (568)
|+|+.++++. +...+.++++ ...|++|..|.+++++...+++.||+|++|||++|.++
T Consensus 256 ~lGv~~~~~~-~~~~~~lgl~---------------------~~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~ 313 (351)
T TIGR02038 256 YIGVSGEDIN-SVVAQGLGLP---------------------DLRGIVITGVDPNGPAARAGILVRDVILKYDGKDVIGA 313 (351)
T ss_pred EeeeEEEECC-HHHHHhcCCC---------------------ccccceEeecCCCChHHHCCCCCCCEEEEECCEEcCCH
Confidence 7899998887 4455456632 23579999999998877777789999999999999999
Q ss_pred HHHHHHHHc-cCCCeEEEEEEcCeEEE
Q 036586 514 KSLADMVES-SEDEFLKFDLEYQQIVV 539 (568)
Q Consensus 514 ~~f~~~l~~-~~~~~v~l~v~R~~~~~ 539 (568)
++|.++++. .+++.+.+++.|+++..
T Consensus 314 ~dl~~~l~~~~~g~~v~l~v~R~g~~~ 340 (351)
T TIGR02038 314 EELMDRIAETRPGSKVMVTVLRQGKQL 340 (351)
T ss_pred HHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 999999987 45678999999998643
No 43
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=98.06 E-value=3.4e-05 Score=84.82 Aligned_cols=162 Identities=16% Similarity=0.180 Sum_probs=95.1
Q ss_pred CCCCCCCceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEE
Q 036586 330 GMRPGQKGVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVH 407 (568)
Q Consensus 330 gl~~~~~Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~ 407 (568)
|=.+..+-++|..|.+.+.|++ | |++||.|+.|||.+|.....-. ...++........|.|+|.|.-..-
T Consensus 668 GG~ep~qpi~iG~Iv~lGaAe~DGRL~~gDElv~iDG~pV~GksH~~--------vv~Lm~~AArnghV~LtVRRkv~~~ 739 (984)
T KOG3209|consen 668 GGDEPGQPIYIGAIVPLGAAEEDGRLREGDELVCIDGIPVEGKSHSE--------VVDLMEAAARNGHVNLTVRRKVRTG 739 (984)
T ss_pred cCCCCCCeeEEeeeeecccccccCcccCCCeEEEecCeeccCccHHH--------HHHHHHHHHhcCceEEEEeeeeeec
Confidence 3333456799999999999999 4 9999999999999998765521 2345555555678999998831100
Q ss_pred E-EEEEeccCCCccccccCC-CCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEE
Q 036586 408 E-FNIKLSTHKRLIPAHING-RPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQV 485 (568)
Q Consensus 408 ~-v~v~l~~~~~~~~~~~~~-~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V 485 (568)
. -.-+........+..+.. +.. -.-.||++..- +...+.| |.++
T Consensus 740 ~~~rsp~~s~~~~~~yDV~lhR~E--NeGFGFVi~sS------------------------------~~kp~sg--iGrI 785 (984)
T KOG3209|consen 740 PARRSPRNSAAPSGPYDVVLHRKE--NEGFGFVIMSS------------------------------QNKPESG--IGRI 785 (984)
T ss_pred cccCCcccccCCCCCeeeEEeccc--CCceeEEEEec------------------------------ccCCCCC--cccc
Confidence 0 000000000000110000 000 00133332210 0111222 5556
Q ss_pred eccccccccc-cccCcEEEeeCCEecCCHH--HHHHHHHccCCCeEEEEEEc
Q 036586 486 LVADINIGYE-EIVNTQVLALNGKPVQNLK--SLADMVESSEDEFLKFDLEY 534 (568)
Q Consensus 486 ~~~~~~~g~~-~~~gd~I~~VNg~pV~~l~--~f~~~l~~~~~~~v~l~v~R 534 (568)
..++++..-+ +..||.|++|||+.+-++. +.+++||.+ +-.|+|+|.-
T Consensus 786 ieGSPAdRCgkLkVGDrilAVNG~sI~~lsHadiv~LIKda-GlsVtLtIip 836 (984)
T KOG3209|consen 786 IEGSPADRCGKLKVGDRILAVNGQSILNLSHADIVSLIKDA-GLSVTLTIIP 836 (984)
T ss_pred ccCChhHhhccccccceEEEecCeeeeccCchhHHHHHHhc-CceEEEEEcC
Confidence 6666654333 5589999999999999885 678888875 5688888753
No 44
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=98.06 E-value=5.1e-06 Score=88.81 Aligned_cols=61 Identities=21% Similarity=0.380 Sum_probs=50.2
Q ss_pred EEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEE-ECCEEEEEEEEec
Q 036586 340 IRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVL-RNSEVHEFNIKLS 414 (568)
Q Consensus 340 V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~-R~g~~~~v~v~l~ 414 (568)
|..|.|+|||++ ||++||+|++|||++|.+|.|+ ..++ .++.+.++|. |+|+..++++...
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~----------~~~l----~~e~l~L~V~~rdGe~~~l~Ie~~ 64 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDY----------QFLC----ADEELELEVLDANGESHQIEIEKD 64 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHH----------HHHh----cCCcEEEEEEcCCCeEEEEEEecC
Confidence 677999999999 9999999999999999999883 3344 2467899997 8998877776643
No 45
>PRK10942 serine endoprotease; Provisional
Probab=98.00 E-value=2.9e-05 Score=85.46 Aligned_cols=84 Identities=21% Similarity=0.160 Sum_probs=69.6
Q ss_pred eeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCC
Q 036586 433 IIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQN 512 (568)
Q Consensus 433 ~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~ 512 (568)
.|+|+.+++++ +.+.+.++++ ..+|++|..|.+++++...+++.||+|++|||++|.+
T Consensus 288 g~lGv~~~~l~-~~~a~~~~l~---------------------~~~GvlV~~V~~~SpA~~AGL~~GDvIl~InG~~V~s 345 (473)
T PRK10942 288 GELGIMGTELN-SELAKAMKVD---------------------AQRGAFVSQVLPNSSAAKAGIKAGDVITSLNGKPISS 345 (473)
T ss_pred ceeeeEeeecC-HHHHHhcCCC---------------------CCCceEEEEECCCChHHHcCCCCCCEEEEECCEECCC
Confidence 48999999998 4455566632 2468999999998887777788999999999999999
Q ss_pred HHHHHHHHHcc-CCCeEEEEEEcCeEE
Q 036586 513 LKSLADMVESS-EDEFLKFDLEYQQIV 538 (568)
Q Consensus 513 l~~f~~~l~~~-~~~~v~l~v~R~~~~ 538 (568)
|++|...|... ++..+.+++.|+|+.
T Consensus 346 ~~dl~~~l~~~~~g~~v~l~v~R~G~~ 372 (473)
T PRK10942 346 FAALRAQVGTMPVGSKLTLGLLRDGKP 372 (473)
T ss_pred HHHHHHHHHhcCCCCEEEEEEEECCeE
Confidence 99999999875 466899999998864
No 46
>smart00020 Tryp_SPc Trypsin-like serine protease. Many of these are synthesised as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. A few, however, are active as single chain molecules, and others are inactive due to substitutions of the catalytic triad residues.
Probab=97.97 E-value=0.00022 Score=69.77 Aligned_cols=88 Identities=25% Similarity=0.292 Sum_probs=61.1
Q ss_pred cceEEEEEEeCCEEEEcccccCCCC--eEEEEEcCCC--------cEEEEEEEEEe-------CCCCeEEEEeccCc-cc
Q 036586 149 SSSSSGFIVGGRRVLTNAHSVEHHT--QVKVKKRGSD--------TKYLATVLSIG-------TECDIALLTVKDDE-FW 210 (568)
Q Consensus 149 ~~~GSGfiI~~G~ILTn~HVV~~~~--~i~V~~~~dg--------~~~~a~vv~~d-------~~~DlAlLkv~~~~-~~ 210 (568)
....+|.+|++.+|||++|++.+.. .+.|.+. .. ..+.+.-+..+ ...|||||+++... +.
T Consensus 25 ~~~C~GtlIs~~~VLTaahC~~~~~~~~~~v~~g-~~~~~~~~~~~~~~v~~~~~~p~~~~~~~~~DiAll~L~~~i~~~ 103 (229)
T smart00020 25 RHFCGGSLISPRWVLTAAHCVYGSDPSNIRVRLG-SHDLSSGEEGQVIKVSKVIIHPNYNPSTYDNDIALLKLKSPVTLS 103 (229)
T ss_pred CcEEEEEEecCCEEEECHHHcCCCCCcceEEEeC-cccCCCCCCceEEeeEEEEECCCCCCCCCcCCEEEEEECcccCCC
Confidence 3679999999999999999998753 6777763 32 23333333332 45799999998653 22
Q ss_pred cCccceecCCC---cccCCeEEEEecCCCC
Q 036586 211 EGVSPVEFGDL---PALQDAVTVVGYPIGG 237 (568)
Q Consensus 211 ~~l~~~~l~~~---~~~g~~V~aiG~P~g~ 237 (568)
..+.|+.|... ...++.+.++|+....
T Consensus 104 ~~~~pi~l~~~~~~~~~~~~~~~~g~g~~~ 133 (229)
T smart00020 104 DNVRPICLPSSNYNVPAGTTCTVSGWGRTS 133 (229)
T ss_pred CceeeccCCCcccccCCCCEEEEEeCCCCC
Confidence 35677777654 3456889999987654
No 47
>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=97.97 E-value=2e-05 Score=64.82 Aligned_cols=48 Identities=25% Similarity=0.447 Sum_probs=39.9
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCC
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIAN 369 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~ 369 (568)
..+|+.+... ... ..|++|..|.++|||++ ||++||+|++|||+++.+
T Consensus 12 ~~~G~~~~~~-~~~----------~~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~ 60 (82)
T cd00992 12 GGLGFSLRGG-KDS----------GGGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEG 60 (82)
T ss_pred CCcCEEEeCc-ccC----------CCCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCc
Confidence 4578887665 111 24899999999999999 999999999999999994
No 48
>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=97.96 E-value=2.4e-05 Score=64.99 Aligned_cols=60 Identities=15% Similarity=0.252 Sum_probs=52.9
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEEEcC-eE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDLEYQ-QI 537 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v~R~-~~ 537 (568)
.+++|+.+.+++++...+++.||+|++|||+++.+| +++..+++..++..+.+++.|+ +.
T Consensus 13 ~~~~V~~v~~~s~a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v~r~~~~ 75 (85)
T cd00988 13 GGLVITSVLPGSPAAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTLKRGDGE 75 (85)
T ss_pred CeEEEEEecCCCCHHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEEEcCCCC
Confidence 358899999988877778889999999999999999 9999999887778899999998 64
No 49
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=97.93 E-value=4.2e-05 Score=82.45 Aligned_cols=81 Identities=23% Similarity=0.411 Sum_probs=61.3
Q ss_pred CceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHh
Q 036586 310 FPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVS 388 (568)
Q Consensus 310 ~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~ 388 (568)
+..+|++++.. + ..++.|.++.+++||++ ||++||+|++|||+++.... +.+++.
T Consensus 99 ~~GiG~~i~~~-~------------~~~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~-----------~~~av~ 154 (406)
T COG0793 99 FGGIGIELQME-D------------IGGVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVS-----------LDEAVK 154 (406)
T ss_pred ccceeEEEEEe-c------------CCCcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCC-----------HHHHHH
Confidence 67799998775 1 25899999999999999 99999999999999998764 222332
Q ss_pred c--cCCCCEEEEEEEECCEEEEEEEEec
Q 036586 389 Q--KYTGDSAVVKVLRNSEVHEFNIKLS 414 (568)
Q Consensus 389 ~--~~~g~~v~l~V~R~g~~~~v~v~l~ 414 (568)
. -..|..|+|+|.|.+....+.+++.
T Consensus 155 ~irG~~Gt~V~L~i~r~~~~k~~~v~l~ 182 (406)
T COG0793 155 LIRGKPGTKVTLTILRAGGGKPFTVTLT 182 (406)
T ss_pred HhCCCCCCeEEEEEEEcCCCceeEEEEE
Confidence 2 3478899999999754444444443
No 50
>PRK10898 serine endoprotease; Provisional
Probab=97.92 E-value=5.6e-05 Score=80.20 Aligned_cols=84 Identities=17% Similarity=0.108 Sum_probs=66.8
Q ss_pred eecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCEecCCH
Q 036586 434 IAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL 513 (568)
Q Consensus 434 ~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l 513 (568)
|+|+..+++. +.....+++ ....|++|..|.+++++...+++.||+|++|||++|.++
T Consensus 257 ~lGi~~~~~~-~~~~~~~~~---------------------~~~~Gv~V~~V~~~spA~~aGL~~GDvI~~Ing~~V~s~ 314 (353)
T PRK10898 257 YIGIGGREIA-PLHAQGGGI---------------------DQLQGIVVNEVSPDGPAAKAGIQVNDLIISVNNKPAISA 314 (353)
T ss_pred ccceEEEECC-HHHHHhcCC---------------------CCCCeEEEEEECCCChHHHcCCCCCCEEEEECCEEcCCH
Confidence 7898888876 323322331 223689999999998888778889999999999999999
Q ss_pred HHHHHHHHc-cCCCeEEEEEEcCeEEE
Q 036586 514 KSLADMVES-SEDEFLKFDLEYQQIVV 539 (568)
Q Consensus 514 ~~f~~~l~~-~~~~~v~l~v~R~~~~~ 539 (568)
.+|.+.+.. .++..+.+++.|+++.+
T Consensus 315 ~~l~~~l~~~~~g~~v~l~v~R~g~~~ 341 (353)
T PRK10898 315 LETMDQVAEIRPGSVIPVVVMRDDKQL 341 (353)
T ss_pred HHHHHHHHhcCCCCEEEEEEEECCEEE
Confidence 999999987 45678999999988643
No 51
>COG3591 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]
Probab=97.80 E-value=0.00028 Score=70.61 Aligned_cols=152 Identities=18% Similarity=0.246 Sum_probs=86.7
Q ss_pred eEEEEEEeCCEEEEcccccCCCC----eEEEEE---cCCCc-EEEE--EEEEEe-C---CCCeEEEEeccCccccCccc-
Q 036586 151 SSSGFIVGGRRVLTNAHSVEHHT----QVKVKK---RGSDT-KYLA--TVLSIG-T---ECDIALLTVKDDEFWEGVSP- 215 (568)
Q Consensus 151 ~GSGfiI~~G~ILTn~HVV~~~~----~i~V~~---~~dg~-~~~a--~vv~~d-~---~~DlAlLkv~~~~~~~~l~~- 215 (568)
..++|+|++..|||++||+-... ++.+.. .+++. .+.. ....+. . +.|.+...+.+..+....++
T Consensus 65 ~~~~~lI~pntvLTa~Hc~~s~~~G~~~~~~~p~g~~~~~~~~~~~~~~~~~~~~g~~~~~d~~~~~v~~~~~~~g~~~~ 144 (251)
T COG3591 65 CTAATLIGPNTVLTAGHCIYSPDYGEDDIAAAPPGVNSDGGPFYGITKIEIRVYPGELYKEDGASYDVGEAALESGINIG 144 (251)
T ss_pred eeeEEEEcCceEEEeeeEEecCCCChhhhhhcCCcccCCCCCCCceeeEEEEecCCceeccCCceeeccHHHhccCCCcc
Confidence 44669999999999999997433 222221 01222 1111 111112 2 45777777764432111222
Q ss_pred -------eecCCCcccCCeEEEEecCCCCC---CceEEEEEEeeeeccccc--------CCCceeecccceEEEEEeeee
Q 036586 216 -------VEFGDLPALQDAVTVVGYPIGGD---TISVTSGVVSRMEILSYV--------HGSTELLGLQGKCVGIAFQSL 277 (568)
Q Consensus 216 -------~~l~~~~~~g~~V~aiG~P~g~~---~~svt~GiIs~~~~~~~~--------~ggspL~n~~G~VVGI~~~~~ 277 (568)
..+....++++.+-++|||.+.. ....+.+.|..+....+. .+|||+++.+.+|||+.+.+.
T Consensus 145 ~~~~~~~~~~~~~~~~~d~i~v~GYP~dk~~~~~~~e~t~~v~~~~~~~l~y~~dT~pG~SGSpv~~~~~~vigv~~~g~ 224 (251)
T COG3591 145 DVVNYLKRNTASEAKANDRITVIGYPGDKPNIGTMWESTGKVNSIKGNKLFYDADTLPGSSGSPVLISKDEVIGVHYNGP 224 (251)
T ss_pred ccccccccccccccccCceeEEEeccCCCCcceeEeeecceeEEEecceEEEEecccCCCCCCceEecCceEEEEEecCC
Confidence 22223446778899999998754 223455666555433221 356699999999999999866
Q ss_pred cCCCCccccccc-cchhhhHhHHHhh
Q 036586 278 KNDDVENIGYVI-PTPVIIHFIQDYE 302 (568)
Q Consensus 278 ~~~~~~~~~~aI-P~~~i~~~l~~l~ 302 (568)
...+....++++ -...++++++++.
T Consensus 225 ~~~~~~~~n~~vr~t~~~~~~I~~~~ 250 (251)
T COG3591 225 GANGGSLANNAVRLTPEILNFIQQNI 250 (251)
T ss_pred CcccccccCcceEecHHHHHHHHHhh
Confidence 533334444443 3356666666653
No 52
>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=97.80 E-value=5e-05 Score=60.55 Aligned_cols=54 Identities=24% Similarity=0.255 Sum_probs=48.4
Q ss_pred eEEEEEEeccccccccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEE
Q 036586 479 IVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDL 532 (568)
Q Consensus 479 gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v 532 (568)
+++|+.|.+++++...+++.||+|++|||+++.++ +++.++++...+..++|++
T Consensus 14 ~~~V~~v~~~s~a~~~gl~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v 69 (70)
T cd00136 14 GVVVLSVEPGSPAERAGLQAGDVILAVNGTDVKNLTLEDVAELLKKEVGEKVTLTV 69 (70)
T ss_pred CEEEEEeCCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhhCCCCeEEEEE
Confidence 58999999988877777889999999999999999 9999999998877888876
No 53
>KOG3209 consensus WW domain-containing protein [General function prediction only]
Probab=97.76 E-value=0.00014 Score=80.22 Aligned_cols=55 Identities=27% Similarity=0.366 Sum_probs=44.0
Q ss_pred EEEecCCCcccC--CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECC
Q 036586 340 IRRIEPTAPESH--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNS 404 (568)
Q Consensus 340 V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g 404 (568)
|..|.++|||+. .|+.||.|++|||+.|.+..... +-.++.. .|-+|+|+|.-..
T Consensus 782 iGrIieGSPAdRCgkLkVGDrilAVNG~sI~~lsHad--------iv~LIKd--aGlsVtLtIip~e 838 (984)
T KOG3209|consen 782 IGRIIEGSPADRCGKLKVGDRILAVNGQSILNLSHAD--------IVSLIKD--AGLSVTLTIIPPE 838 (984)
T ss_pred ccccccCChhHhhccccccceEEEecCeeeeccCchh--------HHHHHHh--cCceEEEEEcChh
Confidence 678999999999 59999999999999999887632 3445544 6889999997543
No 54
>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=97.71 E-value=0.00011 Score=60.38 Aligned_cols=59 Identities=12% Similarity=0.051 Sum_probs=47.0
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIV 538 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~ 538 (568)
.+++|+.|.+++++...+++.||+|++|||+++.+|.++.+.+ ..+..+.+.+.|++..
T Consensus 12 ~~~~V~~V~~~s~a~~aGl~~GD~I~~Ing~~v~~~~~~l~~~--~~~~~v~l~v~r~g~~ 70 (80)
T cd00990 12 GLGKVTFVRDDSPADKAGLVAGDELVAVNGWRVDALQDRLKEY--QAGDPVELTVFRDDRL 70 (80)
T ss_pred CcEEEEEECCCChHHHhCCCCCCEEEEECCEEhHHHHHHHHhc--CCCCEEEEEEEECCEE
Confidence 3588999999888777777799999999999999966654333 2456899999998864
No 55
>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=97.66 E-value=0.00013 Score=73.97 Aligned_cols=63 Identities=10% Similarity=-0.033 Sum_probs=56.2
Q ss_pred cceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCC-CeEEEEEEcCeEEE
Q 036586 477 EQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSED-EFLKFDLEYQQIVV 539 (568)
Q Consensus 477 ~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~-~~v~l~v~R~~~~~ 539 (568)
..|+.|..+.+++++..+|++.||+|++|||+++.+++++.+++.+.+. ..+.|++.|+|+..
T Consensus 190 ~~G~~v~~v~~~s~a~~aGLr~GDvIv~ING~~i~~~~~~~~~l~~~~~~~~v~l~V~R~G~~~ 253 (259)
T TIGR01713 190 LEGYRLNPGKDPSLFYKSGLQDGDIAVALNGLDLRDPEQAFQALQMLREETNLTLTVERDGQRE 253 (259)
T ss_pred eeEEEEEecCCCCHHHHcCCCCCCEEEEECCEEcCCHHHHHHHHHhcCCCCeEEEEEEECCEEE
Confidence 4689999999988888888889999999999999999999999999754 58999999999753
No 56
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=97.64 E-value=7.1e-05 Score=75.83 Aligned_cols=67 Identities=25% Similarity=0.356 Sum_probs=55.2
Q ss_pred CceEE-EEecCCCc---ccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEE
Q 036586 336 KGVRI-RRIEPTAP---ESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFN 410 (568)
Q Consensus 336 ~Gv~V-~~V~p~sp---A~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~ 410 (568)
+| ++ -.+.|+.. +.+ |||+||++++|||..+++..+ ...++........++|+|+|||+..++.
T Consensus 204 ~G-l~GYrl~Pgkd~~lF~~~GLq~GDva~sING~dL~D~~q----------a~~l~~~L~~~tei~ltVeRdGq~~~i~ 272 (276)
T PRK09681 204 EG-IVGYAVKPGADRSLFDASGFKEGDIAIALNQQDFTDPRA----------MIALMRQLPSMDSIQLTVLRKGARHDIS 272 (276)
T ss_pred CC-ceEEEECCCCcHHHHHHcCCCCCCEEEEeCCeeCCCHHH----------HHHHHHHhccCCeEEEEEEECCEEEEEE
Confidence 46 44 34777643 456 999999999999999998876 5678888888899999999999999988
Q ss_pred EEe
Q 036586 411 IKL 413 (568)
Q Consensus 411 v~l 413 (568)
+.|
T Consensus 273 i~l 275 (276)
T PRK09681 273 IAL 275 (276)
T ss_pred EEc
Confidence 875
No 57
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=97.64 E-value=0.00011 Score=74.69 Aligned_cols=72 Identities=24% Similarity=0.308 Sum_probs=65.1
Q ss_pred CCceEEEEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEE-CCEEEEEEEEe
Q 036586 335 QKGVRIRRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLR-NSEVHEFNIKL 413 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R-~g~~~~v~v~l 413 (568)
-.||++..|..++|+..-|+.||.|++|||+++.+.++ |.+++....+|++|++++.| +++...+++++
T Consensus 129 y~gvyv~~v~~~~~~~gkl~~gD~i~avdg~~f~s~~e----------~i~~v~~~k~Gd~VtI~~~r~~~~~~~~~~tl 198 (342)
T COG3480 129 YAGVYVLSVIDNSPFKGKLEAGDTIIAVDGEPFTSSDE----------LIDYVSSKKPGDEVTIDYERHNETPEIVTITL 198 (342)
T ss_pred EeeEEEEEccCCcchhceeccCCeEEeeCCeecCCHHH----------HHHHHhccCCCCeEEEEEEeccCCCceEEEEE
Confidence 45999999999999988999999999999999999988 77888888999999999997 88888888888
Q ss_pred ccC
Q 036586 414 STH 416 (568)
Q Consensus 414 ~~~ 416 (568)
...
T Consensus 199 ~~~ 201 (342)
T COG3480 199 IKN 201 (342)
T ss_pred Eee
Confidence 765
No 58
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=97.47 E-value=0.0013 Score=71.43 Aligned_cols=77 Identities=23% Similarity=0.292 Sum_probs=57.2
Q ss_pred HHHhcCCCCCCCceEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEE
Q 036586 325 LRISMGMRPGQKGVRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLR 402 (568)
Q Consensus 325 ~~~~lgl~~~~~Gv~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R 402 (568)
-.+.|||.- ..-++|.++...+-|+. +||.||+|++|||....++.-- +...++... . .++.|.|+|
T Consensus 209 ~nEEyGlrL-gSqIFvKeit~~gLAardgnlqEGDiiLkINGtvteNmSLt--------Dar~LIEkS-~-GKL~lvVlR 277 (1027)
T KOG3580|consen 209 ANEEYGLRL-GSQIFVKEITRTGLAARDGNLQEGDIILKINGTVTENMSLT--------DARKLIEKS-R-GKLQLVVLR 277 (1027)
T ss_pred cchhhcccc-cchhhhhhhcccchhhccCCcccccEEEEECcEeeccccch--------hHHHHHHhc-c-CceEEEEEe
Confidence 345678876 55688999999998888 7999999999999877765321 134566553 3 468999999
Q ss_pred CCEEEEEEEE
Q 036586 403 NSEVHEFNIK 412 (568)
Q Consensus 403 ~g~~~~v~v~ 412 (568)
|....-++|+
T Consensus 278 D~~qtLiNiP 287 (1027)
T KOG3580|consen 278 DSQQTLINIP 287 (1027)
T ss_pred cCCceeeecC
Confidence 9877666664
No 59
>PRK11186 carboxy-terminal protease; Provisional
Probab=97.46 E-value=0.00062 Score=77.47 Aligned_cols=81 Identities=15% Similarity=0.160 Sum_probs=55.0
Q ss_pred eeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC--CCCCCCEEEEEC--CEEcCCCCCCccccCccchHHHHH
Q 036586 312 ILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH--VLKPSDIILSFD--GIDIANDGTVPFRHGERIGFSYLV 387 (568)
Q Consensus 312 ~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~--GL~~GDiIl~In--G~~V~~~~dl~~~~~~~~~l~~~l 387 (568)
-||+.++.. ..+++|..|.|+|||++ ||++||+|++|| |+++.+....... ++..++
T Consensus 245 GIGa~l~~~--------------~~~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~-----~vv~li 305 (667)
T PRK11186 245 GIGAVLQMD--------------DDYTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLD-----DVVALI 305 (667)
T ss_pred EEEEEEEEe--------------CCeEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHH-----HHHHHh
Confidence 478887654 34689999999999998 899999999999 5554433221100 023334
Q ss_pred hccCCCCEEEEEEEEC---CEEEEEEEE
Q 036586 388 SQKYTGDSAVVKVLRN---SEVHEFNIK 412 (568)
Q Consensus 388 ~~~~~g~~v~l~V~R~---g~~~~v~v~ 412 (568)
.. ..|.+|.|+|.|+ ++...++++
T Consensus 306 rG-~~Gt~V~LtV~r~~~~~~~~~vtl~ 332 (667)
T PRK11186 306 KG-PKGSKVRLEILPAGKGTKTRIVTLT 332 (667)
T ss_pred cC-CCCCEEEEEEEeCCCCCceEEEEEE
Confidence 32 4789999999994 455555553
No 60
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=0.00058 Score=65.47 Aligned_cols=74 Identities=18% Similarity=0.201 Sum_probs=58.5
Q ss_pred ceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEecc
Q 036586 337 GVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLST 415 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~ 415 (568)
-++|..|.|+|||+. ||+.||.|+++....-.++..+. .+. .+.....++.+.++|.|.|+...+.++...
T Consensus 140 Fa~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq-------~i~-~~v~~~e~~~v~v~v~R~g~~v~L~ltP~~ 211 (231)
T KOG3129|consen 140 FAVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQ-------NIA-AVVQSNEDQIVSVTVIREGQKVVLSLTPKK 211 (231)
T ss_pred eEEEeecCCCChhhhhCcccCceEEEecccccccchhHH-------HHH-HHHHhccCcceeEEEecCCCEEEEEeCccc
Confidence 467899999999999 99999999999887666655421 122 233345788999999999999999999888
Q ss_pred CCC
Q 036586 416 HKR 418 (568)
Q Consensus 416 ~~~ 418 (568)
|..
T Consensus 212 W~G 214 (231)
T KOG3129|consen 212 WQG 214 (231)
T ss_pred ccC
Confidence 865
No 61
>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=97.32 E-value=0.00077 Score=55.21 Aligned_cols=54 Identities=19% Similarity=0.201 Sum_probs=45.7
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecC--CHHHHHHHHHccCCCeEEEEE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQ--NLKSLADMVESSEDEFLKFDL 532 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~--~l~~f~~~l~~~~~~~v~l~v 532 (568)
.+++|..+.+++++...+++.||+|++|||+++. +++++.++++.... .+.+.+
T Consensus 26 ~~~~V~~v~~~s~a~~~gl~~GD~I~~ing~~i~~~~~~~~~~~l~~~~~-~v~l~v 81 (82)
T cd00992 26 GGIFVSRVEPGGPAERGGLRVGDRILEVNGVSVEGLTHEEAVELLKNSGD-EVTLTV 81 (82)
T ss_pred CCeEEEEECCCChHHhCCCCCCCEEEEECCEEcCccCHHHHHHHHHhCCC-eEEEEE
Confidence 3589999999888777778899999999999999 99999999998654 566554
No 62
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=97.31 E-value=0.00046 Score=74.60 Aligned_cols=86 Identities=22% Similarity=0.392 Sum_probs=67.7
Q ss_pred eeEEEEEcCCHHHHHhcCCCCC--CCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 313 LGVEWQKMENPDLRISMGMRPG--QKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 313 lGi~~~~~~~~~~~~~lgl~~~--~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
.|+.+..+ ... .-+||+..+ ..+.+|..|.++|||.+ ||.+||.|++|||. + + .+..
T Consensus 439 ~gL~~~~~-~~~-~~~LGl~v~~~~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~---s--~-------------~l~~ 498 (558)
T COG3975 439 FGLTFTPK-PRE-AYYLGLKVKSEGGHEKITFVFPGGPAYKAGLSPGDKIVAINGI---S--D-------------QLDR 498 (558)
T ss_pred cceEEEec-CCC-CcccceEecccCCeeEEEecCCCChhHhccCCCccEEEEEcCc---c--c-------------cccc
Confidence 57777776 332 556777653 44688999999999999 99999999999998 1 1 2445
Q ss_pred cCCCCEEEEEEEECCEEEEEEEEeccCCC
Q 036586 390 KYTGDSAVVKVLRNSEVHEFNIKLSTHKR 418 (568)
Q Consensus 390 ~~~g~~v~l~V~R~g~~~~v~v~l~~~~~ 418 (568)
...++.+++++.|.|..+++.+++...+.
T Consensus 499 ~~~~d~i~v~~~~~~~L~e~~v~~~~~~~ 527 (558)
T COG3975 499 YKVNDKIQVHVFREGRLREFLVKLGGDPT 527 (558)
T ss_pred cccccceEEEEccCCceEEeecccCCCcc
Confidence 56889999999999999999988876543
No 63
>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=97.28 E-value=0.00062 Score=56.12 Aligned_cols=55 Identities=18% Similarity=0.307 Sum_probs=45.7
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEEE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDLE 533 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v~ 533 (568)
.+++|+.+.+++++...+++.||.|++|||+++.++ ++..++++.+.+ .++|++.
T Consensus 25 ~~~~V~~v~~~~~a~~~gl~~GD~Il~INg~~v~~~~~~~~~~~l~~~~~-~v~L~V~ 81 (81)
T PF00595_consen 25 KGVFVSSVVPGSPAERAGLKVGDRILEINGQSVRGMSHDEVVQLLKSASN-PVTLTVQ 81 (81)
T ss_dssp EEEEEEEECTTSHHHHHTSSTTEEEEEETTEESTTSBHHHHHHHHHHSTS-EEEEEEE
T ss_pred CCEEEEEEeCCChHHhcccchhhhhheeCCEeCCCCCHHHHHHHHHCCCC-cEEEEEC
Confidence 469999999988776666779999999999999966 678888888875 7777763
No 64
>PF04495 GRASP55_65: GRASP55/65 PDZ-like domain ; InterPro: IPR007583 GRASP55 (Golgi reassembly stacking protein of 55 kDa) and GRASP65 (a 65 kDa) protein are highly homologous. GRASP55 is a component of the Golgi stacking machinery. GRASP65, an N-ethylmaleimide-sensitive membrane protein required for the stacking of Golgi cisternae in a cell-free system [].; PDB: 3RLE_A 4EDJ_A.
Probab=97.25 E-value=0.00052 Score=62.89 Aligned_cols=86 Identities=22% Similarity=0.332 Sum_probs=55.1
Q ss_pred CceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCC-CCEEEEECCEEcCCCCCCccccCccchHHHHH
Q 036586 310 FPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKP-SDIILSFDGIDIANDGTVPFRHGERIGFSYLV 387 (568)
Q Consensus 310 ~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~-GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l 387 (568)
.+.||+.++.- +..- ....++-|.+|.|+|||++ ||++ .|.|+.+|+..+++.++ |..++
T Consensus 25 ~g~LG~sv~~~-~~~~-------~~~~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~----------l~~~v 86 (138)
T PF04495_consen 25 QGLLGISVRFE-SFEG-------AEEEGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDD----------LFELV 86 (138)
T ss_dssp SSSS-EEEEEE-E-TT-------GCCCEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCH----------HHHHH
T ss_pred CCCCcEEEEEe-cccc-------cccceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHH----------HHHHH
Confidence 45677776554 1110 1145899999999999999 9999 69999999988887665 77777
Q ss_pred hccCCCCEEEEEEEEC--CEEEEEEEEec
Q 036586 388 SQKYTGDSAVVKVLRN--SEVHEFNIKLS 414 (568)
Q Consensus 388 ~~~~~g~~v~l~V~R~--g~~~~v~v~l~ 414 (568)
+.. .++.+.|.|+.- ...+++.|...
T Consensus 87 ~~~-~~~~l~L~Vyns~~~~vR~V~i~P~ 114 (138)
T PF04495_consen 87 EAN-ENKPLQLYVYNSKTDSVREVTITPS 114 (138)
T ss_dssp HHT-TTS-EEEEEEETTTTCEEEEEE---
T ss_pred HHc-CCCcEEEEEEECCCCeEEEEEEEcC
Confidence 765 678999999973 34455665544
No 65
>PF12812 PDZ_1: PDZ-like domain
Probab=97.25 E-value=0.00057 Score=56.35 Aligned_cols=66 Identities=14% Similarity=0.123 Sum_probs=56.2
Q ss_pred ceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc
Q 036586 311 PILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ 389 (568)
Q Consensus 311 ~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~ 389 (568)
-|.|..|+++ +...+|.++++. |+++.....++++.. ++..|-+|++|||+++.+.++ |.+++..
T Consensus 9 ~~~Ga~f~~L-s~q~aR~~~~~~---~gv~v~~~~g~~~~~~~i~~g~iI~~Vn~kpt~~Ld~----------f~~vvk~ 74 (78)
T PF12812_consen 9 EVCGAVFHDL-SYQQARQYGIPV---GGVYVAVSGGSLAFAGGISKGFIITSVNGKPTPDLDD----------FIKVVKK 74 (78)
T ss_pred EEcCeecccC-CHHHHHHhCCCC---CEEEEEecCCChhhhCCCCCCeEEEeECCcCCcCHHH----------HHHHHHh
Confidence 4789999999 999999999987 466666788888888 699999999999999999877 6666655
Q ss_pred c
Q 036586 390 K 390 (568)
Q Consensus 390 ~ 390 (568)
.
T Consensus 75 i 75 (78)
T PF12812_consen 75 I 75 (78)
T ss_pred C
Confidence 4
No 66
>PF00863 Peptidase_C4: Peptidase family C4 This family belongs to family C4 of the peptidase classification.; InterPro: IPR001730 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. Nuclear inclusion A (NIA) proteases from potyviruses are cysteine peptidases belong to the MEROPS peptidase family C4 (NIa protease family, clan PA(C)) [, ]. Potyviruses include plant viruses in which the single-stranded RNA encodes a polyprotein with NIA protease activity, where proteolytic cleavage is specific for Gln+Gly sites. The NIA protease acts on the polyprotein, releasing itself by Gln+Gly cleavage at both the N- and C-termini. It further processes the polyprotein by cleavage at five similar sites in the C-terminal half of the sequence. In addition to its C-terminal protease activity, the NIA protease contains an N-terminal domain that has been implicated in the transcription process []. This peptidase is present in the nuclear inclusion protein of potyviruses.; GO: 0008234 cysteine-type peptidase activity, 0006508 proteolysis; PDB: 3MMG_B 1Q31_B 1LVB_A 1LVM_A.
Probab=97.24 E-value=0.03 Score=55.74 Aligned_cols=132 Identities=20% Similarity=0.286 Sum_probs=67.2
Q ss_pred CCEEEEcccccC-CCCeEEEEEcCCCcEEEEE---E--EEEeCCCCeEEEEeccCccccCccceecC---CCcccCCeEE
Q 036586 159 GRRVLTNAHSVE-HHTQVKVKKRGSDTKYLAT---V--LSIGTECDIALLTVKDDEFWEGVSPVEFG---DLPALQDAVT 229 (568)
Q Consensus 159 ~G~ILTn~HVV~-~~~~i~V~~~~dg~~~~a~---v--v~~d~~~DlAlLkv~~~~~~~~l~~~~l~---~~~~~g~~V~ 229 (568)
..+|+||+|... +...+.|.. -...|... - +..=+..||.|+|.+.+ +||.+-. ..++.++.|.
T Consensus 40 G~~iItn~HLf~~nng~L~i~s--~hG~f~v~nt~~lkv~~i~~~DiviirmPkD-----fpPf~~kl~FR~P~~~e~v~ 112 (235)
T PF00863_consen 40 GSYIITNAHLFKRNNGELTIKS--QHGEFTVPNTTQLKVHPIEGRDIVIIRMPKD-----FPPFPQKLKFRAPKEGERVC 112 (235)
T ss_dssp TTEEEEEGGGGSSTTCEEEEEE--TTEEEEECEGGGSEEEE-TCSSEEEEE--TT-----S----S---B----TT-EEE
T ss_pred CCEEEEChhhhccCCCeEEEEe--CceEEEcCCccccceEEeCCccEEEEeCCcc-----cCCcchhhhccCCCCCCEEE
Confidence 789999999996 445677776 23333331 1 22235789999999864 5664432 3667889999
Q ss_pred EEecCCCCCCceEEEEEEeeeec---ccc---------cCCCceeecc-cceEEEEEeeeecCCCCccccccccc--hhh
Q 036586 230 VVGYPIGGDTISVTSGVVSRMEI---LSY---------VHGSTELLGL-QGKCVGIAFQSLKNDDVENIGYVIPT--PVI 294 (568)
Q Consensus 230 aiG~P~g~~~~svt~GiIs~~~~---~~~---------~~ggspL~n~-~G~VVGI~~~~~~~~~~~~~~~aIP~--~~i 294 (568)
.||.-+.....+.+..--|.+.. ..+ .+-|+||++. +|++|||.+... .....+|+.|+ +.+
T Consensus 113 mVg~~fq~k~~~s~vSesS~i~p~~~~~fWkHwIsTk~G~CG~PlVs~~Dg~IVGiHsl~~---~~~~~N~F~~f~~~f~ 189 (235)
T PF00863_consen 113 MVGSNFQEKSISSTVSESSWIYPEENSHFWKHWISTKDGDCGLPLVSTKDGKIVGIHSLTS---NTSSRNYFTPFPDDFE 189 (235)
T ss_dssp EEEEECSSCCCEEEEEEEEEEEEETTTTEEEE-C---TT-TT-EEEETTT--EEEEEEEEE---TTTSSEEEEE--TTHH
T ss_pred EEEEEEEcCCeeEEECCceEEeecCCCCeeEEEecCCCCccCCcEEEcCCCcEEEEEcCcc---CCCCeEEEEcCCHHHH
Confidence 99987764432222222222221 111 1246699865 599999998754 23445565555 444
Q ss_pred hHhHHH
Q 036586 295 IHFIQD 300 (568)
Q Consensus 295 ~~~l~~ 300 (568)
..+++.
T Consensus 190 ~~~l~~ 195 (235)
T PF00863_consen 190 EFYLEN 195 (235)
T ss_dssp HHHCC-
T ss_pred HHHhcc
Confidence 444433
No 67
>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=97.14 E-value=0.0013 Score=70.21 Aligned_cols=61 Identities=18% Similarity=0.268 Sum_probs=49.3
Q ss_pred ceEEEEEEec--------cccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCeEE
Q 036586 478 QIVVVSQVLV--------ADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQIV 538 (568)
Q Consensus 478 ~gvvvs~V~~--------~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~~~ 538 (568)
+||+|.+... .+++...+++.||+|++|||++|.+|+||.+++++.+++.+.+++.|+++.
T Consensus 105 ~GVlVvg~~~v~~~~g~~~SPAa~AGLq~GDiIvsING~~V~s~~DL~~iL~~~~g~~V~LtV~R~Ge~ 173 (402)
T TIGR02860 105 KGVLVVGFSDIETEKGKIHSPGEEAGIQIGDRILKINGEKIKNMDDLANLINKAGGEKLTLTIERGGKI 173 (402)
T ss_pred CEEEEEEEEcccccCCCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHHHhCCCCeEEEEEEECCEE
Confidence 4676655422 244555566799999999999999999999999999888999999998864
No 68
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=97.11 E-value=0.0007 Score=74.24 Aligned_cols=126 Identities=15% Similarity=0.230 Sum_probs=76.7
Q ss_pred EEEecCCCcccC--CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccCC
Q 036586 340 IRRIEPTAPESH--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTHK 417 (568)
Q Consensus 340 V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~~ 417 (568)
|+....++||++ .|-.||.|++|||..+-..---. .+.++...+....|+|+|.+=--..++.|. ++
T Consensus 677 iAnmm~~GpAarsgkLnIGDQiiaING~SLVGLPLst--------cQs~Ik~~KnQT~VkltiV~cpPV~~V~I~---RP 745 (829)
T KOG3605|consen 677 IANMMHGGPAARSGKLNIGDQIMSINGTSLVGLPLST--------CQSIIKGLKNQTAVKLNIVSCPPVTTVLIR---RP 745 (829)
T ss_pred HHhcccCChhhhcCCccccceeEeecCceeccccHHH--------HHHHHhcccccceEEEEEecCCCceEEEee---cc
Confidence 445667899999 59999999999998765432100 345666665556688887763332222221 11
Q ss_pred CccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccc
Q 036586 418 RLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEI 497 (568)
Q Consensus 418 ~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~ 497 (568)
+..--+||.+| .||+|| .+-+..+..-|.+
T Consensus 746 ------------d~kyQLGFSVQ-------------------------------------NGiICS-LlRGGIAERGGVR 775 (829)
T KOG3605|consen 746 ------------DLRYQLGFSVQ-------------------------------------NGIICS-LLRGGIAERGGVR 775 (829)
T ss_pred ------------cchhhccceee-------------------------------------CcEeeh-hhcccchhccCce
Confidence 10112444332 357776 4456565555677
Q ss_pred cCcEEEeeCCEecCCH-H-HHHHHHHccCCC
Q 036586 498 VNTQVLALNGKPVQNL-K-SLADMVESSEDE 526 (568)
Q Consensus 498 ~gd~I~~VNg~pV~~l-~-~f~~~l~~~~~~ 526 (568)
.|-+|++||||.|=-. . -.+++|..+-++
T Consensus 776 VGHRIIEINgQSVVA~pHekIV~lLs~aVGE 806 (829)
T KOG3605|consen 776 VGHRIIEINGQSVVATPHEKIVQLLSNAVGE 806 (829)
T ss_pred eeeeEEEECCceEEeccHHHHHHHHHHhhhh
Confidence 9999999999998533 2 356666655443
No 69
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=97.09 E-value=0.00056 Score=66.87 Aligned_cols=66 Identities=18% Similarity=0.268 Sum_probs=53.6
Q ss_pred ceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEE
Q 036586 337 GVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIK 412 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~ 412 (568)
|..+.-..+.+...+ |||.||+.++||+..+++.++ ...+++....-..+.++|.|+|+...+.|.
T Consensus 208 Gyr~~pgkd~slF~~sglq~GDIavaiNnldltdp~~----------m~~llq~l~~m~s~qlTv~R~G~rhdInV~ 274 (275)
T COG3031 208 GYRFEPGKDGSLFYKSGLQRGDIAVAINNLDLTDPED----------MFRLLQMLRNMPSLQLTVIRRGKRHDINVR 274 (275)
T ss_pred EEEecCCCCcchhhhhcCCCcceEEEecCcccCCHHH----------HHHHHHhhhcCcceEEEEEecCccceeeec
Confidence 444444455667778 999999999999999999887 566777776778899999999999988774
No 70
>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=96.92 E-value=0.002 Score=52.80 Aligned_cols=58 Identities=21% Similarity=0.202 Sum_probs=44.8
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHH--HHccCCCeEEEEEEcCe
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADM--VESSEDEFLKFDLEYQQ 536 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~--l~~~~~~~v~l~v~R~~ 536 (568)
.+++|..|.+++++...+++.||+|++|||+++.++.++... ++.. +..+.|.+.|++
T Consensus 26 ~~~~i~~v~~~s~a~~~gl~~GD~I~~In~~~v~~~~~~~~~~~~~~~-~~~~~l~i~r~~ 85 (85)
T smart00228 26 GGVVVSSVVPGSPAAKAGLKVGDVILEVNGTSVEGLTHLEAVDLLKKA-GGKVTLTVLRGG 85 (85)
T ss_pred CCEEEEEECCCCHHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHHhC-CCeEEEEEEeCC
Confidence 458999999988776666779999999999999987654433 4443 348889988864
No 71
>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=96.80 E-value=0.0022 Score=67.58 Aligned_cols=59 Identities=8% Similarity=0.146 Sum_probs=51.1
Q ss_pred eEEEEEEeccccccccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEEEcCeE
Q 036586 479 IVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDLEYQQI 537 (568)
Q Consensus 479 gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v~R~~~ 537 (568)
+++|..|.+++++...+++.||+|++|||++|.+| .++...+....+..+.+++.|++.
T Consensus 63 ~~~V~~V~~~spA~~aGL~~GD~I~~Ing~~v~~~~~~~~~~~l~~~~g~~v~l~v~R~g~ 123 (334)
T TIGR00225 63 EIVIVSPFEGSPAEKAGIKPGDKIIKINGKSVAGMSLDDAVALIRGKKGTKVSLEILRAGK 123 (334)
T ss_pred EEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHhccCCCCCEEEEEEEeCCC
Confidence 58899999998888777889999999999999986 678888877778899999999753
No 72
>PLN00049 carboxyl-terminal processing protease; Provisional
Probab=96.74 E-value=0.0034 Score=67.61 Aligned_cols=59 Identities=17% Similarity=0.127 Sum_probs=51.1
Q ss_pred eEEEEEEeccccccccccccCcEEEeeCCEecCC--HHHHHHHHHccCCCeEEEEEEcCeE
Q 036586 479 IVVVSQVLVADINIGYEEIVNTQVLALNGKPVQN--LKSLADMVESSEDEFLKFDLEYQQI 537 (568)
Q Consensus 479 gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~--l~~f~~~l~~~~~~~v~l~v~R~~~ 537 (568)
+++|..|.+++++...|++.||+|++|||++|.+ +.++...++...+..+.|++.|++.
T Consensus 103 g~~V~~V~~~SPA~~aGl~~GD~Iv~InG~~v~~~~~~~~~~~l~g~~g~~v~ltv~r~g~ 163 (389)
T PLN00049 103 GLVVVAPAPGGPAARAGIRPGDVILAIDGTSTEGLSLYEAADRLQGPEGSSVELTLRRGPE 163 (389)
T ss_pred cEEEEEeCCCChHHHcCCCCCCEEEEECCEECCCCCHHHHHHHHhcCCCCEEEEEEEECCE
Confidence 5889999998887777788999999999999985 4788888887777889999999875
No 73
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.31 E-value=0.011 Score=62.42 Aligned_cols=147 Identities=18% Similarity=0.215 Sum_probs=98.1
Q ss_pred CCceEEEEecCCCcccC-CCCC-CCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECC--EEEEEE
Q 036586 335 QKGVRIRRIEPTAPESH-VLKP-SDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNS--EVHEFN 410 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~-GL~~-GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g--~~~~v~ 410 (568)
..|.-|-+|..+|++.+ ||.+ -|-|++|||..++...|. |..++.... ++|+|+|+--. ..+.++
T Consensus 14 teg~hvlkVqedSpa~~aglepffdFIvSI~g~rL~~dnd~---------Lk~llk~~s--ekVkltv~n~kt~~~R~v~ 82 (462)
T KOG3834|consen 14 TEGYHVLKVQEDSPAHKAGLEPFFDFIVSINGIRLNKDNDT---------LKALLKANS--EKVKLTVYNSKTQEVRIVE 82 (462)
T ss_pred ceeEEEEEeecCChHHhcCcchhhhhhheeCcccccCchHH---------HHHHHHhcc--cceEEEEEecccceeEEEE
Confidence 45788999999999999 9888 589999999999987763 555665543 34999998532 223333
Q ss_pred EEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEecccc
Q 036586 411 IKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADI 490 (568)
Q Consensus 411 v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~ 490 (568)
|+-..... + .++|.++.--+-+ . ..+..-=|-.|.+.++
T Consensus 83 I~ps~~wg-------g------qllGvsvrFcsf~-~---------------------------A~~~vwHvl~V~p~SP 121 (462)
T KOG3834|consen 83 IVPSNNWG-------G------QLLGVSVRFCSFD-G---------------------------AVESVWHVLSVEPNSP 121 (462)
T ss_pred eccccccc-------c------cccceEEEeccCc-c---------------------------chhheeeeeecCCCCH
Confidence 33221100 0 0345543321100 0 0111122456777788
Q ss_pred ccccccc-cCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEE
Q 036586 491 NIGYEEI-VNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLE 533 (568)
Q Consensus 491 ~~g~~~~-~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~ 533 (568)
++-++++ .+|.|+-+-+.-....+||..+|+.+.++.+++-+.
T Consensus 122 aalAgl~~~~DYivG~~~~~~~~~eDl~~lIeshe~kpLklyVY 165 (462)
T KOG3834|consen 122 AALAGLRPYTDYIVGIWDAVMHEEEDLFTLIESHEGKPLKLYVY 165 (462)
T ss_pred HHhcccccccceEecchhhhccchHHHHHHHHhccCCCcceeEe
Confidence 8878877 589999997777889999999999999988887664
No 74
>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=96.25 E-value=0.0056 Score=65.89 Aligned_cols=54 Identities=19% Similarity=0.180 Sum_probs=44.8
Q ss_pred EEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEE-cCeEE
Q 036586 482 VSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLE-YQQIV 538 (568)
Q Consensus 482 vs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~-R~~~~ 538 (568)
|..|.+++++..+|+.+||+|++|||++|.+|.++..++. ++.+.+++. |+|+.
T Consensus 2 I~~V~pgSpAe~AGLe~GD~IlsING~~V~Dw~D~~~~l~---~e~l~L~V~~rdGe~ 56 (433)
T TIGR03279 2 ISAVLPGSIAEELGFEPGDALVSINGVAPRDLIDYQFLCA---DEELELEVLDANGES 56 (433)
T ss_pred cCCcCCCCHHHHcCCCCCCEEEEECCEECCCHHHHHHHhc---CCcEEEEEEcCCCeE
Confidence 4567788888777888999999999999999999988884 467888886 77754
No 75
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=96.16 E-value=0.0046 Score=52.45 Aligned_cols=35 Identities=29% Similarity=0.483 Sum_probs=32.3
Q ss_pred CCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCC
Q 036586 335 QKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIAN 369 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~ 369 (568)
..|++|++|..+|||+. ||+.+|.|+.+||...+-
T Consensus 58 D~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTM 93 (124)
T KOG3553|consen 58 DKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTM 93 (124)
T ss_pred CccEEEEEeccCChhhhhcceecceEEEecCceeEE
Confidence 57999999999999999 999999999999987653
No 76
>PF05579 Peptidase_S32: Equine arteritis virus serine endopeptidase S32; InterPro: IPR008760 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 MEROPS peptidase family S32 (clan PA(S)). The type example is equine arteritis virus serine endopeptidase (equine arteritis virus), which is involved in processing of nidovirus polyproteins [].; GO: 0004252 serine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 3FAN_A 3FAO_A 1MBM_A.
Probab=96.15 E-value=0.04 Score=55.12 Aligned_cols=110 Identities=18% Similarity=0.203 Sum_probs=63.4
Q ss_pred ceEEEEEE--e-CCEEEEcccccCCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCcccC-
Q 036586 150 SSSSGFIV--G-GRRVLTNAHSVEHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLPALQ- 225 (568)
Q Consensus 150 ~~GSGfiI--~-~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~~~g- 225 (568)
+.|||=++ + +-.|||+.||+. .+...|.. .+... .+-++..-|+|.-.++.-. -.+|.++++. ...|
T Consensus 112 s~Gsggvft~~~~~vvvTAtHVlg-~~~a~v~~--~g~~~---~~tF~~~GDfA~~~~~~~~--G~~P~~k~a~-~~~Gr 182 (297)
T PF05579_consen 112 SVGSGGVFTIGGNTVVVTATHVLG-GNTARVSG--VGTRR---MLTFKKNGDFAEADITNWP--GAAPKYKFAQ-NYTGR 182 (297)
T ss_dssp SEEEEEEEECTTEEEEEEEHHHCB-TTEEEEEE--TTEEE---EEEEEEETTEEEEEETTS---S---B--B-T-T-SEE
T ss_pred cccccceEEECCeEEEEEEEEEcC-CCeEEEEe--cceEE---EEEEeccCcEEEEECCCCC--CCCCceeecC-Ccccc
Confidence 34555555 4 459999999998 66666666 44443 3445667799999994322 3688888872 2222
Q ss_pred -CeEEEEecCCCCCCceEEEEEEeeee---cccccCCCceeecccceEEEEEeeee
Q 036586 226 -DAVTVVGYPIGGDTISVTSGVVSRME---ILSYVHGSTELLGLQGKCVGIAFQSL 277 (568)
Q Consensus 226 -~~V~aiG~P~g~~~~svt~GiIs~~~---~~~~~~ggspL~n~~G~VVGI~~~~~ 277 (568)
-|.. .. -+..|.|..-. .....++|||++..+|.+||+.++.-
T Consensus 183 AyW~t--------~t-GvE~G~ig~~~~~~fT~~GDSGSPVVt~dg~liGVHTGSn 229 (297)
T PF05579_consen 183 AYWLT--------ST-GVEPGFIGGGGAVCFTGPGDSGSPVVTEDGDLIGVHTGSN 229 (297)
T ss_dssp EEEEE--------TT-EEEEEEEETTEEEESS-GGCTT-EEEETTC-EEEEEEEEE
T ss_pred eEEEc--------cc-CcccceecCceEEEEcCCCCCCCccCcCCCCEEEEEecCC
Confidence 1111 11 35556665433 33445788999999999999999854
No 77
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.03 Score=59.23 Aligned_cols=64 Identities=23% Similarity=0.153 Sum_probs=56.2
Q ss_pred cceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccC-CCeEEEEEEcCeEEEE
Q 036586 477 EQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSE-DEFLKFDLEYQQIVVL 540 (568)
Q Consensus 477 ~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~-~~~v~l~v~R~~~~~l 540 (568)
..|+++..|.+++++...+...||+|+++||+++.+..++...+.... +..+.+++.|+|+..-
T Consensus 269 ~~G~~V~~v~~~spa~~agi~~Gdii~~vng~~v~~~~~l~~~v~~~~~g~~v~~~~~r~g~~~~ 333 (347)
T COG0265 269 AAGAVVLGVLPGSPAAKAGIKAGDIITAVNGKPVASLSDLVAAVASNRPGDEVALKLLRGGKERE 333 (347)
T ss_pred CCceEEEecCCCChHHHcCCCCCCEEEEECCEEccCHHHHHHHHhccCCCCEEEEEEEECCEEEE
Confidence 467999999999888888887899999999999999999999998876 6799999999976443
No 78
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=95.57 E-value=0.021 Score=48.22 Aligned_cols=59 Identities=14% Similarity=0.191 Sum_probs=40.3
Q ss_pred ceEEEEEEecc--------cc--ccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEcCe
Q 036586 478 QIVVVSQVLVA--------DI--NIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEYQQ 536 (568)
Q Consensus 478 ~gvvvs~V~~~--------~~--~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R~~ 536 (568)
.+..|+.++.+ ++ ..|...+.||.|++|||+++..-.++..+|..-.++.+.|++.+..
T Consensus 12 ~~y~I~~I~~gd~~~~~~~sPL~~pGv~v~~GD~I~aInG~~v~~~~~~~~lL~~~agk~V~Ltv~~~~ 80 (88)
T PF14685_consen 12 GGYRIARIYPGDPWNPNARSPLAQPGVDVREGDYILAINGQPVTADANPYRLLEGKAGKQVLLTVNRKP 80 (88)
T ss_dssp TEEEEEEE-BS-TTSSS-B-GGGGGS----TT-EEEEETTEE-BTTB-HHHHHHTTTTSEEEEEEE-ST
T ss_pred CEEEEEEEeCCCCCCccccCCccCCCCCCCCCCEEEEECCEECCCCCCHHHHhcccCCCEEEEEEecCC
Confidence 34567777653 11 3344556899999999999999999999999999999999999853
No 79
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=95.40 E-value=0.032 Score=56.83 Aligned_cols=48 Identities=6% Similarity=0.005 Sum_probs=42.1
Q ss_pred cccccccCcEEEeeCCEecCCHHHHHHHHHccCCC-eEEEEEEcCeEEE
Q 036586 492 IGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDE-FLKFDLEYQQIVV 539 (568)
Q Consensus 492 ~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~-~v~l~v~R~~~~~ 539 (568)
...|++.||++++|||.++.+.++..++++..++. .+.|+++|||+.+
T Consensus 221 ~~~GLq~GDva~sING~dL~D~~qa~~l~~~L~~~tei~ltVeRdGq~~ 269 (276)
T PRK09681 221 DASGFKEGDIAIALNQQDFTDPRAMIALMRQLPSMDSIQLTVLRKGARH 269 (276)
T ss_pred HHcCCCCCCEEEEeCCeeCCCHHHHHHHHHHhccCCeEEEEEEECCEEE
Confidence 44556699999999999999999999999998766 7999999999854
No 80
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=94.75 E-value=0.077 Score=48.49 Aligned_cols=37 Identities=27% Similarity=0.443 Sum_probs=33.1
Q ss_pred CCceEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCC
Q 036586 335 QKGVRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDG 371 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~ 371 (568)
.+-++|+.|.|++.|+. ||+-||.+++|||..|....
T Consensus 114 nspiyisriipggvadrhgglkrgdqllsvngvsvege~ 152 (207)
T KOG3550|consen 114 NSPIYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEH 152 (207)
T ss_pred CCceEEEeecCCccccccCcccccceeEeecceeecchh
Confidence 45699999999999998 89999999999999997643
No 81
>COG3480 SdrC Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]
Probab=94.40 E-value=0.11 Score=53.40 Aligned_cols=56 Identities=23% Similarity=0.268 Sum_probs=45.7
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccC-CCeEEEEEEc
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSE-DEFLKFDLEY 534 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~-~~~v~l~v~R 534 (568)
.||++..+..+++..|- +..||.|++|||+++.+.++|.+.+++-+ ++.++|++.|
T Consensus 130 ~gvyv~~v~~~~~~~gk-l~~gD~i~avdg~~f~s~~e~i~~v~~~k~Gd~VtI~~~r 186 (342)
T COG3480 130 AGVYVLSVIDNSPFKGK-LEAGDTIIAVDGEPFTSSDELIDYVSSKKPGDEVTIDYER 186 (342)
T ss_pred eeEEEEEccCCcchhce-eccCCeEEeeCCeecCCHHHHHHHHhccCCCCeEEEEEEe
Confidence 57888777666554432 34899999999999999999999999865 6689999997
No 82
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=93.72 E-value=0.1 Score=56.55 Aligned_cols=57 Identities=9% Similarity=0.082 Sum_probs=49.5
Q ss_pred eEEEEEEeccccccccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEEEcC
Q 036586 479 IVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDLEYQ 535 (568)
Q Consensus 479 gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v~R~ 535 (568)
++.|....++.++.+++.++||.|++|||+++.+. ++.++.|+.-++..++|++.|.
T Consensus 113 ~~~V~s~~~~~PA~kagi~~GD~I~~IdG~~~~~~~~~~av~~irG~~Gt~V~L~i~r~ 171 (406)
T COG0793 113 GVKVVSPIDGSPAAKAGIKPGDVIIKIDGKSVGGVSLDEAVKLIRGKPGTKVTLTILRA 171 (406)
T ss_pred CcEEEecCCCChHHHcCCCCCCEEEEECCEEccCCCHHHHHHHhCCCCCCeEEEEEEEc
Confidence 46777788888888888889999999999999976 6788899888888999999994
No 83
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=93.10 E-value=0.1 Score=59.93 Aligned_cols=57 Identities=25% Similarity=0.289 Sum_probs=43.9
Q ss_pred ceEEEEecCCCcccCCCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEEC
Q 036586 337 GVRIRRIEPTAPESHVLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRN 403 (568)
Q Consensus 337 Gv~V~~V~p~spA~~GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~ 403 (568)
-|+|..|.+|+|+...|++||.|+.|||++|...-.- | ..++++.. .+.|.|+|.+-
T Consensus 76 PviVr~VT~GGps~GKL~PGDQIl~vN~Epv~dapre------r--vIdlvRac--e~sv~ltV~qP 132 (1298)
T KOG3552|consen 76 PVIVRFVTEGGPSIGKLQPGDQILAVNGEPVKDAPRE------R--VIDLVRAC--ESSVNLTVCQP 132 (1298)
T ss_pred ceEEEEecCCCCccccccCCCeEEEecCcccccccHH------H--HHHHHHHH--hhhcceEEecc
Confidence 5889999999999889999999999999999864320 1 23455543 46788888873
No 84
>PRK11186 carboxy-terminal protease; Provisional
Probab=92.35 E-value=0.25 Score=56.71 Aligned_cols=57 Identities=11% Similarity=0.305 Sum_probs=46.6
Q ss_pred eEEEEEEecccccccc-ccccCcEEEeeC--CEecC-----CHHHHHHHHHccCCCeEEEEEEcC
Q 036586 479 IVVVSQVLVADINIGY-EEIVNTQVLALN--GKPVQ-----NLKSLADMVESSEDEFLKFDLEYQ 535 (568)
Q Consensus 479 gvvvs~V~~~~~~~g~-~~~~gd~I~~VN--g~pV~-----~l~~f~~~l~~~~~~~v~l~v~R~ 535 (568)
.++|..|.+++++... ++++||+|++|| |+++. +++++.++|+..+|..|+|++.|+
T Consensus 256 ~~~V~~vipGsPA~ka~gLk~GD~IlaVn~~g~~~~dv~g~~~~~vv~lirG~~Gt~V~LtV~r~ 320 (667)
T PRK11186 256 YTVINSLVAGGPAAKSKKLSVGDKIVGVGQDGKPIVDVIGWRLDDVVALIKGPKGSKVRLEILPA 320 (667)
T ss_pred eEEEEEccCCChHHHhCCCCCCCEEEEECCCCCcccccccCCHHHHHHHhcCCCCCEEEEEEEeC
Confidence 4788889998887765 788999999999 55544 356899999988888999999883
No 85
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=92.26 E-value=0.22 Score=55.50 Aligned_cols=47 Identities=17% Similarity=0.502 Sum_probs=39.6
Q ss_pred eeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCC
Q 036586 313 LGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGT 372 (568)
Q Consensus 313 lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~d 372 (568)
||+.|.... ..-|-|-.|.+++||.+ .|++||++++|||.+|.+..+
T Consensus 388 ig~vf~~~~-------------~~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q 435 (1051)
T KOG3532|consen 388 IGLVFDKNT-------------NRAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQ 435 (1051)
T ss_pred eeEEEecCC-------------ceEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHH
Confidence 788775541 23477888999999999 999999999999999998776
No 86
>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=92.17 E-value=0.29 Score=44.87 Aligned_cols=57 Identities=14% Similarity=0.093 Sum_probs=45.3
Q ss_pred ceEEEEEEecccccccccccc-CcEEEeeCCEecCCHHHHHHHHHccCCCeEEEEEEc
Q 036586 478 QIVVVSQVLVADINIGYEEIV-NTQVLALNGKPVQNLKSLADMVESSEDEFLKFDLEY 534 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~-gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v~l~v~R 534 (568)
.+.-|..|.+++++...|+.+ .|.|+.+|+....+.++|.+.++++.++.+.|.|..
T Consensus 43 ~~~~Vl~V~p~SPA~~AGL~p~~DyIig~~~~~l~~~~~l~~~v~~~~~~~l~L~Vyn 100 (138)
T PF04495_consen 43 EGWHVLRVAPNSPAAKAGLEPFFDYIIGIDGGLLDDEDDLFELVEANENKPLQLYVYN 100 (138)
T ss_dssp CEEEEEEE-TTSHHHHTT--TTTEEEEEETTCE--STCHHHHHHHHTTTS-EEEEEEE
T ss_pred ceEEEeEecCCCHHHHCCccccccEEEEccceecCCHHHHHHHHHHcCCCcEEEEEEE
Confidence 456788999999988777777 799999999999999999999999999999998864
No 87
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=92.12 E-value=0.14 Score=57.02 Aligned_cols=61 Identities=18% Similarity=0.160 Sum_probs=45.2
Q ss_pred CCCCCCCceEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEE
Q 036586 330 GMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVL 401 (568)
Q Consensus 330 gl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~ 401 (568)
|=.++..|++|.+|.|++.|+. ||+-||.|++|||+...+.. +.+...-......++|+|.
T Consensus 556 GGsEkGfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis-----------~~KA~eiLrnnthLtltvK 617 (1283)
T KOG3542|consen 556 GGSEKGFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENIS-----------AKKAEEILRNNTHLTLTVK 617 (1283)
T ss_pred cCccccceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhh-----------HHHHHHHhcCCceEEEEEe
Confidence 3334567899999999999999 99999999999998877654 3444444434455666654
No 88
>PF00548 Peptidase_C3: 3C cysteine protease (picornain 3C); InterPro: IPR000199 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This signature defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies C3A and C3B. The protein fold of this peptidase domain for members of this family resembles that of the serine peptidase, chymotrypsin [], the type example for clan PA. Picornaviral proteins are expressed as a single polyprotein which is cleaved by the viral C3 cysteine protease. The poliovirus polyprotein is selectively cleaved between the Gln-|-Gly bond. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly. ; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 3SJO_E 2H6M_A 1QA7_C 1HAV_B 2HAL_A 2H9H_A 3QZQ_B 3QZR_A 3R0F_B 3SJ9_A ....
Probab=90.20 E-value=8 Score=36.80 Aligned_cols=121 Identities=17% Similarity=0.282 Sum_probs=65.2
Q ss_pred cceEEEEEEeCCEEEEcccccCCCCeEEEEEcCCCcEEEE--EEEEEeCC---CCeEEEEeccCccccCccc-eecCCCc
Q 036586 149 SSSSSGFIVGGRRVLTNAHSVEHHTQVKVKKRGSDTKYLA--TVLSIGTE---CDIALLTVKDDEFWEGVSP-VEFGDLP 222 (568)
Q Consensus 149 ~~~GSGfiI~~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a--~vv~~d~~---~DlAlLkv~~~~~~~~l~~-~~l~~~~ 222 (568)
...++|+.|-+.++|.+.| ......+.+ +|..++. .+.-.+.. .||++++++...-++++.. +. ....
T Consensus 24 ~~t~l~~gi~~~~~lvp~H---~~~~~~i~i--~g~~~~~~d~~~lv~~~~~~~Dl~~v~l~~~~kfrDIrk~~~-~~~~ 97 (172)
T PF00548_consen 24 EFTMLALGIYDRYFLVPTH---EEPEDTIYI--DGVEYKVDDSVVLVDRDGVDTDLTLVKLPRNPKFRDIRKFFP-ESIP 97 (172)
T ss_dssp EEEEEEEEEEBTEEEEEGG---GGGCSEEEE--TTEEEEEEEEEEEEETTSSEEEEEEEEEESSS-B--GGGGSB-SSGG
T ss_pred eEEEecceEeeeEEEEECc---CCCcEEEEE--CCEEEEeeeeEEEecCCCcceeEEEEEccCCcccCchhhhhc-cccc
Confidence 4678888999999999999 233334444 4555533 33334544 5999999976442223322 22 1222
Q ss_pred ccCCeEEEEecCCCCCCceEEEEEEeeeecc-----------ccc------CCCceeec---ccceEEEEEeee
Q 036586 223 ALQDAVTVVGYPIGGDTISVTSGVVSRMEIL-----------SYV------HGSTELLG---LQGKCVGIAFQS 276 (568)
Q Consensus 223 ~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~-----------~~~------~ggspL~n---~~G~VVGI~~~~ 276 (568)
...+.+.++-++.. ....+..+.|+..+.. .|. .-||||+. ..++++||..++
T Consensus 98 ~~~~~~l~v~~~~~-~~~~~~v~~v~~~~~i~~~g~~~~~~~~Y~~~t~~G~CG~~l~~~~~~~~~i~GiHvaG 170 (172)
T PF00548_consen 98 EYPECVLLVNSTKF-PRMIVEVGFVTNFGFINLSGTTTPRSLKYKAPTKPGMCGSPLVSRIGGQGKIIGIHVAG 170 (172)
T ss_dssp TEEEEEEEEESSSS-TCEEEEEEEEEEEEEEEETTEEEEEEEEEESEEETTGTTEEEEESCGGTTEEEEEEEEE
T ss_pred cCCCcEEEEECCCC-ccEEEEEEEEeecCccccCCCEeeEEEEEccCCCCCccCCeEEEeeccCccEEEEEecc
Confidence 33445555543322 2213333333332110 111 24678874 358999999884
No 89
>KOG3605 consensus Beta amyloid precursor-binding protein [General function prediction only]
Probab=89.34 E-value=0.48 Score=52.78 Aligned_cols=81 Identities=19% Similarity=0.303 Sum_probs=59.5
Q ss_pred ccccchhhhHhHHHhhhcCccccCcee---eEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-CCCCCCEEEEE
Q 036586 287 YVIPTPVIIHFIQDYEKNGAYTGFPIL---GVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-VLKPSDIILSF 362 (568)
Q Consensus 287 ~aIP~~~i~~~l~~l~~~g~~~~~~~l---Gi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-GL~~GDiIl~I 362 (568)
..+|.+.+..+++.++..-.+. +-.+ -+.-..+.-++++..||+.. ++|+ |-....++.|+. |++.|-.|++|
T Consensus 707 VGLPLstcQs~Ik~~KnQT~Vk-ltiV~cpPV~~V~I~RPd~kyQLGFSV-QNGi-ICSLlRGGIAERGGVRVGHRIIEI 783 (829)
T KOG3605|consen 707 VGLPLSTCQSIIKGLKNQTAVK-LNIVSCPPVTTVLIRRPDLRYQLGFSV-QNGI-ICSLLRGGIAERGGVRVGHRIIEI 783 (829)
T ss_pred ccccHHHHHHHHhcccccceEE-EEEecCCCceEEEeecccchhhcccee-eCcE-eehhhcccchhccCceeeeeEEEE
Confidence 4589999999999886544332 1111 12222233788899999998 7787 455788999999 99999999999
Q ss_pred CCEEcCCC
Q 036586 363 DGIDIAND 370 (568)
Q Consensus 363 nG~~V~~~ 370 (568)
||+.|--.
T Consensus 784 NgQSVVA~ 791 (829)
T KOG3605|consen 784 NGQSVVAT 791 (829)
T ss_pred CCceEEec
Confidence 99987643
No 90
>KOG3553 consensus Tax interaction protein TIP1 [Cell wall/membrane/envelope biogenesis]
Probab=89.28 E-value=0.43 Score=40.78 Aligned_cols=48 Identities=10% Similarity=0.072 Sum_probs=39.4
Q ss_pred CCcceEEEEEEeccccccccccccCcEEEeeCCEecC--CHHHHHHHHHc
Q 036586 475 VDEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQ--NLKSLADMVES 522 (568)
Q Consensus 475 ~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~--~l~~f~~~l~~ 522 (568)
-..+|++|+.|..++++.-.|++.+|+|+.|||.... +-+..++.|++
T Consensus 56 ytD~GiYvT~V~eGsPA~~AGLrihDKIlQvNG~DfTMvTHd~Avk~i~k 105 (124)
T KOG3553|consen 56 YTDKGIYVTRVSEGSPAEIAGLRIHDKILQVNGWDFTMVTHDQAVKRITK 105 (124)
T ss_pred cCCccEEEEEeccCChhhhhcceecceEEEecCceeEEEEhHHHHHHhhH
Confidence 3557899999999999888888899999999998765 55666777665
No 91
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=88.77 E-value=0.86 Score=49.50 Aligned_cols=38 Identities=18% Similarity=0.363 Sum_probs=32.8
Q ss_pred CCceEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCCC
Q 036586 335 QKGVRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDGT 372 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~d 372 (568)
+.|++|..|.+++..+. -+.+||.|+.||.....++..
T Consensus 276 DggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSN 315 (626)
T KOG3571|consen 276 DGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSN 315 (626)
T ss_pred CCceEEeeeccCceeeccCccCccceEEEeeecchhhcCc
Confidence 56899999999998666 599999999999988877654
No 92
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=88.76 E-value=0.3 Score=51.44 Aligned_cols=39 Identities=23% Similarity=0.350 Sum_probs=36.0
Q ss_pred CCCceEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCCC
Q 036586 334 GQKGVRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDGT 372 (568)
Q Consensus 334 ~~~Gv~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~d 372 (568)
...|+.|++|...||+.. ||++||+|+++||-+|.+.+|
T Consensus 218 ~g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~d 258 (484)
T KOG2921|consen 218 HGEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSD 258 (484)
T ss_pred cCceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHH
Confidence 367999999999999988 999999999999999998776
No 93
>KOG3552 consensus FERM domain protein FRM-8 [General function prediction only]
Probab=88.33 E-value=0.8 Score=52.97 Aligned_cols=53 Identities=28% Similarity=0.405 Sum_probs=42.7
Q ss_pred EEEEEEeccccccccccccCcEEEeeCCEecCC--HHHHHHHHHccCCCeEEEEEEc
Q 036586 480 VVVSQVLVADINIGYEEIVNTQVLALNGKPVQN--LKSLADMVESSEDEFLKFDLEY 534 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~--l~~f~~~l~~~~~~~v~l~v~R 534 (568)
|+|-.|.++++..|- +++||+|+.|||+||++ |+..++++++++. .|.|+|-+
T Consensus 77 viVr~VT~GGps~GK-L~PGDQIl~vN~Epv~daprervIdlvRace~-sv~ltV~q 131 (1298)
T KOG3552|consen 77 VIVRFVTEGGPSIGK-LQPGDQILAVNGEPVKDAPRERVIDLVRACES-SVNLTVCQ 131 (1298)
T ss_pred eEEEEecCCCCcccc-ccCCCeEEEecCcccccccHHHHHHHHHHHhh-hcceEEec
Confidence 788899998887653 56999999999999995 7899999999874 44555544
No 94
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=87.97 E-value=0.79 Score=53.16 Aligned_cols=62 Identities=19% Similarity=0.318 Sum_probs=47.1
Q ss_pred CCCceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCE
Q 036586 334 GQKGVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSE 405 (568)
Q Consensus 334 ~~~Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~ 405 (568)
+.-|++|..|.+|++|+. | |+.||.+++|||..+-...+-+ ..+++. +.|..|.|+|...|.
T Consensus 958 ~klGIYvKsVV~GgaAd~DGRL~aGDQLLsVdG~SLiGisQEr--------AA~lmt--rtg~vV~leVaKqgA 1021 (1629)
T KOG1892|consen 958 RKLGIYVKSVVEGGAADHDGRLEAGDQLLSVDGHSLIGISQER--------AARLMT--RTGNVVHLEVAKQGA 1021 (1629)
T ss_pred cccceEEEEeccCCccccccccccCceeeeecCcccccccHHH--------HHHHHh--ccCCeEEEehhhhhh
Confidence 456899999999999988 5 9999999999998876654411 223333 468889999876553
No 95
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=86.55 E-value=1.1 Score=45.63 Aligned_cols=55 Identities=13% Similarity=0.227 Sum_probs=42.1
Q ss_pred ceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEE
Q 036586 337 GVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVL 401 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~ 401 (568)
-++|..|..++||++ | ++.||.|++|||..|....-+. ..++++.. -+.|++++.
T Consensus 31 ClYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKve--------VAkmIQ~~--~~eV~IhyN 87 (429)
T KOG3651|consen 31 CLYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVE--------VAKMIQVS--LNEVKIHYN 87 (429)
T ss_pred eEEEEEeccCCchhccCccccCCeeEEecceeecCccHHH--------HHHHHHHh--ccceEEEeh
Confidence 488999999999999 5 9999999999999998765432 44555543 245677664
No 96
>PF02122 Peptidase_S39: Peptidase S39; InterPro: IPR000382 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) [, ]. ORF2 of Potato leafroll virus (PLrV) encodes a polyprotein which is translated following a -1 frameshift. The polyprotein has a putative linear arrangement of membrane achor-VPg-peptidase-polmerase domains. The serine peptidase domain which is found in this group of sequences belongs to MEROPS peptidase family S39 (clan PA(S)). It is likely that the peptidase domain is involved in the cleavage of the polyprotein []. The nucleotide sequence for the RNA of PLrV has been determined [, ]. The sequence contains six large open reading frames (ORFs). The 5' coding region encodes two polypeptides of 28K and 70K, which overlap in different reading frames; it is suggested that the third ORF in the 5' block is translated by frameshift readthrough near the end of the 70K protein, yielding a 118K polypeptide []. Segments of the predicted amino acid sequences of these ORFs resemble those of known viral RNA polymerases, ATP-binding proteins and viral genome-linked proteins. The nucleotide sequence of the genomic RNA of Beet western yellows virus (BWYV) has been determined []. The sequence contains six long ORFs. A cluster of three of these ORFs, including the coat protein cistron, display extensive amino acid sequence similarity to corresponding ORFs of a second luteovirus: Barley yellow dwarf virus [].; GO: 0004252 serine-type endopeptidase activity, 0022415 viral reproductive process, 0016021 integral to membrane; PDB: 1ZYO_A.
Probab=86.53 E-value=0.45 Score=46.48 Aligned_cols=138 Identities=20% Similarity=0.200 Sum_probs=47.1
Q ss_pred ceEEEEEE-e-CCEEEEcccccCCCCeEEEEEcCCCcEEEE---EEEEEeCCCCeEEEEeccCcccc--CccceecCCCc
Q 036586 150 SSSSGFIV-G-GRRVLTNAHSVEHHTQVKVKKRGSDTKYLA---TVLSIGTECDIALLTVKDDEFWE--GVSPVEFGDLP 222 (568)
Q Consensus 150 ~~GSGfiI-~-~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a---~vv~~d~~~DlAlLkv~~~~~~~--~l~~~~l~~~~ 222 (568)
+.++.+-. + ...++|++||......+.... +|+.++. +.+..+...|++||++.+ .++. ....+.|....
T Consensus 30 Gya~cv~l~~g~~~L~ta~Hv~~~~~~~~~~k--~g~kipl~~f~~~~~~~~~D~~il~~P~-n~~s~Lg~k~~~~~~~~ 106 (203)
T PF02122_consen 30 GYATCVRLFDGEDALLTARHVWSRPSKVTSLK--TGEKIPLAEFTDLLESRIADFVILRGPP-NWESKLGVKAAQLSQNS 106 (203)
T ss_dssp ----EEEE----EEEEE-HHHHTSSS---EEE--TTEEEE--S-EEEEE-TTT-EEEEE--H-HHHHHHT-----B----
T ss_pred ccceEEECcCCccceecccccCCCccceeEcC--CCCcccchhChhhhCCCccCEEEEecCc-CHHHHhCcccccccchh
Confidence 34555333 2 569999999999866665554 5566543 566678899999999983 2221 33344443322
Q ss_pred ccC-CeEEEEecCCCCCCceEEEEEEeeee--------cccccCCCceeecccceEEEEEeeeecCCCCccccccccchh
Q 036586 223 ALQ-DAVTVVGYPIGGDTISVTSGVVSRME--------ILSYVHGSTELLGLQGKCVGIAFQSLKNDDVENIGYVIPTPV 293 (568)
Q Consensus 223 ~~g-~~V~aiG~P~g~~~~svt~GiIs~~~--------~~~~~~ggspL~n~~G~VVGI~~~~~~~~~~~~~~~aIP~~~ 293 (568)
++. ..+-+.+.-.+ .. .....-|.... ......+|.|+++.. +|||+..+.......++.++.-|+.-
T Consensus 107 ~~~~g~~~~y~~~~~-~~-~~~sa~i~g~~~~~~~vls~T~~G~SGtp~y~g~-~vvGvH~G~~~~~~~~n~n~~spip~ 183 (203)
T PF02122_consen 107 QLAKGPVSFYGFSSG-EW-PCSSAKIPGTEGKFASVLSNTSPGWSGTPYYSGK-NVVGVHTGSPSGSNRENNNRMSPIPP 183 (203)
T ss_dssp SEEEEESSTTSEEEE-EE-EEEE-S----STTEEEE-----TT-TT-EEE-SS--EEEEEEEE-----------------
T ss_pred hhCCCCeeeeeecCC-Cc-eeccCccccccCcCCceEcCCCCCCCCCCeEECC-CceEeecCcccccccccccccccccc
Confidence 111 00000000000 01 11111111111 111124567999999 99999988533334567777666543
No 97
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=84.82 E-value=1.7 Score=43.82 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=40.2
Q ss_pred eeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCC
Q 036586 313 LGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIAND 370 (568)
Q Consensus 313 lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~ 370 (568)
||+.+++- +.--...-||.. .-|++|....|++-|+. | |...|.|++|||.+|...
T Consensus 173 LGFYIRDG-~SVRVtp~Glek-vpGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGK 230 (358)
T KOG3606|consen 173 LGFYIRDG-TSVRVTPHGLEK-VPGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGK 230 (358)
T ss_pred ceEEEecC-ceEEeccccccc-cCceEEEeecCCccccccceeeecceeEEEcCEEeccc
Confidence 55555443 111112235543 67999999999999999 6 778999999999999854
No 98
>COG3031 PulC Type II secretory pathway, component PulC [Intracellular trafficking and secretion]
Probab=84.59 E-value=1.6 Score=43.31 Aligned_cols=48 Identities=6% Similarity=-0.011 Sum_probs=41.4
Q ss_pred ccccccccCcEEEeeCCEecCCHHHHHHHHHccCCC-eEEEEEEcCeEE
Q 036586 491 NIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDE-FLKFDLEYQQIV 538 (568)
Q Consensus 491 ~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~-~v~l~v~R~~~~ 538 (568)
-...|++.||+.++||+....+.++..++++...+. .+.+++.|+|+.
T Consensus 220 F~~sglq~GDIavaiNnldltdp~~m~~llq~l~~m~s~qlTv~R~G~r 268 (275)
T COG3031 220 FYKSGLQRGDIAVAINNLDLTDPEDMFRLLQMLRNMPSLQLTVIRRGKR 268 (275)
T ss_pred hhhhcCCCcceEEEecCcccCCHHHHHHHHHhhhcCcceEEEEEecCcc
Confidence 344556699999999999999999999999998876 699999998863
No 99
>KOG3129 consensus 26S proteasome regulatory complex, subunit PSMD9 [Posttranslational modification, protein turnover, chaperones]
Probab=84.45 E-value=2.2 Score=41.51 Aligned_cols=60 Identities=22% Similarity=0.243 Sum_probs=49.3
Q ss_pred EEEEEEeccccccccccccCcEEEeeCCEecCC---HHHHHHHHHccCCCeEEEEEEcCeEEE
Q 036586 480 VVVSQVLVADINIGYEEIVNTQVLALNGKPVQN---LKSLADMVESSEDEFLKFDLEYQQIVV 539 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~---l~~f~~~l~~~~~~~v~l~v~R~~~~~ 539 (568)
++|+.|.+++++...|+..||.|+++.+..-.| +......++++.++.+.+++.|.++.+
T Consensus 141 a~V~sV~~~SPA~~aGl~~gD~il~fGnV~sgn~~~lq~i~~~v~~~e~~~v~v~v~R~g~~v 203 (231)
T KOG3129|consen 141 AVVDSVVPGSPADEAGLCVGDEILKFGNVHSGNFLPLQNIAAVVQSNEDQIVSVTVIREGQKV 203 (231)
T ss_pred EEEeecCCCChhhhhCcccCceEEEecccccccchhHHHHHHHHHhccCcceeEEEecCCCEE
Confidence 789999999998888888999999987666655 456667778888999999999987643
No 100
>COG3975 Predicted protease with the C-terminal PDZ domain [General function prediction only]
Probab=84.29 E-value=0.93 Score=49.75 Aligned_cols=81 Identities=11% Similarity=0.085 Sum_probs=52.9
Q ss_pred CCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeCCE
Q 036586 429 PSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALNGK 508 (568)
Q Consensus 429 ~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~ 508 (568)
+.++...||+|.+...+ ..-+|..+ ....+..+|+.|.+++++.+.|+.+||.|++|||.
T Consensus 433 ~~~l~~~gL~~~~~~~~--~~~LGl~v------------------~~~~g~~~i~~V~~~gPA~~AGl~~Gd~ivai~G~ 492 (558)
T COG3975 433 NPLLERFGLTFTPKPRE--AYYLGLKV------------------KSEGGHEKITFVFPGGPAYKAGLSPGDKIVAINGI 492 (558)
T ss_pred hhhhhhcceEEEecCCC--CcccceEe------------------cccCCeeEEEecCCCChhHhccCCCccEEEEEcCc
Confidence 34566788888887643 10122211 12334578999999999999998899999999999
Q ss_pred ecCCHHHHHHHHHccC-CCeEEEEEEcCeE
Q 036586 509 PVQNLKSLADMVESSE-DEFLKFDLEYQQI 537 (568)
Q Consensus 509 pV~~l~~f~~~l~~~~-~~~v~l~v~R~~~ 537 (568)
. +.+...+ +..+.+.+.|.++
T Consensus 493 -s-------~~l~~~~~~d~i~v~~~~~~~ 514 (558)
T COG3975 493 -S-------DQLDRYKVNDKIQVHVFREGR 514 (558)
T ss_pred -c-------ccccccccccceEEEEccCCc
Confidence 2 2222222 4467777776544
No 101
>KOG3532 consensus Predicted protein kinase [General function prediction only]
Probab=83.73 E-value=2.9 Score=47.12 Aligned_cols=51 Identities=14% Similarity=0.173 Sum_probs=43.8
Q ss_pred ceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCeE
Q 036586 478 QIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEFL 528 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~v 528 (568)
+.|-|..|++...+.+....+||++++|||.||.+..+..++++...+...
T Consensus 398 ~~v~v~tv~~ns~a~k~~~~~gdvlvai~~~pi~s~~q~~~~~~s~~~~~~ 448 (1051)
T KOG3532|consen 398 RAVKVCTVEDNSLADKAAFKPGDVLVAINNVPIRSERQATRFLQSTTGDLT 448 (1051)
T ss_pred eEEEEEEecCCChhhHhcCCCcceEEEecCccchhHHHHHHHHHhcccceE
Confidence 457788899988877777779999999999999999999999998875533
No 102
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=83.51 E-value=1.9 Score=45.83 Aligned_cols=58 Identities=28% Similarity=0.487 Sum_probs=44.8
Q ss_pred EEEecCCCcccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCE---EEEEEEE-CCEEEE
Q 036586 340 IRRIEPTAPESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDS---AVVKVLR-NSEVHE 408 (568)
Q Consensus 340 V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~---v~l~V~R-~g~~~~ 408 (568)
+.++..++++.. ++++||.|+++|++++.++.++ ...+... .+.. +.+.+.| ++....
T Consensus 133 ~~~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~----------~~~~~~~-~~~~~~~~~i~~~~~~~~~~~ 195 (375)
T COG0750 133 VGEVAPKSAAALAGLRPGDRIVAVDGEKVASWDDV----------RRLLVAA-AGDVFNLLTILVIRLDGEAHA 195 (375)
T ss_pred eeecCCCCHHHHcCCCCCCEEEeECCEEccCHHHH----------HHHHHhc-cCCcccceEEEEEeccceeee
Confidence 347889999999 9999999999999999999873 3444332 3444 7899999 776644
No 103
>PF08192 Peptidase_S64: Peptidase family S64; InterPro: IPR012985 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 family of fungal proteins is involved in the processing of membrane bound transcription factor Stp1 [] and belongs to MEROPS petidase family S64 (clan PA). The processing causes the signalling domain of Stp1 to be passed to the nucleus where several permease genes are induced. The permeases are important for uptake of amino acids, and processing of tp1 only occurs in an amino acid-rich environment. This family is predicted to be distantly related to the trypsin family (MEROPS peptidase family S1) and to have a typical trypsin-like catalytic triad [].
Probab=82.25 E-value=5.3 Score=45.22 Aligned_cols=101 Identities=17% Similarity=0.280 Sum_probs=59.4
Q ss_pred eCCCCeEEEEeccCc-----cccC------ccceecCCC--------cccCCeEEEEecCCCCCCceEEEEEEeeeecc-
Q 036586 194 GTECDIALLTVKDDE-----FWEG------VSPVEFGDL--------PALQDAVTVVGYPIGGDTISVTSGVVSRMEIL- 253 (568)
Q Consensus 194 d~~~DlAlLkv~~~~-----~~~~------l~~~~l~~~--------~~~g~~V~aiG~P~g~~~~svt~GiIs~~~~~- 253 (568)
..-.|+||++|+... +.++ -|.+.+.+. ...|.+|+=+|.-.|+ |.|+|.++...
T Consensus 540 ~~LsD~AIIkV~~~~~~~N~LGddi~f~~~dP~l~f~NlyV~~~~~~~~~G~~VfK~GrTTgy-----T~G~lNg~klvy 614 (695)
T PF08192_consen 540 KRLSDWAIIKVNKERKCQNYLGDDIQFNEPDPTLMFQNLYVREVVSNLVPGMEVFKVGRTTGY-----TTGILNGIKLVY 614 (695)
T ss_pred ccccceEEEEeCCCceecCCCCccccccCCCccccccccchhhhhhccCCCCeEEEecccCCc-----cceEecceEEEE
Confidence 344699999998653 1112 223344331 1236789999877663 33555443211
Q ss_pred -------------------ccc---CCCceeecccce------EEEEEeeeecCCCCccccccccchhhhHhHHHh
Q 036586 254 -------------------SYV---HGSTELLGLQGK------CVGIAFQSLKNDDVENIGYVIPTPVIIHFIQDY 301 (568)
Q Consensus 254 -------------------~~~---~ggspL~n~~G~------VVGI~~~~~~~~~~~~~~~aIP~~~i~~~l~~l 301 (568)
.+. ++|+-|++.-+. |+||.+++-+ ....++++.|+..|..=|++.
T Consensus 615 w~dG~i~s~efvV~s~~~~~Fa~~GDSGS~VLtk~~d~~~gLgvvGMlhsydg--e~kqfglftPi~~il~rl~~v 688 (695)
T PF08192_consen 615 WADGKIQSSEFVVSSDNNPAFASGGDSGSWVLTKLEDNNKGLGVVGMLHSYDG--EQKQFGLFTPINEILDRLEEV 688 (695)
T ss_pred ecCCCeEEEEEEEecCCCccccCCCCcccEEEecccccccCceeeEEeeecCC--ccceeeccCcHHHHHHHHHHh
Confidence 111 244566665444 9999988543 556788889988876666554
No 104
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=81.69 E-value=1.6 Score=45.32 Aligned_cols=54 Identities=24% Similarity=0.250 Sum_probs=42.1
Q ss_pred ceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc-cCCCCEEEEEEE
Q 036586 337 GVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ-KYTGDSAVVKVL 401 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~-~~~g~~v~l~V~ 401 (568)
-++|..|..+-.|+. | |-.||-|+.|||..|..-.. .+.++- ...|+.|+|+|.
T Consensus 81 PvviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~H-----------eevV~iLRNAGdeVtlTV~ 137 (505)
T KOG3549|consen 81 PVVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPH-----------EEVVNILRNAGDEVTLTVK 137 (505)
T ss_pred cEEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCCh-----------HHHHHHHHhcCCEEEEEeH
Confidence 488999999988888 5 88999999999999987654 223322 247999998885
No 105
>PF03510 Peptidase_C24: 2C endopeptidase (C24) cysteine protease family; InterPro: IPR000317 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. The two signatures that defines this group of calivirus polyproteins identify a cysteine peptidase signature that belongs to MEROPS peptidase family C24 (clan PA(C)). Caliciviruses are positive-stranded ssRNA viruses that cause gastroenteritis. The calicivirus genome contains two open reading frames, ORF1 and ORF2. ORF2 encodes a structural protein []; while ORF1 encodes a non-structural polypeptide, which has RNA helicase, cysteine protease and RNA polymerase activity. The regions of the polyprotein in which these activities lie are similar to proteins produced by the picornaviruses. Two different families of caliciviruses can be distinguished on the basis of sequence similarity, namely those classified as small round structured viruses (SRSVs) and those classed as non-SRSVs. Calicivirus proteases from the non-SRSV group, which are members of the PA protease clan, constitute family C24 of the cysteine proteases (proteases from SRSVs belong to the C37 family). As mentioned above, the protease activity resides within a polyprotein. The enzyme cleaves the polyprotein at sites N-terminal to itself, liberating the polyprotein helicase.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=80.26 E-value=4.5 Score=35.22 Aligned_cols=56 Identities=13% Similarity=0.225 Sum_probs=39.4
Q ss_pred EEEEEeCCEEEEcccccCCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCc
Q 036586 153 SGFIVGGRRVLTNAHSVEHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLP 222 (568)
Q Consensus 153 SGfiI~~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~ 222 (568)
=++-|++|.++|+.||.+..+.|. |..+ +++. ..-|+++++.+.. .+|.+.+++..
T Consensus 2 ~avHIGnG~~vt~tHva~~~~~v~------g~~f--~~~~--~~ge~~~v~~~~~----~~p~~~ig~g~ 57 (105)
T PF03510_consen 2 WAVHIGNGRYVTVTHVAKSSDSVD------GQPF--KIVK--TDGELCWVQSPLV----HLPAAQIGTGK 57 (105)
T ss_pred ceEEeCCCEEEEEEEEeccCceEc------CcCc--EEEE--eccCEEEEECCCC----CCCeeEeccCC
Confidence 367788999999999998776552 2222 3444 4459999999876 46778887543
No 106
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=79.57 E-value=1.4 Score=46.51 Aligned_cols=53 Identities=25% Similarity=0.311 Sum_probs=41.1
Q ss_pred ceEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhc-cCCCCEEEEEE
Q 036586 337 GVRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQ-KYTGDSAVVKV 400 (568)
Q Consensus 337 Gv~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~-~~~g~~v~l~V 400 (568)
-++|++|.++-.|++ -|..||.|++|||..+.+... .+.++. ++.|+.|.++|
T Consensus 111 PIlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtH-----------deAVqaLKraGkeV~lev 166 (506)
T KOG3551|consen 111 PILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATH-----------DEAVQALKRAGKEVLLEV 166 (506)
T ss_pred ceehhHhccccccccccceeeccEEEEecchhhhhcch-----------HHHHHHHHhhCceeeeee
Confidence 488999999988888 599999999999999887654 344444 34788776655
No 107
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=77.64 E-value=3.9 Score=45.08 Aligned_cols=56 Identities=25% Similarity=0.316 Sum_probs=43.0
Q ss_pred ceEEEEecCCCcccC-C-CCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEE
Q 036586 337 GVRIRRIEPTAPESH-V-LKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLR 402 (568)
Q Consensus 337 Gv~V~~V~p~spA~~-G-L~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R 402 (568)
-++|+.|..|+.+++ | |+.||.|++|||..|.+..- . -++.++.... ..++++|.-
T Consensus 147 ~~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~-~-------e~q~~l~~~~--G~itfkiiP 204 (542)
T KOG0609|consen 147 KVVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSP-E-------ELQELLRNSR--GSITFKIIP 204 (542)
T ss_pred ccEEeeeccCCcchhccceeeccchheecCeecccCCH-H-------HHHHHHHhCC--CcEEEEEcc
Confidence 489999999999888 5 99999999999999987522 1 1556666654 567877754
No 108
>KOG3542 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=77.36 E-value=2.2 Score=47.84 Aligned_cols=59 Identities=15% Similarity=0.176 Sum_probs=42.8
Q ss_pred CcceEEEEEEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCC-eEEEEEEcC
Q 036586 476 DEQIVVVSQVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDE-FLKFDLEYQ 535 (568)
Q Consensus 476 ~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~-~v~l~v~R~ 535 (568)
.+-|++|.+|++++.++..|+..||.|++||||...++. |.++++-..++ .+.+.+.-|
T Consensus 560 kGfgifV~~V~pgskAa~~GlKRgDqilEVNgQnfenis-~~KA~eiLrnnthLtltvKtN 619 (1283)
T KOG3542|consen 560 KGFGIFVAEVFPGSKAAREGLKRGDQILEVNGQNFENIS-AKKAEEILRNNTHLTLTVKTN 619 (1283)
T ss_pred ccceeEEeeecCCchHHHhhhhhhhhhhhccccchhhhh-HHHHHHHhcCCceEEEEEecc
Confidence 345799999999988777777799999999999998875 34444444444 355555444
No 109
>PF10459 Peptidase_S46: Peptidase S46; InterPro: IPR019500 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 entry represents S46 peptidases, where dipeptidyl-peptidase 7 (DPP-7) is the best-characterised member of this family. It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Probab=76.04 E-value=1.5 Score=50.70 Aligned_cols=21 Identities=38% Similarity=0.344 Sum_probs=19.0
Q ss_pred ceEEEEEEe-CCEEEEcccccC
Q 036586 150 SSSSGFIVG-GRRVLTNAHSVE 170 (568)
Q Consensus 150 ~~GSGfiI~-~G~ILTn~HVV~ 170 (568)
+.|||-||+ +|+||||.||+-
T Consensus 47 gGCSgsfVS~~GLvlTNHHC~~ 68 (698)
T PF10459_consen 47 GGCSGSFVSPDGLVLTNHHCGY 68 (698)
T ss_pred CceeEEEEcCCceEEecchhhh
Confidence 459999999 999999999976
No 110
>KOG3549 consensus Syntrophins (type gamma) [Extracellular structures]
Probab=75.17 E-value=4.4 Score=42.25 Aligned_cols=62 Identities=21% Similarity=0.220 Sum_probs=45.1
Q ss_pred EEEEEEeccccccccc-cccCcEEEeeCCEecCC--HHHHHHHHHccCCC-eEEEEEEcCeEEEEe
Q 036586 480 VVVSQVLVADINIGYE-EIVNTQVLALNGKPVQN--LKSLADMVESSEDE-FLKFDLEYQQIVVLK 541 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~-~~~gd~I~~VNg~pV~~--l~~f~~~l~~~~~~-~v~l~v~R~~~~~l~ 541 (568)
|+|+.++.+.++.--| ++.||-|+.|||.-|.. -+|.+.+|+..-++ +++++..|.-..+|.
T Consensus 82 vviSkI~kdQaAd~tG~LFvGDAilqvNGi~v~~c~HeevV~iLRNAGdeVtlTV~~lr~ApaFLk 147 (505)
T KOG3549|consen 82 VVISKIYKDQAADITGQLFVGDAILQVNGIYVTACPHEEVVNILRNAGDEVTLTVKHLRAAPAFLK 147 (505)
T ss_pred EEeehhhhhhhhhhcCceEeeeeeEEeccEEeecCChHHHHHHHHhcCCEEEEEeHhhhcCcHHhc
Confidence 7899999876654333 57899999999999984 57899999977544 455555665444443
No 111
>KOG3550 consensus Receptor targeting protein Lin-7 [Extracellular structures]
Probab=74.20 E-value=11 Score=34.75 Aligned_cols=54 Identities=15% Similarity=0.270 Sum_probs=39.7
Q ss_pred EEEEEEecccccc-ccccccCcEEEeeCCEecCCH--HHHHHHHHccCCCeEEEEEEc
Q 036586 480 VVVSQVLVADINI-GYEEIVNTQVLALNGKPVQNL--KSLADMVESSEDEFLKFDLEY 534 (568)
Q Consensus 480 vvvs~V~~~~~~~-g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~~~~~v~l~v~R 534 (568)
+||+.+.|+..+. --|+..||.+++|||..|.-- +-.+++|+...+ .+++.+..
T Consensus 117 iyisriipggvadrhgglkrgdqllsvngvsvege~hekavellkaa~g-svklvvry 173 (207)
T KOG3550|consen 117 IYISRIIPGGVADRHGGLKRGDQLLSVNGVSVEGEHHEKAVELLKAAVG-SVKLVVRY 173 (207)
T ss_pred eEEEeecCCccccccCcccccceeEeecceeecchhhHHHHHHHHHhcC-cEEEEEec
Confidence 7999999987543 334568999999999999743 457788888764 45555543
No 112
>KOG3606 consensus Cell polarity protein PAR6 [Signal transduction mechanisms]
Probab=71.99 E-value=8.7 Score=38.83 Aligned_cols=49 Identities=22% Similarity=0.369 Sum_probs=40.4
Q ss_pred ceEEEEEEeccccccccccc-cCcEEEeeCCEecC--CHHHHHHHHHccCCC
Q 036586 478 QIVVVSQVLVADINIGYEEI-VNTQVLALNGKPVQ--NLKSLADMVESSEDE 526 (568)
Q Consensus 478 ~gvvvs~V~~~~~~~g~~~~-~gd~I~~VNg~pV~--~l~~f~~~l~~~~~~ 526 (568)
.|++|+...++..+..-|+. .+|.|++|||..|. ++++..++|-++.-+
T Consensus 194 pGIFISRlVpGGLAeSTGLLaVnDEVlEVNGIEVaGKTLDQVTDMMvANshN 245 (358)
T KOG3606|consen 194 PGIFISRLVPGGLAESTGLLAVNDEVLEVNGIEVAGKTLDQVTDMMVANSHN 245 (358)
T ss_pred CceEEEeecCCccccccceeeecceeEEEcCEEeccccHHHHHHHHhhcccc
Confidence 46899999998776666643 69999999999996 999999999887544
No 113
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=71.34 E-value=3.3 Score=41.68 Aligned_cols=57 Identities=14% Similarity=0.243 Sum_probs=46.9
Q ss_pred eEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEE
Q 036586 338 VRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLR 402 (568)
Q Consensus 338 v~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R 402 (568)
.+|..|.++|..+. -++.||.|-+|||+.|-.+..+. ..++|.....|++.+|.+..
T Consensus 151 AFIKrIkegsvidri~~i~VGd~IEaiNge~ivG~RHYe--------VArmLKel~rge~ftlrLie 209 (334)
T KOG3938|consen 151 AFIKRIKEGSVIDRIEAICVGDHIEAINGESIVGKRHYE--------VARMLKELPRGETFTLRLIE 209 (334)
T ss_pred eeeEeecCCchhhhhhheeHHhHHHhhcCccccchhHHH--------HHHHHHhcccCCeeEEEeec
Confidence 77888999998888 79999999999999999887754 45778777788877766653
No 114
>KOG2921 consensus Intramembrane metalloprotease (sterol-regulatory element-binding protein (SREBP) protease) [Posttranslational modification, protein turnover, chaperones]
Probab=70.19 E-value=7.2 Score=41.49 Aligned_cols=49 Identities=20% Similarity=0.243 Sum_probs=40.7
Q ss_pred CcceEEEEEEeccccccccc-cccCcEEEeeCCEecCCHHHHHHHHHccC
Q 036586 476 DEQIVVVSQVLVADINIGYE-EIVNTQVLALNGKPVQNLKSLADMVESSE 524 (568)
Q Consensus 476 ~~~gvvvs~V~~~~~~~g~~-~~~gd~I~~VNg~pV~~l~~f~~~l~~~~ 524 (568)
...+|.|.+|...++..|+. +..||+|+++||-||.+.+|+.+-++.+.
T Consensus 218 ~g~gV~Vtev~~~Spl~gprGL~vgdvitsldgcpV~~v~dW~ecl~tsl 267 (484)
T KOG2921|consen 218 HGEGVTVTEVPSVSPLFGPRGLSVGDVITSLDGCPVHKVSDWLECLATSL 267 (484)
T ss_pred cCceEEEEeccccCCCcCcccCCccceEEecCCcccCCHHHHHHHHHhhc
Confidence 34679999998877755554 66899999999999999999999988754
No 115
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=69.56 E-value=13 Score=37.65 Aligned_cols=120 Identities=18% Similarity=0.360 Sum_probs=71.5
Q ss_pred cccC-CCCCCCEEE-EECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEEEEEEEEeccCCCccccccC
Q 036586 348 PESH-VLKPSDIIL-SFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEVHEFNIKLSTHKRLIPAHIN 425 (568)
Q Consensus 348 pA~~-GL~~GDiIl-~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~~~v~v~l~~~~~~~~~~~~ 425 (568)
.|+. .+-+.|||. .+|..+++- ..+ -++.++|.+.+-.+..|+.-.+.|..+...
T Consensus 82 IAe~F~Is~~dIlfcTlNshKvDM-~~l---lgGqigleDfiFAHvkGq~kEv~v~Kseda------------------- 138 (334)
T KOG3938|consen 82 IAEAFDISPDDILFCTLNSHKVDM-KRL---LGGQIGLEDFIFAHVKGQAKEVEVVKSEDA------------------- 138 (334)
T ss_pred HHHHhcCCccceEEEecCCCcccH-HHH---hcCccChhhhhhhhhcCcceeEEEEecccc-------------------
Confidence 3555 788888874 467777752 222 257778888888777776666666554433
Q ss_pred CCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccc-cccCcEEEe
Q 036586 426 GRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYE-EIVNTQVLA 504 (568)
Q Consensus 426 ~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~-~~~gd~I~~ 504 (568)
+|+.+..- |..| .+|..+-+++.-.... ...||.|.+
T Consensus 139 ---------lGlTITDN---------G~Gy------------------------AFIKrIkegsvidri~~i~VGd~IEa 176 (334)
T KOG3938|consen 139 ---------LGLTITDN---------GAGY------------------------AFIKRIKEGSVIDRIEAICVGDHIEA 176 (334)
T ss_pred ---------cceEEeeC---------Ccce------------------------eeeEeecCCchhhhhhheeHHhHHHh
Confidence 34433321 1011 2344444443321111 236999999
Q ss_pred eCCEecCCHH--HHHHHHHccC-CCeEEEEE
Q 036586 505 LNGKPVQNLK--SLADMVESSE-DEFLKFDL 532 (568)
Q Consensus 505 VNg~pV~~l~--~f~~~l~~~~-~~~v~l~v 532 (568)
|||+.+--+. ++.++|++.+ ++..++++
T Consensus 177 iNge~ivG~RHYeVArmLKel~rge~ftlrL 207 (334)
T KOG3938|consen 177 INGESIVGKRHYEVARMLKELPRGETFTLRL 207 (334)
T ss_pred hcCccccchhHHHHHHHHHhcccCCeeEEEe
Confidence 9999999876 4678888865 44555544
No 116
>PF10459 Peptidase_S46: Peptidase S46; InterPro: IPR019500 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 entry represents S46 peptidases, where dipeptidyl-peptidase 7 (DPP-7) is the best-characterised member of this family. It is a serine peptidase that is located on the cell surface and is predicted to have two N-terminal transmembrane domains.
Probab=66.77 E-value=6.2 Score=45.71 Aligned_cols=60 Identities=18% Similarity=0.228 Sum_probs=37.8
Q ss_pred eEEEEEEeeeecccccCCCceeecccceEEEEEeeeecCC--------CCccccccccchhhhHhHHHh
Q 036586 241 SVTSGVVSRMEILSYVHGSTELLGLQGKCVGIAFQSLKND--------DVENIGYVIPTPVIIHFIQDY 301 (568)
Q Consensus 241 svt~GiIs~~~~~~~~~ggspL~n~~G~VVGI~~~~~~~~--------~~~~~~~aIP~~~i~~~l~~l 301 (568)
++....|+..++.+- .+|||++|.+|++||+++-+--.+ ...+-+..|.+..|..+|+++
T Consensus 619 ~~pv~FlstnDitGG-NSGSPvlN~~GeLVGl~FDgn~Esl~~D~~fdp~~~R~I~VDiRyvL~~ldkv 686 (698)
T PF10459_consen 619 SVPVNFLSTNDITGG-NSGSPVLNAKGELVGLAFDGNWESLSGDIAFDPELNRTIHVDIRYVLWALDKV 686 (698)
T ss_pred CeeeEEEeccCcCCC-CCCCccCCCCceEEEEeecCchhhcccccccccccceeEEEEHHHHHHHHHHH
Confidence 455566666655443 356799999999999988643221 112234456666777777665
No 117
>COG0750 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]
Probab=66.04 E-value=16 Score=38.88 Aligned_cols=55 Identities=9% Similarity=0.094 Sum_probs=45.4
Q ss_pred EEeccccccccccccCcEEEeeCCEecCCHHHHHHHHHccCCCe---EEEEEEc-CeEE
Q 036586 484 QVLVADINIGYEEIVNTQVLALNGKPVQNLKSLADMVESSEDEF---LKFDLEY-QQIV 538 (568)
Q Consensus 484 ~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~~f~~~l~~~~~~~---v~l~v~R-~~~~ 538 (568)
.+...++++..+.+.||.|+++|++++.++++..+.+....+.. +.+.+.| ++..
T Consensus 135 ~v~~~s~a~~a~l~~Gd~iv~~~~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~ 193 (375)
T COG0750 135 EVAPKSAAALAGLRPGDRIVAVDGEKVASWDDVRRLLVAAAGDVFNLLTILVIRLDGEA 193 (375)
T ss_pred ecCCCCHHHHcCCCCCCEEEeECCEEccCHHHHHHHHHhccCCcccceEEEEEecccee
Confidence 45566677777778999999999999999999999999887666 7888888 5444
No 118
>KOG3551 consensus Syntrophins (type beta) [Extracellular structures]
Probab=65.57 E-value=5.2 Score=42.35 Aligned_cols=64 Identities=11% Similarity=0.220 Sum_probs=44.6
Q ss_pred EEEEEEeccccccccc-cccCcEEEeeCCEecCC--HHHHHHHHHccCCC-eEEEEEEcCeEEEEecc
Q 036586 480 VVVSQVLVADINIGYE-EIVNTQVLALNGKPVQN--LKSLADMVESSEDE-FLKFDLEYQQIVVLKSK 543 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~-~~~gd~I~~VNg~pV~~--l~~f~~~l~~~~~~-~v~l~v~R~~~~~l~~~ 543 (568)
++||.++++-++.+-+ ++.||.|++|||....+ -++.+++||..-.+ .+++++.|+-..++...
T Consensus 112 IlISKIFkGlAADQt~aL~~gDaIlSVNG~dL~~AtHdeAVqaLKraGkeV~levKy~REvtPy~kk~ 179 (506)
T KOG3551|consen 112 ILISKIFKGLAADQTGALFLGDAILSVNGEDLRDATHDEAVQALKRAGKEVLLEVKYMREVTPYFKKE 179 (506)
T ss_pred eehhHhccccccccccceeeccEEEEecchhhhhcchHHHHHHHHhhCceeeeeeeeehhcchhhccC
Confidence 6788888875444333 56899999999999874 47889999876433 45566777654454433
No 119
>PF00949 Peptidase_S7: Peptidase S7, Flavivirus NS3 serine protease ; InterPro: IPR001850 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 signature identifies serine peptidases belong to MEROPS peptidase family S7 (flavivirin family, clan PA(S)). The protein fold of the peptidase domain for members of this family resembles that of chymotrypsin, the type example for clan PA. Flaviviruses produce a polyprotein from the ssRNA genome. The N terminus of the NS3 protein (approx. 180 aa) is required for the processing of the polyprotein. NS3 also has conserved homology with NTP-binding proteins and DEAD family of RNA helicase [, , ].; GO: 0003723 RNA binding, 0003724 RNA helicase activity, 0005524 ATP binding; PDB: 2IJO_B 3E90_D 2GGV_B 2FP7_B 2WV9_A 3U1I_B 3U1J_B 2WZQ_A 2WHX_A 3L6P_A ....
Probab=64.95 E-value=5.9 Score=36.04 Aligned_cols=96 Identities=15% Similarity=0.177 Sum_probs=45.5
Q ss_pred eEEEEEEeCCEEEEcccccCCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCcccCCeEEE
Q 036586 151 SSSGFIVGGRRVLTNAHSVEHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLPALQDAVTV 230 (568)
Q Consensus 151 ~GSGfiI~~G~ILTn~HVV~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~~~g~~V~a 230 (568)
.|.|++- +|..-|-.|+.+++.-.. ++... .....|-..|| +.+... -.|. ..--++++-.
T Consensus 22 ~gvg~~~-~gvfhtmwhvt~Ga~L~~-----~~~~~--~p~~~sv~~dl--i~ygg~--------w~l~-~~~~g~evq~ 82 (132)
T PF00949_consen 22 IGVGVMK-EGVFHTMWHVTRGAALRW-----GGKRL--DPSWGSVREDL--ISYGGP--------WKLD-LKWHGEEVQQ 82 (132)
T ss_dssp EEEEEEE-TTEEEEEHHHHTT--EEE-----TTEEE---EEEEETTTTE--EEESSS-----------S-----TS-EEE
T ss_pred ccceeee-CCceeeeecCCCcceEEE-----CCeee--ccchhhhhcCh--hhcCCc--------ccCC-cccCCCEEEE
Confidence 4566544 899999999988764322 22221 22333444554 222221 1111 1111255555
Q ss_pred EecCCCCCCceEEEEEEeeeeccccc--CCCceeecccceEEEEEeeeec
Q 036586 231 VGYPIGGDTISVTSGVVSRMEILSYV--HGSTELLGLQGKCVGIAFQSLK 278 (568)
Q Consensus 231 iG~P~g~~~~svt~GiIs~~~~~~~~--~ggspL~n~~G~VVGI~~~~~~ 278 (568)
+|+..+ .++ ..+. .+|||++|.+|+||||-...+.
T Consensus 83 ~G~~~~------------~~~-~d~~~GsSGSpi~n~~g~ivGlYg~g~~ 119 (132)
T PF00949_consen 83 YGYGIG------------AID-LDFPKGSSGSPIFNQNGEIVGLYGNGVE 119 (132)
T ss_dssp EC-EEE------------EE----S-TTGTT-EEEETTSCEEEEEEEEEE
T ss_pred ECCeEE------------eee-cccCCCCCCCceEcCCCcEEEEEcccee
Confidence 542222 111 1233 3567999999999999877653
No 120
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=64.19 E-value=7.3 Score=46.58 Aligned_cols=35 Identities=17% Similarity=0.223 Sum_probs=30.8
Q ss_pred eEEEEecCCCcccC-CCCCCCEEEEECCEEcCCCCC
Q 036586 338 VRIRRIEPTAPESH-VLKPSDIILSFDGIDIANDGT 372 (568)
Q Consensus 338 v~V~~V~p~spA~~-GL~~GDiIl~InG~~V~~~~d 372 (568)
-+|..|.++|||.. ||++||.|+.+||+.|.....
T Consensus 660 h~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H 695 (1205)
T KOG0606|consen 660 HSVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVH 695 (1205)
T ss_pred eeeeeecCCCCccccCCCccceeEeccCcccchhhH
Confidence 45788999999988 999999999999999987543
No 121
>KOG3571 consensus Dishevelled 3 and related proteins [General function prediction only]
Probab=63.44 E-value=28 Score=38.29 Aligned_cols=58 Identities=9% Similarity=0.155 Sum_probs=42.9
Q ss_pred CcceEEEEEEecccc-ccccccccCcEEEeeCCEecCCH--HHHHHHHHcc--CCCeEEEEEE
Q 036586 476 DEQIVVVSQVLVADI-NIGYEEIVNTQVLALNGKPVQNL--KSLADMVESS--EDEFLKFDLE 533 (568)
Q Consensus 476 ~~~gvvvs~V~~~~~-~~g~~~~~gd~I~~VNg~pV~~l--~~f~~~l~~~--~~~~v~l~v~ 533 (568)
...|++|..+.++.+ ++--..-+||.|+.||.....++ ++.+++|++. +.+++++++.
T Consensus 275 gDggIYVgsImkgGAVA~DGRIe~GDMiLQVNevsFENmSNd~AVrvLREaV~~~gPi~ltvA 337 (626)
T KOG3571|consen 275 GDGGIYVGSIMKGGAVALDGRIEPGDMILQVNEVSFENMSNDQAVRVLREAVSRPGPIKLTVA 337 (626)
T ss_pred CCCceEEeeeccCceeeccCccCccceEEEeeecchhhcCchHHHHHHHHHhccCCCeEEEEe
Confidence 346799999998765 33333448999999999998866 5788888875 4456777664
No 122
>PF09342 DUF1986: Domain of unknown function (DUF1986); InterPro: IPR015420 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 domain is found in serine endopeptidases belonging to MEROPS peptidase family S1A (clan PA). It is found in unusual mosaic proteins, which are encoded by the Drosophila nudel gene (see P98159 from SWISSPROT). Nudel is involved in defining embryonic dorsoventral polarity. Three proteases; ndl, gd and snk process easter to create active easter. Active easter defines cell identities along the dorsal-ventral continuum by activating the spz ligand for the Tl receptor in the ventral region of the embryo. Nudel, pipe and windbeutel together trigger the protease cascade within the extraembryonic perivitelline compartment which induces dorsoventral polarity of the Drosophila embryo [].
Probab=60.57 E-value=1.5e+02 Score=30.00 Aligned_cols=86 Identities=17% Similarity=0.208 Sum_probs=59.9
Q ss_pred cceEEEEEEeCCEEEEcccccCCC----CeEEEEEcCCCcEEE---E---EEEEEe-----CCCCeEEEEeccCcc-ccC
Q 036586 149 SSSSSGFIVGGRRVLTNAHSVEHH----TQVKVKKRGSDTKYL---A---TVLSIG-----TECDIALLTVKDDEF-WEG 212 (568)
Q Consensus 149 ~~~GSGfiI~~G~ILTn~HVV~~~----~~i~V~~~~dg~~~~---a---~vv~~d-----~~~DlAlLkv~~~~~-~~~ 212 (568)
....+|++|+..+||++...+.+. ..+.+.+ +.++.+. + +|..+| ++.+++||.++.+.- -..
T Consensus 27 ~~~CsgvLlD~~WlLvsssCl~~I~L~~~Yvsall-G~~Kt~~~v~Gp~EQI~rVD~~~~V~~S~v~LLHL~~~~~fTr~ 105 (267)
T PF09342_consen 27 RYWCSGVLLDPHWLLVSSSCLRGISLSHHYVSALL-GGGKTYLSVDGPHEQISRVDCFKDVPESNVLLLHLEQPANFTRY 105 (267)
T ss_pred eEEEEEEEeccceEEEeccccCCcccccceEEEEe-cCcceecccCCChheEEEeeeeeeccccceeeeeecCcccceee
Confidence 367999999999999999999864 4677777 5666542 1 455554 677999999987652 233
Q ss_pred ccceecCC--Cc-ccCCeEEEEecCC
Q 036586 213 VSPVEFGD--LP-ALQDAVTVVGYPI 235 (568)
Q Consensus 213 l~~~~l~~--~~-~~g~~V~aiG~P~ 235 (568)
+.|+-+.+ .+ ...+.+++||...
T Consensus 106 VlP~flp~~~~~~~~~~~CVAVg~d~ 131 (267)
T PF09342_consen 106 VLPTFLPETSNENESDDECVAVGHDD 131 (267)
T ss_pred ecccccccccCCCCCCCceEEEEccc
Confidence 44554543 12 2337899999776
No 123
>KOG3651 consensus Protein kinase C, alpha binding protein [Signal transduction mechanisms]
Probab=54.15 E-value=30 Score=35.64 Aligned_cols=53 Identities=21% Similarity=0.260 Sum_probs=40.4
Q ss_pred EEEEEEeccccccccc-cccCcEEEeeCCEecC--CHHHHHHHHHccCCCeEEEEEE
Q 036586 480 VVVSQVLVADINIGYE-EIVNTQVLALNGKPVQ--NLKSLADMVESSEDEFLKFDLE 533 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~-~~~gd~I~~VNg~pV~--~l~~f~~~l~~~~~~~v~l~v~ 533 (568)
++|-+|+...+++.-| .+.||.|++|||..|+ +--+..++|+...++ |+|.++
T Consensus 32 lYiVQvFD~tPAa~dG~i~~GDEi~avNg~svKGktKveVAkmIQ~~~~e-V~IhyN 87 (429)
T KOG3651|consen 32 LYIVQVFDKTPAAKDGRIRCGDEIVAVNGISVKGKTKVEVAKMIQVSLNE-VKIHYN 87 (429)
T ss_pred EEEEEeccCCchhccCccccCCeeEEecceeecCccHHHHHHHHHHhccc-eEEEeh
Confidence 7888999877665554 4689999999999998 556888999888754 444443
No 124
>KOG0609 consensus Calcium/calmodulin-dependent serine protein kinase/membrane-associated guanylate kinase [Signal transduction mechanisms]
Probab=53.30 E-value=21 Score=39.54 Aligned_cols=54 Identities=22% Similarity=0.342 Sum_probs=44.1
Q ss_pred EEEEEEeccccccccc-cccCcEEEeeCCEecCC--HHHHHHHHHccCCCeEEEEEEc
Q 036586 480 VVVSQVLVADINIGYE-EIVNTQVLALNGKPVQN--LKSLADMVESSEDEFLKFDLEY 534 (568)
Q Consensus 480 vvvs~V~~~~~~~g~~-~~~gd~I~~VNg~pV~~--l~~f~~~l~~~~~~~v~l~v~R 534 (568)
+++..+..++....-+ +..||.|.+|||..|.+ ++++.++++... +.++|++.-
T Consensus 148 ~~vARI~~GG~~~r~glL~~GD~i~EvNGi~v~~~~~~e~q~~l~~~~-G~itfkiiP 204 (542)
T KOG0609|consen 148 VVVARIMHGGMADRQGLLHVGDEILEVNGISVANKSPEELQELLRNSR-GSITFKIIP 204 (542)
T ss_pred cEEeeeccCCcchhccceeeccchheecCeecccCCHHHHHHHHHhCC-CcEEEEEcc
Confidence 7899998877654444 45799999999999984 689999999988 888888753
No 125
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=49.30 E-value=31 Score=29.04 Aligned_cols=36 Identities=31% Similarity=0.488 Sum_probs=30.6
Q ss_pred cCCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 169 VEHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 169 V~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
+.....+.|.+ .+++.+.+++.++|.+++|.|=.+.
T Consensus 11 ~~~~~~V~V~l-r~~r~~~G~L~~fD~hmNlvL~d~~ 46 (87)
T cd01720 11 VKNNTQVLINC-RNNKKLLGRVKAFDRHCNMVLENVK 46 (87)
T ss_pred HcCCCEEEEEE-cCCCEEEEEEEEecCccEEEEcceE
Confidence 34557899999 5999999999999999999987654
No 126
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=49.19 E-value=44 Score=25.53 Aligned_cols=33 Identities=12% Similarity=0.191 Sum_probs=28.5
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.|.+ .||+.+.+++.++|...++.|-....
T Consensus 7 ~~V~V~l-~~g~~~~G~L~~~D~~~Ni~L~~~~~ 39 (63)
T cd00600 7 KTVRVEL-KDGRVLEGVLVAFDKYMNLVLDDVEE 39 (63)
T ss_pred CEEEEEE-CCCcEEEEEEEEECCCCCEEECCEEE
Confidence 4788999 59999999999999999998876653
No 127
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=48.30 E-value=40 Score=26.65 Aligned_cols=32 Identities=25% Similarity=0.256 Sum_probs=28.1
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.|.+++.++|+..++.|=...
T Consensus 11 ~~V~V~L-k~g~~~~G~L~~~D~~mNlvL~~~~ 42 (67)
T cd01726 11 RPVVVKL-NSGVDYRGILACLDGYMNIALEQTE 42 (67)
T ss_pred CeEEEEE-CCCCEEEEEEEEEccceeeEEeeEE
Confidence 5789999 5999999999999999999886654
No 128
>PHA02893 hypothetical protein; Provisional
Probab=46.56 E-value=9.9 Score=31.41 Aligned_cols=20 Identities=45% Similarity=0.664 Sum_probs=15.8
Q ss_pred CCCCCCCccccccccccccc
Q 036586 9 RKPKPKTQTETESESETIMP 28 (568)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~ 28 (568)
||.||++.|.++.|.||+.|
T Consensus 11 rkRK~~~~t~~~~e~~T~~~ 30 (88)
T PHA02893 11 RKKKSRSATSTRKEEETAIP 30 (88)
T ss_pred hccCCccccccccccceecC
Confidence 66677888888888888864
No 129
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=46.03 E-value=48 Score=26.19 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=29.2
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.|.+ .+|+.+.+++.++|...+|.+-....
T Consensus 11 ~~V~V~l-~~g~~~~G~L~~~D~~mNlvL~~~~e 43 (68)
T cd01731 11 KPVLVKL-KGGKEVRGRLKSYDQHMNLVLEDAEE 43 (68)
T ss_pred CEEEEEE-CCCCEEEEEEEEECCcceEEEeeEEE
Confidence 5789999 59999999999999999999887753
No 130
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=45.76 E-value=48 Score=26.63 Aligned_cols=33 Identities=9% Similarity=0.192 Sum_probs=28.8
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.|.+ .+|+.|.+++.++|+..++.|-....
T Consensus 15 k~V~V~l-k~g~~~~G~L~~~D~~mNlvL~d~~e 47 (72)
T PRK00737 15 SPVLVRL-KGGREFRGELQGYDIHMNLVLDNAEE 47 (72)
T ss_pred CEEEEEE-CCCCEEEEEEEEEcccceeEEeeEEE
Confidence 4688999 59999999999999999999887643
No 131
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=45.26 E-value=42 Score=26.60 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=28.0
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+++.++|...++.+=.+.
T Consensus 12 ~~V~V~L-k~g~~~~G~L~~~D~~mNi~L~~~~ 43 (68)
T cd01722 12 KPVIVKL-KWGMEYKGTLVSVDSYMNLQLANTE 43 (68)
T ss_pred CEEEEEE-CCCcEEEEEEEEECCCEEEEEeeEE
Confidence 4788999 6999999999999999999886653
No 132
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=43.91 E-value=46 Score=27.20 Aligned_cols=31 Identities=19% Similarity=0.363 Sum_probs=27.5
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEe
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTV 204 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv 204 (568)
..+.|.+ .+|+.+.+++.++|...++.|=..
T Consensus 14 ~~V~V~l-~~gr~~~G~L~g~D~~mNlvL~da 44 (76)
T cd01732 14 SRIWIVM-KSDKEFVGTLLGFDDYVNMVLEDV 44 (76)
T ss_pred CEEEEEE-CCCeEEEEEEEEeccceEEEEccE
Confidence 6789999 599999999999999999987654
No 133
>KOG3834 consensus Golgi reassembly stacking protein GRASP65, contains PDZ domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.69 E-value=26 Score=37.82 Aligned_cols=62 Identities=18% Similarity=0.287 Sum_probs=44.3
Q ss_pred EEEecCCCcccC-CCC-CCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEECCEE--EEEEEE
Q 036586 340 IRRIEPTAPESH-VLK-PSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLRNSEV--HEFNIK 412 (568)
Q Consensus 340 V~~V~p~spA~~-GL~-~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R~g~~--~~v~v~ 412 (568)
|-+|.++|||+. ||. -+|-|+.+-.......+| |..+|..+ .++.++|.|+--... ++++++
T Consensus 113 vl~V~p~SPaalAgl~~~~DYivG~~~~~~~~~eD----------l~~lIesh-e~kpLklyVYN~D~d~~ReVti~ 178 (462)
T KOG3834|consen 113 VLSVEPNSPAALAGLRPYTDYIVGIWDAVMHEEED----------LFTLIESH-EGKPLKLYVYNHDTDSCREVTIT 178 (462)
T ss_pred eeecCCCCHHHhcccccccceEecchhhhccchHH----------HHHHHHhc-cCCCcceeEeecCCCccceEEee
Confidence 567999999999 999 689999994444455566 56677665 678899999864333 444444
No 134
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=41.94 E-value=45 Score=27.56 Aligned_cols=31 Identities=19% Similarity=0.180 Sum_probs=27.1
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEe
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTV 204 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv 204 (568)
..+.|.+ .+|+.+.+++.++|...+|.|=..
T Consensus 12 k~V~V~l-~~gr~~~G~L~~fD~~mNlvL~d~ 42 (82)
T cd01730 12 ERVYVKL-RGDRELRGRLHAYDQHLNMILGDV 42 (82)
T ss_pred CEEEEEE-CCCCEEEEEEEEEccceEEeccce
Confidence 5788999 599999999999999999987544
No 135
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=41.71 E-value=80 Score=24.79 Aligned_cols=33 Identities=12% Similarity=0.240 Sum_probs=27.9
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.+.. -.|..++++|+.+|....+.||+-..
T Consensus 7 s~V~~kT-c~g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 7 SQVSCRT-CFEQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred cEEEEEe-cCCceEEEEEEEecCCCcEEEEECcc
Confidence 4566777 47999999999999999999998654
No 136
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=41.58 E-value=55 Score=26.74 Aligned_cols=32 Identities=9% Similarity=0.292 Sum_probs=27.8
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+.+.++|...+|.|=...
T Consensus 11 ~~V~V~l-~dgR~~~G~L~~~D~~~NlVL~~~~ 42 (79)
T cd01717 11 YRLRVTL-QDGRQFVGQFLAFDKHMNLVLSDCE 42 (79)
T ss_pred CEEEEEE-CCCcEEEEEEEEEcCccCEEcCCEE
Confidence 5788999 6999999999999999999876554
No 137
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=40.17 E-value=64 Score=26.64 Aligned_cols=32 Identities=9% Similarity=0.078 Sum_probs=27.6
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+++.++|...+|.|=...
T Consensus 13 k~V~V~l-~~gr~~~G~L~~~D~~mNlvL~~~~ 44 (81)
T cd01729 13 KKIRVKF-QGGREVTGILKGYDQLLNLVLDDTV 44 (81)
T ss_pred CeEEEEE-CCCcEEEEEEEEEcCcccEEecCEE
Confidence 5788999 5999999999999999999876553
No 138
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=39.54 E-value=1.4e+02 Score=22.99 Aligned_cols=38 Identities=26% Similarity=0.230 Sum_probs=29.4
Q ss_pred CCCCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccC
Q 036586 170 EHHTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDD 207 (568)
Q Consensus 170 ~~~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~ 207 (568)
..+..+.+..+++..-|+|+|+.+|...+++-++++..
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DG 44 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDG 44 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCC
Confidence 34567889998677778999999999999999999864
No 139
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=39.26 E-value=71 Score=25.72 Aligned_cols=32 Identities=9% Similarity=0.096 Sum_probs=27.7
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+++.++|...+|.|=.+.
T Consensus 11 k~V~V~L-~~g~~~~G~L~~~D~~mNlvL~~~~ 42 (72)
T cd01719 11 KKLSLKL-NGNRKVSGILRGFDPFMNLVLDDAV 42 (72)
T ss_pred CeEEEEE-CCCeEEEEEEEEEcccccEEeccEE
Confidence 4788999 5999999999999999999886654
No 140
>PF00944 Peptidase_S3: Alphavirus core protein ; InterPro: IPR000930 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) [, ]. Togavirin, also known as Sindbis virus core endopeptidase, is a serine protease resident at the N terminus of the p130 polyprotein of togaviruses []. The endopeptidase signature identifies the peptidase as belonging to the MEROPS peptidase family S3 (togavirin family, clan PA(S)). The polyprotein also includes structural proteins for the nucleocapsid core and for the glycoprotein spikes []. Togavirin is only active while part of the polyprotein, cleavage at a Trp-Ser bond resulting in total lack of activity []. Mutagenesis studies have identified the location of the His-Asp-Ser catalytic triad, and X-ray studies have revealed the protein fold to be similar to that of chymotrypsin [, ].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 2YEW_D 1EP5_A 3J0C_F 1EP6_C 1WYK_D 1DYL_A 1VCQ_B 1VCP_B 1LD4_D 1KXA_A ....
Probab=38.62 E-value=29 Score=31.61 Aligned_cols=21 Identities=14% Similarity=0.321 Sum_probs=17.5
Q ss_pred CCCceeecccceEEEEEeeee
Q 036586 257 HGSTELLGLQGKCVGIAFQSL 277 (568)
Q Consensus 257 ~ggspL~n~~G~VVGI~~~~~ 277 (568)
++|-|++|..|+||||+..+.
T Consensus 107 DSGRpi~DNsGrVVaIVLGG~ 127 (158)
T PF00944_consen 107 DSGRPIFDNSGRVVAIVLGGA 127 (158)
T ss_dssp STTEEEESTTSBEEEEEEEEE
T ss_pred CCCCccCcCCCCEEEEEecCC
Confidence 344499999999999999865
No 141
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=36.92 E-value=1.4e+02 Score=24.08 Aligned_cols=32 Identities=13% Similarity=0.096 Sum_probs=28.0
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+++.++|...++.|=...
T Consensus 10 ~~V~V~l-~dgr~~~G~L~~~D~~~NlvL~~~~ 41 (74)
T cd01727 10 KTVSVIT-VDGRVIVGTLKGFDQATNLILDDSH 41 (74)
T ss_pred CEEEEEE-CCCcEEEEEEEEEccccCEEccceE
Confidence 4788898 6999999999999999999887754
No 142
>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=36.14 E-value=1.6e+02 Score=28.46 Aligned_cols=81 Identities=12% Similarity=0.082 Sum_probs=47.7
Q ss_pred HHHHHhccCCCCEEEEEEEE---CCEE--EEEEEEeccCCCccccccCCCCCCceeeecEEEeeCChHHHHHHhCCCCcc
Q 036586 383 FSYLVSQKYTGDSAVVKVLR---NSEV--HEFNIKLSTHKRLIPAHINGRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEF 457 (568)
Q Consensus 383 l~~~l~~~~~g~~v~l~V~R---~g~~--~~v~v~l~~~~~~~~~~~~~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~ 457 (568)
+...+....+|+.+.+.|.+ .|+. .++.+++.+... ...| +...|+.+.+
T Consensus 65 ~~~~~~~~~~g~~lrl~V~G~~~~G~~~~k~v~lpl~~~~~-g~eR--------L~~~GL~l~~---------------- 119 (183)
T PF11874_consen 65 LVQVAEQLPPGSSLRLRVEGPDFEGDPVTKTVLLPLGDGAD-GEER--------LEAAGLTLME---------------- 119 (183)
T ss_pred HHHHHhcCCCCCEEEEEEEccCCCCCceEEEEEEEcCCCCC-HHHH--------HHhCCCEEEe----------------
Confidence 34556667789999999988 4554 445555543211 0011 1123444333
Q ss_pred CchhhhHHHHHhhhhccCCcceEEEEEEeccccccccccccCcEEEeeC
Q 036586 458 DAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYEEIVNTQVLALN 506 (568)
Q Consensus 458 ~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~~~~gd~I~~VN 506 (568)
.+..+.|..|..++.+...+.-.++.|++|-
T Consensus 120 ------------------e~~~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 120 ------------------EGGKVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred ------------------eCCEEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 1234789999888877666654677777763
No 143
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.23 E-value=90 Score=25.43 Aligned_cols=32 Identities=13% Similarity=0.354 Sum_probs=27.8
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .||+.+.+++.++|...+|.|=...
T Consensus 11 ~~v~V~l-~dgR~~~G~l~~~D~~~NivL~~~~ 42 (75)
T cd06168 11 RTMRIHM-TDGRTLVGVFLCTDRDCNIILGSAQ 42 (75)
T ss_pred CeEEEEE-cCCeEEEEEEEEEcCCCcEEecCcE
Confidence 5788999 6999999999999999999876554
No 144
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=35.09 E-value=84 Score=25.52 Aligned_cols=32 Identities=16% Similarity=0.139 Sum_probs=27.8
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|+.+.+.+.++|+..++.|=...
T Consensus 13 k~v~V~l-~~gr~~~G~L~~fD~~~NlvL~d~~ 44 (74)
T cd01728 13 KKVVVLL-RDGRKLIGILRSFDQFANLVLQDTV 44 (74)
T ss_pred CEEEEEE-cCCeEEEEEEEEECCcccEEecceE
Confidence 4788999 5999999999999999999886654
No 145
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=34.90 E-value=91 Score=24.16 Aligned_cols=33 Identities=18% Similarity=0.253 Sum_probs=28.3
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.|.+ .||+.+.+++.++|...++-|=....
T Consensus 9 ~~V~V~l-~~g~~~~G~L~~~D~~~NlvL~~~~e 41 (67)
T smart00651 9 KRVLVEL-KNGREYRGTLKGFDQFMNLVLEDVEE 41 (67)
T ss_pred cEEEEEE-CCCcEEEEEEEEECccccEEEccEEE
Confidence 4688999 59999999999999999998866643
No 146
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=34.67 E-value=1e+02 Score=23.83 Aligned_cols=35 Identities=20% Similarity=0.311 Sum_probs=30.1
Q ss_pred CCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccC
Q 036586 172 HTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDD 207 (568)
Q Consensus 172 ~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~ 207 (568)
...+.|.+ .+|..+.+++.++|...++.+-.+...
T Consensus 8 g~~V~V~l-~~g~~~~G~L~~~D~~~Nl~L~~~~~~ 42 (67)
T PF01423_consen 8 GKRVRVEL-KNGRTYRGTLVSFDQFMNLVLSDVTET 42 (67)
T ss_dssp TSEEEEEE-TTSEEEEEEEEEEETTEEEEEEEEEEE
T ss_pred CcEEEEEE-eCCEEEEEEEEEeechheEEeeeEEEE
Confidence 35789999 599999999999999999998877643
No 147
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=32.66 E-value=85 Score=25.59 Aligned_cols=33 Identities=21% Similarity=0.313 Sum_probs=29.0
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEecc
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVKD 206 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~ 206 (568)
..+.|.+ .+|+++.+++.++|...++.+--+..
T Consensus 18 ~~V~V~l-k~g~~~~G~L~~~D~~mNlvL~d~~e 50 (79)
T COG1958 18 KRVLVKL-KNGREYRGTLVGFDQYMNLVLDDVEE 50 (79)
T ss_pred CEEEEEE-CCCCEEEEEEEEEccceeEEEeceEE
Confidence 6789999 59999999999999999998876654
No 148
>COG0298 HypC Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=31.98 E-value=75 Score=26.31 Aligned_cols=46 Identities=22% Similarity=0.298 Sum_probs=31.8
Q ss_pred EEEEEEEEeCCCCeEEEEeccCccccCccceecCCCcccCCeEEE-Eec
Q 036586 186 YLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLPALQDAVTV-VGY 233 (568)
Q Consensus 186 ~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~~~g~~V~a-iG~ 233 (568)
+|++|+..|...++|++.+-+-. ..+.---+....++|++|++ +||
T Consensus 5 iPgqI~~I~~~~~~A~Vd~gGvk--reV~l~Lv~~~v~~GdyVLVHvGf 51 (82)
T COG0298 5 IPGQIVEIDDNNHLAIVDVGGVK--REVNLDLVGEEVKVGDYVLVHVGF 51 (82)
T ss_pred cccEEEEEeCCCceEEEEeccEe--EEEEeeeecCccccCCEEEEEeeE
Confidence 68899999998889999997643 12222223346789999875 443
No 149
>KOG0162 consensus Myosin class I heavy chain [Cytoskeleton]
Probab=30.78 E-value=3e+02 Score=32.18 Aligned_cols=17 Identities=12% Similarity=0.077 Sum_probs=11.5
Q ss_pred ccCccCCCCCCcCCCCC
Q 036586 27 MPGTTKNGTVASHSLPA 43 (568)
Q Consensus 27 ~~~~~~~~~~~~~~~~~ 43 (568)
.++.++||+.|++...+
T Consensus 958 ~~~~~~~~~~paA~~~p 974 (1106)
T KOG0162|consen 958 KQAYGQNGVSPAAKGSP 974 (1106)
T ss_pred cccccCCCCCccccCCC
Confidence 35788999986654433
No 150
>COG5640 Secreted trypsin-like serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=29.47 E-value=1.8e+02 Score=31.02 Aligned_cols=55 Identities=25% Similarity=0.324 Sum_probs=31.5
Q ss_pred EEEEeCCEEEEcccccCCCC-----eEEEEEc-CC---CcEEEEEEEEEe-------CCCCeEEEEeccCc
Q 036586 154 GFIVGGRRVLTNAHSVEHHT-----QVKVKKR-GS---DTKYLATVLSIG-------TECDIALLTVKDDE 208 (568)
Q Consensus 154 GfiI~~G~ILTn~HVV~~~~-----~i~V~~~-~d---g~~~~a~vv~~d-------~~~DlAlLkv~~~~ 208 (568)
|=++...||||+||++.+.. .+.|... +| ++...++-+..+ ...|+|+++.....
T Consensus 65 gs~l~~RYvLTAAHC~~~~s~is~d~~~vv~~l~d~Sq~~rg~vr~i~~~efY~~~n~~ND~Av~~l~~~a 135 (413)
T COG5640 65 GSKLGGRYVLTAAHCADASSPISSDVNRVVVDLNDSSQAERGHVRTIYVHEFYSPGNLGNDIAVLELARAA 135 (413)
T ss_pred cceecceEEeeehhhccCCCCccccceEEEecccccccccCcceEEEeeecccccccccCcceeecccccc
Confidence 34455559999999998543 2222221 12 223334444333 33599999998754
No 151
>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=29.46 E-value=65 Score=31.05 Aligned_cols=29 Identities=14% Similarity=0.081 Sum_probs=25.4
Q ss_pred CCceEEEEecCCCcccC-CCCCCCEEEEEC
Q 036586 335 QKGVRIRRIEPTAPESH-VLKPSDIILSFD 363 (568)
Q Consensus 335 ~~Gv~V~~V~p~spA~~-GL~~GDiIl~In 363 (568)
...+.|..|..+|||++ |+.-|+.|++|-
T Consensus 121 ~~~~~Vd~v~fgS~A~~~g~d~d~~I~~v~ 150 (183)
T PF11874_consen 121 GGKVIVDEVEFGSPAEKAGIDFDWEITEVE 150 (183)
T ss_pred CCEEEEEecCCCCHHHHcCCCCCcEEEEEE
Confidence 45688999999999999 999999998873
No 152
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=28.59 E-value=1.4e+02 Score=24.25 Aligned_cols=33 Identities=15% Similarity=0.152 Sum_probs=28.9
Q ss_pred CCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 172 HTQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 172 ~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
...+.|.+ .+|..+.+++.++|...++.+-.+.
T Consensus 11 g~~V~VeL-kng~~~~G~L~~~D~~mNi~L~~~~ 43 (76)
T cd01723 11 NHPMLVEL-KNGETYNGHLVNCDNWMNIHLREVI 43 (76)
T ss_pred CCEEEEEE-CCCCEEEEEEEEEcCCCceEEEeEE
Confidence 35789999 5999999999999999999987663
No 153
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=25.90 E-value=3.4e+02 Score=21.55 Aligned_cols=33 Identities=15% Similarity=0.172 Sum_probs=29.2
Q ss_pred CCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 172 HTQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 172 ~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
...+.|.+ .+|.+|.+++..+|...++.+-.+.
T Consensus 10 g~~V~VeL-k~g~~~~G~L~~~D~~MNl~L~~~~ 42 (70)
T cd01721 10 GHIVTVEL-KTGEVYRGKLIEAEDNMNCQLKDVT 42 (70)
T ss_pred CCEEEEEE-CCCcEEEEEEEEEcCCceeEEEEEE
Confidence 35788999 5999999999999999999998774
No 154
>PF03761 DUF316: Domain of unknown function (DUF316) ; InterPro: IPR005514 This is a family of uncharacterised proteins from Caenorhabditis elegans.
Probab=24.94 E-value=74 Score=32.26 Aligned_cols=81 Identities=26% Similarity=0.380 Sum_probs=51.2
Q ss_pred EEEEEEeCCEEEEcccccCCCC-e----------------------------EEEEE---cCC-----CcEEEEEEEEE-
Q 036586 152 SSGFIVGGRRVLTNAHSVEHHT-Q----------------------------VKVKK---RGS-----DTKYLATVLSI- 193 (568)
Q Consensus 152 GSGfiI~~G~ILTn~HVV~~~~-~----------------------------i~V~~---~~d-----g~~~~a~vv~~- 193 (568)
.+|++|++.||||++|++-... . +.|.. ... .....|.++..
T Consensus 71 ~~gtlIS~RHiLtss~~~~~~~~~W~~~~~~~~~~C~~~~~~l~vP~~~l~~~~v~~~~~~~~~~~~~~~v~ka~il~~C 150 (282)
T PF03761_consen 71 STGTLISPRHILTSSHCVMNDKSKWLNGEEFDNKKCEGNNNHLIVPEEVLSKIDVRCCNCFSNGKCFSIKVKKAYILNGC 150 (282)
T ss_pred cceEEeccCeEEEeeeEEEecccccccCcccccceeeCCCceEEeCHHHhccEEEEeecccccCCcccceeEEEEEEecC
Confidence 4999999999999999986211 1 11200 000 11123455433
Q ss_pred -------eCCCCeEEEEeccCccccCccceecCCCcc---cCCeEEEEec
Q 036586 194 -------GTECDIALLTVKDDEFWEGVSPVEFGDLPA---LQDAVTVVGY 233 (568)
Q Consensus 194 -------d~~~DlAlLkv~~~~~~~~l~~~~l~~~~~---~g~~V~aiG~ 233 (568)
....+++||.++.+ +.....|+-|+++.. .++.+.+.|+
T Consensus 151 ~~~~~~~~~~~~~mIlEl~~~-~~~~~~~~Cl~~~~~~~~~~~~~~~yg~ 199 (282)
T PF03761_consen 151 KKIKKNFNRPYSPMILELEED-FSKNVSPPCLADSSTNWEKGDEVDVYGF 199 (282)
T ss_pred CCcccccccccceEEEEEccc-ccccCCCEEeCCCccccccCceEEEeec
Confidence 24468999999877 334678888887542 3588889998
No 155
>KOG1738 consensus Membrane-associated guanylate kinase-interacting protein/connector enhancer of KSR-like [Nucleotide transport and metabolism]
Probab=23.82 E-value=68 Score=36.38 Aligned_cols=34 Identities=12% Similarity=0.104 Sum_probs=30.4
Q ss_pred eEEEEecCCCcccC--CCCCCCEEEEECCEEcCCCC
Q 036586 338 VRIRRIEPTAPESH--VLKPSDIILSFDGIDIANDG 371 (568)
Q Consensus 338 v~V~~V~p~spA~~--GL~~GDiIl~InG~~V~~~~ 371 (568)
.+|.++.+++||+. .|..||.|+.||++.|-.|.
T Consensus 227 h~~s~~~e~Spad~~~kI~dgdEv~qiN~qtvVgwq 262 (638)
T KOG1738|consen 227 HVTSKIFEQSPADYRQKILDGDEVLQINEQTVVGWQ 262 (638)
T ss_pred eeccccccCChHHHhhcccCccceeeecccccccch
Confidence 55678999999998 79999999999999988875
No 156
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=23.81 E-value=4.1e+02 Score=21.72 Aligned_cols=32 Identities=22% Similarity=0.239 Sum_probs=28.4
Q ss_pred CeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 173 TQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 173 ~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
..+.|.+ .+|..|.+++..+|...++-+-.+.
T Consensus 20 ~~V~VeL-Kng~~~~G~L~~vD~~MNl~L~~~~ 51 (78)
T cd01733 20 KVVTVEL-RNETTVTGRIASVDAFMNIRLAKVT 51 (78)
T ss_pred CEEEEEE-CCCCEEEEEEEEEcCCceeEEEEEE
Confidence 4688999 5999999999999999999887775
No 157
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=23.77 E-value=66 Score=23.53 Aligned_cols=15 Identities=33% Similarity=0.479 Sum_probs=13.7
Q ss_pred eeecccceEEEEEee
Q 036586 261 ELLGLQGKCVGIAFQ 275 (568)
Q Consensus 261 pL~n~~G~VVGI~~~ 275 (568)
|++|.+|+++|+.+.
T Consensus 34 ~V~d~~~~~~G~is~ 48 (57)
T PF00571_consen 34 PVVDEDGKLVGIISR 48 (57)
T ss_dssp EEESTTSBEEEEEEH
T ss_pred EEEecCCEEEEEEEH
Confidence 999999999999865
No 158
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=23.70 E-value=4.5e+02 Score=22.15 Aligned_cols=63 Identities=17% Similarity=0.180 Sum_probs=42.4
Q ss_pred CCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEeccCccccCccceecCCCcccCCeEEEEecCCCC
Q 036586 172 HTQVKVKKRGSDTKYLATVLSIGTECDIALLTVKDDEFWEGVSPVEFGDLPALQDAVTVVGYPIGG 237 (568)
Q Consensus 172 ~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~~~~~~~~l~~~~l~~~~~~g~~V~aiG~P~g~ 237 (568)
...+.|.+ .+|..|.+++..+|...++.+-.+.... ..-.+..++.---.|..|..+=-|-..
T Consensus 11 g~~V~VeL-Kng~~~~G~L~~vD~~MNl~L~~a~~~~--~~~~~~~~~~v~IRG~nI~yi~lPd~l 73 (90)
T cd01724 11 NETVTIEL-KNGTIVHGTITGVDPSMNTHLKNVKLTL--KGRNPVPLDTLSIRGNNIRYFILPDSL 73 (90)
T ss_pred CCEEEEEE-CCCCEEEEEEEEEcCceeEEEEEEEEEc--CCCceeEcceEEEeCCEEEEEEcCCcC
Confidence 35788999 5999999999999999999988774321 111233333222335667776666554
No 159
>PF02178 AT_hook: AT hook motif; InterPro: IPR017956 AT hooks are DNA-binding motifs with a preference for A/T rich regions. These motifs are found in a variety of proteins, including the high mobility group (HMG) proteins [], in DNA-binding proteins from plants [] and in hBRG1 protein, a central ATPase of the human switching/sucrose non-fermenting (SWI/SNF) remodeling complex []. High mobility group (HMG) proteins are a family of relatively low molecular weight non-histone components in chromatin []. HMG-I and HMG-Y (HMGA) are proteins of about 100 amino acid residues which are produced by the alternative splicing of a single gene. HMG-I/Y proteins bind preferentially to the minor groove of AT-rich regions in double-stranded DNA in a non-sequence specific manner [, ]. It is suggested that these proteins could function in nucleosome phasing and in the 3' end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to, AT-rich regions. ; GO: 0003677 DNA binding; PDB: 2EZE_A 2EZD_A 2EZF_A 2EZG_A.
Probab=23.11 E-value=39 Score=18.20 Aligned_cols=11 Identities=55% Similarity=0.718 Sum_probs=3.6
Q ss_pred cccCCCCCCCC
Q 036586 4 PRKRGRKPKPK 14 (568)
Q Consensus 4 ~~~~~~~~~~~ 14 (568)
+|+|||-+|-.
T Consensus 1 ~r~RGRP~k~~ 11 (13)
T PF02178_consen 1 KRKRGRPRKNA 11 (13)
T ss_dssp S--SS--TT--
T ss_pred CCcCCCCcccc
Confidence 47888877643
No 160
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000. Domains described by this model are found, so far, only in the Planctomycetes (Pirellula sp. strain 1 and Gemmata obscuriglobus), in up to six proteins per genome, and may be duplicated within a protein. The function is unknown.
Probab=23.01 E-value=1.7e+02 Score=24.03 Aligned_cols=49 Identities=20% Similarity=0.292 Sum_probs=32.2
Q ss_pred CCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCE----EEEEEEECCEEEEEEEE
Q 036586 355 PSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDS----AVVKVLRNSEVHEFNIK 412 (568)
Q Consensus 355 ~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~----v~l~V~R~g~~~~v~v~ 412 (568)
|-|-.+.+||++..+.+..+. ..-..+..|.. +..++.|||+....+-+
T Consensus 10 PadAkl~v~G~~t~~~G~~R~---------F~T~~L~~G~~y~Y~v~a~~~~dG~~~t~~~~ 62 (75)
T TIGR03000 10 PADAKLKVDGKETNGTGTVRT---------FTTPPLEAGKEYEYTVTAEYDRDGRILTRTRT 62 (75)
T ss_pred CCCCEEEECCeEcccCccEEE---------EECCCCCCCCEEEEEEEEEEecCCcEEEEEEE
Confidence 367788999999998776431 12233445653 66777899987655433
No 161
>KOG4371 consensus Membrane-associated protein tyrosine phosphatase PTP-BAS and related proteins, contain FERM domain [Signal transduction mechanisms]
Probab=22.45 E-value=2.2e+02 Score=34.45 Aligned_cols=208 Identities=14% Similarity=0.165 Sum_probs=0.0
Q ss_pred eEEEEEeeeecCCCCccccccccchhhhHhHHHhhhcCccccCceeeEEEEEcCCHHHHHhcCCCCCCCceEEEEecCCC
Q 036586 268 KCVGIAFQSLKNDDVENIGYVIPTPVIIHFIQDYEKNGAYTGFPILGVEWQKMENPDLRISMGMRPGQKGVRIRRIEPTA 347 (568)
Q Consensus 268 ~VVGI~~~~~~~~~~~~~~~aIP~~~i~~~l~~l~~~g~~~~~~~lGi~~~~~~~~~~~~~lgl~~~~~Gv~V~~V~p~s 347 (568)
++|=|+.........+++..-++++.+.+++.-...-.... ||++...+ ...+-+....-..
T Consensus 1119 ~~ini~~~~p~~~a~e~f~~d~~~de~p~~i~~~~~r~~~~----l~~~~a~~--------------~~~~~~~~~~~~~ 1180 (1332)
T KOG4371|consen 1119 RSINIIAEEPEEEAVESFDDDGQIDEGPRVIDVELDRNEGS----LGVQIASL--------------SGRVCIKQLTSEP 1180 (1332)
T ss_pred hhhhhcccccccccccccCCCCCcccCCccccccCCCCCCC----CCceeccC--------------ccceehhhcccCC
Q ss_pred cccC-CCCCCCEEEEECCEEcCCCCCCccccCccchHHHHHhccCCCCEEEEEEEE-CCEEEEEEEEeccCCCccccccC
Q 036586 348 PESH-VLKPSDIILSFDGIDIANDGTVPFRHGERIGFSYLVSQKYTGDSAVVKVLR-NSEVHEFNIKLSTHKRLIPAHIN 425 (568)
Q Consensus 348 pA~~-GL~~GDiIl~InG~~V~~~~dl~~~~~~~~~l~~~l~~~~~g~~v~l~V~R-~g~~~~v~v~l~~~~~~~~~~~~ 425 (568)
.-.. .|..||+++-+||..+..... ....-.....|+.+.|.|+| .-+..+...--.--..
T Consensus 1181 ~~~~pd~~~g~~l~~~n~i~~~~~~~----------~~~~~~~~~~~~~~~~~~~r~~~~~~d~~~~s~~~~~------- 1243 (1332)
T KOG4371|consen 1181 AISHPDIRVGDVLLYVNGIAVEGKVH----------QEVVAMLRGGGDRVVLGVQRPPPAYSDQHHASSTSAS------- 1243 (1332)
T ss_pred CCCCCCcchhhhhhhccceeeechhh----------HHHHHHHhccCceEEEEeecCCcccccchhhhhhccc-------
Q ss_pred CCCCCceeeecEEEeeCChHHHHHHhCCCCccCchhhhHHHHHhhhhccCCcceEEEEEEeccccccccc-cccCcEEEe
Q 036586 426 GRPPSYYIIAGFVFTAVTAPYLRSEYGKDYEFDAPVKLLDKLLHAMAQSVDEQIVVVSQVLVADINIGYE-EIVNTQVLA 504 (568)
Q Consensus 426 ~~~~~~~~~~Gl~~~~~~~~~v~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~gvvvs~V~~~~~~~g~~-~~~gd~I~~ 504 (568)
..++..-++..+.. -.++.+...+|- .+..+..+..++++...+ .+.||.+.+
T Consensus 1244 ----~~l~~~~~~~~p~~------~~~~~~~~~~~s----------------~~~~~~~~~~~~~a~~~~~~r~g~~~~~ 1297 (1332)
T KOG4371|consen 1244 ----APLISVMLLKKPMA------TLGLSLAKRTMS----------------DGIFIRNIAQDSAASSEGTLRVGDRLVS 1297 (1332)
T ss_pred ----chhhhheeeecccc------cccccccccCcC----------------Cceeeecccccccccccccccccceeec
Q ss_pred eCCEecC--CHHHHHHHHHccCCCeEEEEEEcCeE
Q 036586 505 LNGKPVQ--NLKSLADMVESSEDEFLKFDLEYQQI 537 (568)
Q Consensus 505 VNg~pV~--~l~~f~~~l~~~~~~~v~l~v~R~~~ 537 (568)
.+|+++. ......+.++ .--+++.+.+.|+++
T Consensus 1298 ~~~~~~~~~~p~~~l~~~~-~v~~p~~~~~~~~q~ 1331 (1332)
T KOG4371|consen 1298 LDGEPVDGFTPATILEKLK-LVQGPVQITVTREQT 1331 (1332)
T ss_pred cCCccCCCCChHHHHHHhh-hccCchhheehhhhc
No 162
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=20.66 E-value=2.2e+02 Score=23.41 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=29.0
Q ss_pred CCeEEEEEcCCCcEEEEEEEEEeCCCCeEEEEec
Q 036586 172 HTQVKVKKRGSDTKYLATVLSIGTECDIALLTVK 205 (568)
Q Consensus 172 ~~~i~V~~~~dg~~~~a~vv~~d~~~DlAlLkv~ 205 (568)
...+.|.+ .+|..+.+++..+|...++-+-.+.
T Consensus 11 g~~V~VeL-Kng~~~~G~L~~vD~~MNi~L~n~~ 43 (81)
T cd01725 11 GKEVTVEL-KNDLSIRGTLHSVDQYLNIKLTNIS 43 (81)
T ss_pred CCEEEEEE-CCCcEEEEEEEEECCCcccEEEEEE
Confidence 35789999 5999999999999999999988775
No 163
>PF05580 Peptidase_S55: SpoIVB peptidase S55; InterPro: IPR008763 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 S55 (SpoIVB peptidase family, clan PA(S)). The protein SpoIVB plays a key role in signalling in the final sigma-K checkpoint of Bacillus subtilis [, ].
Probab=20.47 E-value=1e+02 Score=30.51 Aligned_cols=34 Identities=18% Similarity=0.298 Sum_probs=26.2
Q ss_pred CCceeecccceEEEEEeeeecCCCCccccccccchhh
Q 036586 258 GSTELLGLQGKCVGIAFQSLKNDDVENIGYVIPTPVI 294 (568)
Q Consensus 258 ggspL~n~~G~VVGI~~~~~~~~~~~~~~~aIP~~~i 294 (568)
+|||++= +|++||=++..+. .....+|.++++..
T Consensus 182 SGSPI~q-dGKLiGAVthvf~--~dp~~Gygi~ie~M 215 (218)
T PF05580_consen 182 SGSPIIQ-DGKLIGAVTHVFV--NDPTKGYGIFIEWM 215 (218)
T ss_pred cCCCEEE-CCEEEEEEEEEEe--cCCCceeeecHHHH
Confidence 5779974 8999999888775 55677888887653
No 164
>KOG0606 consensus Microtubule-associated serine/threonine kinase and related proteins [Signal transduction mechanisms; General function prediction only]
Probab=20.19 E-value=1.5e+02 Score=36.20 Aligned_cols=53 Identities=17% Similarity=0.181 Sum_probs=38.0
Q ss_pred EEEEEeccccccccccccCcEEEeeCCEecCCHH--HHHHHHHccCCC-eEEEEEE
Q 036586 481 VVSQVLVADINIGYEEIVNTQVLALNGKPVQNLK--SLADMVESSEDE-FLKFDLE 533 (568)
Q Consensus 481 vvs~V~~~~~~~g~~~~~gd~I~~VNg~pV~~l~--~f~~~l~~~~~~-~v~l~v~ 533 (568)
.|-.|..++++.-.++..+|.|+.|||++|..+. ++.+++-+.-++ .++.+..
T Consensus 661 ~v~sv~egsPA~~agls~~DlIthvnge~v~gl~H~ev~~Lll~~gn~v~~~ttpl 716 (1205)
T KOG0606|consen 661 SVGSVEEGSPAFEAGLSAGDLITHVNGEPVHGLVHTEVMELLLKSGNKVTLRTTPL 716 (1205)
T ss_pred eeeeecCCCCccccCCCccceeEeccCcccchhhHHHHHHHHHhcCCeeEEEeecc
Confidence 4556667777766777799999999999999664 677887765444 3444333
No 165
>COG5583 Uncharacterized small protein [Function unknown]
Probab=20.01 E-value=2.7e+02 Score=21.16 Aligned_cols=32 Identities=6% Similarity=0.196 Sum_probs=26.7
Q ss_pred HHHHHHHHHccCCCeEEEEEEcCeEEEEeccc
Q 036586 513 LKSLADMVESSEDEFLKFDLEYQQIVVLKSKT 544 (568)
Q Consensus 513 l~~f~~~l~~~~~~~v~l~v~R~~~~~l~~~~ 544 (568)
++...++|+..+-+.|.|.+..+..+.+++.|
T Consensus 11 ~ekI~~~Le~lkyGsV~ItVhdgqViQIE~~E 42 (54)
T COG5583 11 IEKIKKALEGLKYGSVTITVHDGQVIQIEASE 42 (54)
T ss_pred HHHHHHHHhhcccceEEEEEECCEEEEEehhh
Confidence 56778888889989999999998888887654
Done!